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동일 단지/동/층에서 실거래 변동이 발생하여 소유주 재확인이 필요한 경우
해당 케이스는 시스템 자동 처리 대상이 아니며, 운영관리팀에서 수기 관리 방식으로 운영할 예정입니다. 운영 절차는 아래와 같습니다.
1)동일 층에서 실거래 변동이 발생한 경우, 매물 노출은 유지합니다. 2)해당 매물은 수기로 별도 관리합니다. 3)별도 관리 기간 동안, 운영관리팀에서 소유주 변경 여부를 주기적으로 확인합니다. 4)동일 호수에서 소유주 변경이 확인된 경우, 소유주 변경에 따른 후속 절차를 진행합니다.
아래 기준으로 신고자에게 제재가 부과된다:
이용 정지 규정에 따라 별도의 ‘1회 경고’ 단계는 적용하지 않습니다. 또한, 누적 횟수 1회는 허위 신고가 누적 3회 발생한 시점을 기준으로 합니다.
deoxyribonucleic




Deoxyribonucleic is an adjective that describes something related to deoxyribonucleic acid (DNA).
Break the word apart:
👉 Deoxyribonucleic literally means “nucleic acid containing deoxyribose sugar.”
The term exists mainly to distinguish DNA from RNA.
| Feature | DNA (deoxyribonucleic) | RNA (ribonucleic) | | ------------------- | ----------------------------- | -------------------------- | | Sugar | Deoxyribose | Ribose | | Oxygen at 2′ carbon | H (missing O) | OH | | Stability | More stable | Less stable | | Typical role | Long-term information storage | Short-term information use |
The missing oxygen in deoxyribose makes DNA chemically more stable, which is ideal for storing genetic information long-term.
A deoxyribonucleic acid molecule is built from:
Each repeating unit is a DNA nucleotide, and the sugar in every DNA nucleotide is deoxyribose—that’s why DNA is called deoxyribonucleic.
Using deoxyribonucleic highlights:
If DNA had ribose instead of deoxyribose, it would break down too easily to serve as the genetic archive of life.
Deoxyribonucleic refers to nucleic acids that contain deoxyribose sugar, characteristic of DNA.



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Deoxyribonucleic 是一个形容词,用来描述 DNA 的化学性质。
拆词理解:
👉 deoxyribonucleic = 含有脱氧核糖的核酸
这是为了区分 DNA 和 RNA:
| 项目 | DNA(脱氧核糖核) | RNA(核糖核) | | ---- | ---------- | -------- | | 糖 | 脱氧核糖 | 核糖 | | 2′ 位 | H | OH | | 稳定性 | 高 | 较低 | | 功能 | 长期储存遗传信息 | 短期传递信息 |
脱氧核糖少一个氧原子,使 DNA 更稳定、不易断裂。
DNA 的每个基本单位(核苷酸)都包含:
正因为糖是 脱氧核糖,这种核酸才叫 脱氧核糖核酸(DNA)。
“deoxyribonucleic”强调的是:
这是生命进化中非常关键的一点。
Deoxyribonucleic 指的是含有脱氧核糖的核酸,是 DNA 的核心化学特征。
如果你愿意,我可以把 ribonucleic vs deoxyribonucleic 做成一张 中英对照结构差异速查表,非常适合 Biology 10 / 11 考前复习。
karyotype




A karyotype is an organized picture of all the chromosomes in a cell, arranged in pairs, from largest to smallest, showing their number and structure.
In short:
Karyotype = a chromosome map of a cell
To create a karyotype, scientists:
Arrange them into pairs based on:
Size
A karyotype reveals:
For humans:
46 chromosomes
22 pairs of autosomes
| Type | Description | | ------------------- | ------------------------------------------- | | Autosomes | Chromosomes 1–22, same in males and females | | Sex chromosomes | X and Y, determine biological sex |
Examples:
Karyotypes are commonly used to detect numerical abnormalities, such as:
⚠️ Note: karyotypes detect large-scale changes, not small gene mutations.
| Term | What it shows | | ------------- | ----------------------------- | | Karyotype | Chromosome number & structure | | Genotype | Allele combinations of genes |
A karyotype is a visual display of an organism’s complete set of chromosomes, arranged by size and shape.




核型是把一个细胞中的全部染色体拍照后,按照大小、形态和着丝粒位置系统排列得到的图像。
一句话:
核型 = 染色体的“全家福”
制作步骤包括:
1)取正在分裂的细胞 2)将细胞固定在分裂中期 3)染色并拍照 4)按以下标准配对和排序:
核型可以显示:
人类正常核型:
46 条染色体
22 对常染色体
| 类型 | 含义 | | -------- | ----------- | | 常染色体 | 第 1–22 号染色体 | | 性染色体 | X、Y,决定生物性别 |
核型常用于检测染色体数目异常,例如:
⚠️ 核型只能看见大尺度异常,看不到基因层面的细小突变。
| 概念 | 内容 | | ------- | -------- | | 核型 | 染色体数量和结构 | | 基因型 | 等位基因组合 |
核型是按大小和形态排列的完整染色体图像,用于分析染色体数目和结构。
如果你愿意,我可以把 chromatin → chromosome → homologous → allele → karyotype 整理成一张 Biology 10/11 中英对照总复习图表,非常适合考前快速回顾。
allele



An allele is a different version of the same gene.
👉 Same gene, different versions.
Alleles are located at the same position (locus) on homologous chromosomes:
So, for each gene, most organisms have two alleles.
At the eye-color gene locus:
Possible allele combinations:
| Term | Meaning | | ------------- | ----------------------------------------- | | Genotype | The allele combination (BB, Bb, bb) | | Phenotype | The observable trait (brown or blue eyes) |
Alleles determine genotype; genotype influences phenotype.
In Bb:
| Term | Alleles | | ---------------- | -------------------------------- | | Homozygous | Two identical alleles (BB or bb) | | Heterozygous | Two different alleles (Bb) |
Alleles are the source of:
Small allele differences can lead to big trait differences.
An allele is one of two or more alternative forms of a gene found at the same locus on homologous chromosomes.



等位基因是指同一基因的不同版本。
👉 同一个基因,不同版本。
等位基因位于同源染色体的相同位置(基因位点,locus):
因此通常一个性状由 两个等位基因控制。
眼睛颜色基因:
基因型:
| 名称 | 含义 | | ------- | ---------------- | | 基因型 | 等位基因组合(BB、Bb、bb) | | 表现型 | 实际可观察到的性状 |
| 类型 | 等位基因 | | ------- | -------- | | 纯合子 | 两个相同等位基因 | | 杂合子 | 两个不同等位基因 |
等位基因是:
等位基因是位于同源染色体相同位置的同一基因的不同形式。
如果你愿意,我可以把 gene → allele → genotype → phenotype 整理成一张 Biology 10 高频概念关系图(中英双语),非常适合考前复习。
chromosome




A chromosome is a highly condensed structure of DNA and proteins found in the nucleus of eukaryotic cells. Chromosomes carry genes, which contain the instructions for building and maintaining an organism.
Simply: chromosome = tightly packed DNA that holds genes.
Chromosomes consist of:
DNA + histones together form chromatin. When chromatin coils up tightly (especially during cell division), it becomes a chromosome.
| Term | State | When you see it | | -------------- | ------------------ | --------------------------------- | | Chromatin | Loose, uncondensed | Interphase (normal cell activity) | | Chromosome | Tightly condensed | Mitosis / Meiosis |
👉 You usually see chromosomes only during cell division.
When a chromosome has been copied (after DNA replication), it looks like an “X” shape:
Each chromatid contains one complete DNA molecule.
Condensation helps:
Loose DNA would be impossible to divide correctly.
Each species has a fixed chromosome number.
Examples:
Humans: 46 chromosomes (23 pairs)
22 pairs of autosomes
This arrangement can be seen in a karyotype.
Correct chromosome behavior is essential for life.
A chromosome is a condensed DNA–protein structure that carries genes and ensures accurate DNA distribution during cell division.



染色体是存在于真核细胞细胞核中、由 DNA 高度压缩形成的结构, 它们携带基因,决定生物的性状和功能。
一句话:
染色体 = 高度压缩的 DNA 信息载体
染色体由:
组成。
DNA + 组蛋白 = 染色质 染色质高度凝缩后 → 染色体
| 名称 | 状态 | 出现时间 | | ------- | ---- | ------- | | 染色质 | 松散 | 间期 | | 染色体 | 高度压缩 | 有丝/减数分裂 |
👉 平时细胞里看到的是染色质,而不是染色体。
复制后的染色体通常呈 X 形,由:
两条姐妹染色单体
DNA 完全相同
着丝粒
连接两条染色单体
端粒
保护染色体末端
高度压缩可以:
不同物种染色体数目固定。
以人类为例:
46 条染色体(23 对)
22 对常染色体
这些排列方式称为 核型(karyotype)。
染色体是由 DNA 和蛋白质组成的高度压缩结构,负责储存和准确分配遗传信息。
如果你需要,我可以把 chromatin → chromosome → homologous → sister chromatids 做成一张 中英对照“遗传结构总览图”,非常适合 Biology 10 / 11 复习。
homologous



Homologous means similar in structure and corresponding in position, but not necessarily identical.
In biology, the term is most commonly used in “homologous chromosomes.”
Homologous chromosomes are a pair of chromosomes—one from the mother, one from the father—that:
Example:
👉 Same genes, possibly different alleles.
Homologous chromosomes are not identical.
| Term | Meaning | | -------------------------- | --------------------------------------------------------------- | | Homologous chromosomes | Same genes, may have different alleles | | Sister chromatids | Identical copies of the same chromosome (after DNA replication) |
This distinction is a common exam trap.
Homologous chromosomes are essential for meiosis:
During crossing over:
This explains why siblings are genetically similar but not identical.
Homologous chromosomes are a matching pair of chromosomes with the same genes in the same order, one inherited from each parent.



同源指的是: 结构相似、位置对应、功能相关,但不一定完全相同。
在生物学中,最常见的用法是 “同源染色体”。
同源染色体是一对染色体:
它们具有:
👉 基因相同,版本可能不同。
很多同学容易混淆:
| 概念 | 含义 | | ---------- | ------------- | | 同源染色体 | 基因相同,等位基因可能不同 | | 姐妹染色单体 | 完全相同的复制品 |
⚠️ 同源染色体 不是复制品。
这正是人类个体差异的来源之一。
同源染色体是指来自父母的一对染色体,基因位置相同但等位基因可能不同。
如果你愿意,我可以:
chromatin




Chromatin is the complex of DNA and proteins found in the nucleus of eukaryotic cells. Its job is to package long DNA molecules, protect them, and control which genes are active.
In simple terms: chromatin = DNA + proteins (mostly histones).
Human DNA is extremely long (≈2 meters per cell). Chromatin allows DNA to:
The fundamental repeating unit of chromatin is the nucleosome.
This structure shortens DNA and provides control points for gene regulation.
Chromatin becomes increasingly compact through levels:
👉 Chromatin is the loose form; 👉 Chromosomes are the fully condensed form.
Chromatin exists in two main states:
This is why you usually can’t see chromosomes unless a cell is dividing.
Chromatin is a DNA–protein complex in the nucleus that packages genetic material and regulates gene expression.



染色质是存在于真核细胞细胞核中的DNA 与蛋白质的复合体。
一句话:
染色质 = DNA + 蛋白质(主要是组蛋白)
它的功能是包装 DNA、保护 DNA、调控基因表达。
DNA 非常长,如果不包装:
染色质解决了以上所有问题。
染色质最基本的结构单位是 核小体(nucleosome):
这是 DNA 压缩和调控的关键结构。
DNA 的压缩是分层进行的:
👉 染色质:松散、工作状态 👉 染色体:高度压缩、分裂状态
这就是为什么平时看不到染色体。
染色质是由 DNA 和组蛋白组成的复合结构,既能压缩遗传物质,又能调控基因表达。
如果你需要,我可以:
nitrogenous bases




Nitrogenous bases are nitrogen-containing organic molecules that form one part of a nucleotide. They are the information-carrying component of DNA and RNA.
In every nucleotide:
They contain nitrogen (N) atoms in ring structures. Nitrogen allows these bases to:
This is essential for accurate DNA replication and RNA transcription.
Nitrogenous bases are divided by ring structure:
👉 Structure: two fused rings
👉 Structure: one ring
Memory trick:
PURe As Gold → Purines = A, G Pyrimidines are the rest
| Molecule | Bases used | | -------- | ---------- | | DNA | A, T, C, G | | RNA | A, U, C, G |
Key difference:
Uracil lacks a methyl group that thymine has, making RNA:
Nitrogenous bases pair by hydrogen bonds:
Hydrogen bonds:
This explains why:
Think:
Nitrogenous bases are nitrogen-containing molecules in nucleotides that store genetic information and pair specifically through hydrogen bonding.


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含氮碱基是含有氮元素的有机分子,是核苷酸的三大组成部分之一。
在核苷酸中:
因为它们的环状结构中含有 氮原子(N),这使它们能够:
这是 DNA 能稳定复制的关键原因。
根据环的数量分类:
👉 特点:两个相连的环
👉 特点:一个环
| 分子 | 含氮碱基 | | ------- | ------- | | DNA | A、T、C、G | | RNA | A、U、C、G |
关键点:
尿嘧啶比胸腺嘧啶少一个 甲基(–CH₃),因此 RNA 更不稳定,适合“临时使用”。
含氮碱基通过 氢键配对:
氢键数量:
这就是:
形象理解:
含氮碱基是核苷酸中负责储存遗传信息的含氮分子,通过氢键进行特异性互补配对。
如果你愿意,我可以:
nucleotide




A nucleotide is the basic building block (monomer) of nucleic acids:
If DNA or RNA is a long chain, then nucleotides are the individual units that repeat to form that chain—similar to letters forming words.
Every nucleotide has three components, clearly shown in the images above:
Phosphate group
Usually drawn as a circle or “P”
Gives DNA/RNA an overall negative charge
Sugar (5-carbon sugar)
Drawn as a pentagon
RNA uses ribose (has an extra –OH group)
Nitrogenous base
Drawn as a rectangle or hexagon
Types:
A (adenine)
From the backbone diagrams:
The chain always has direction:
5′ end → 3′ end
The bases stick outward, while the sugar + phosphate form the strong backbone.
From the images comparing DNA and RNA:
| Feature | DNA | RNA | | ----------------- | --------------- | --------------- | | Sugar | Deoxyribose | Ribose | | Base unique to it | Thymine (T) | Uracil (U) | | Typical structure | Double-stranded | Single-stranded |
The order of bases along the nucleotide chain stores information:
Complementary pairing:
This is why DNA can be copied accurately.
A nucleotide is a molecule made of a phosphate group, a five-carbon sugar, and a nitrogenous base, and it is the fundamental unit of DNA and RNA.
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核苷酸是构成DNA 和 RNA 的最基本单位。 DNA / RNA 就是由大量重复的核苷酸首尾相连形成的长链。
可以理解为:
从图片可以清楚看到,每个核苷酸都包含:
1)磷酸基
2)五碳糖
3)含氮碱基
从“骨架”示意图可以看到:
因此 DNA/RNA 有明确方向:
碱基朝外排列,骨架在内侧。
| 项目 | DNA | RNA | | ---- | ------- | ------ | | 糖 | 脱氧核糖 | 核糖 | | 特有碱基 | T(胸腺嘧啶) | U(尿嘧啶) | | 结构 | 双链 | 单链 |
互补配对:
这保证了复制和转录的准确性。
核苷酸是由磷酸、五碳糖和含氮碱基组成的分子,是 DNA 和 RNA 的基本结构单位。
如果你需要,我可以:
nuclei



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Nuclei is the plural of nucleus. A nucleus is a membrane-bound structure in eukaryotic cells that contains most of the cell’s DNA and controls cell activities.
👉 Nuclei = more than one nucleus
Each nucleus:
That’s why the nucleus is often called the cell’s control center.
Some cells naturally have more than one nucleus:
In these cases, multiple nuclei help meet high metabolic or functional demands.
Mitosis:
Nuclear envelope breaks down
So after mitosis, a cell briefly has two nuclei before splitting.
| Term | Meaning | | ------------- | ---------------------------------------------- | | Nucleus | One DNA-containing control center | | Nuclei | Plural of nucleus | | Nucleolus | Structure inside the nucleus (makes ribosomes) |
Nuclei 是 nucleus(细胞核) 的复数形式。 细胞核是真核细胞中被膜包裹、储存 DNA 的结构。
👉 Nuclei = 多个细胞核
每个细胞核:
因此细胞核常被称为“细胞的控制中心”。
一些细胞天然多核:
多核结构可以支持高能量或高蛋白合成需求。
有丝分裂:
核膜消失
| 词汇 | 含义 | | ------------- | ------- | | Nucleus | 一个细胞核 | | Nuclei | 多个细胞核 | | Nucleolus | 细胞核内部结构 |
如果你愿意,我可以继续帮你: ✔️ 对比 nucleus vs nucleolus ✔️ 解释 多核细胞为什么不分裂 ✔️ 出 Biology 10/11 高频判断题
complementary bases



Complementary bases are pairs of bases in DNA or RNA that match specifically because their shapes and hydrogen-bonding patterns fit together. This precise matching lets cells store and copy genetic information accurately.
Example: If one DNA strand is A–C–G–T, the complementary strand is T–G–C–A.
Hydrogen bonds:
A–T (or A–U) form 2 hydrogen bonds


互补碱基是指 DNA 或 RNA 中的碱基按照固定规则成对结合,因为它们的空间结构和氢键分布刚好匹配,从而保证遗传信息稳定、准确地复制与表达。
例子: 一条 DNA 链为 A–C–G–T,其互补链为 T–G–C–A。
氢键数量:
A–T / A–U:2 条
如果你需要,我可以把这些内容整理成双语闪卡(Q/A/解释)或做一个交互式 HTML 图示,方便教学或复习。
meiosis


Meiosis is a special type of cell division that produces gametes (sex cells) with half the number of chromosomes of the parent cell. It is essential for sexual reproduction and genetic diversity.
👉 Meiosis = making sex cells with half the chromosomes
Meiosis:
Human example:
DNA is copied once (during interphase), but the cell divides twice:
Meiosis I reduces the chromosome number by half.
Major events:
Prophase I:
Homologous chromosomes pair (synapsis)
Metaphase I:
Homologous pairs line up at the equator
Anaphase I:
Homologous chromosomes separate
Telophase I:
Two haploid cells form (chromosomes still duplicated)
Meiosis II separates sister chromatids.
Result:
Meiosis creates variation through:
This is why siblings are genetically unique.
| Feature | Meiosis | Mitosis | | ----------------- | ------------------- | --------------- | | Divisions | 2 | 1 | | Daughter cells | 4 | 2 | | Chromosome number | Half (n) | Same (2n) | | Genetic makeup | Different | Identical | | Purpose | Sexual reproduction | Growth & repair |
减数分裂是一种形成性细胞(精子和卵子)的细胞分裂方式,其结果是染色体数目减半。
👉 减数分裂 = 产生单倍体性细胞
减数分裂的作用:
人类例子:
减数分裂 I 的主要特点是同源染色体分离。
关键过程:
过程类似于有丝分裂:
| 项目 | 减数分裂 | 有丝分裂 | | ---- | ---- | ----- | | 分裂次数 | 2 | 1 | | 子细胞数 | 4 | 2 | | 染色体数 | 减半 | 不变 | | 遗传信息 | 不同 | 相同 | | 作用 | 生殖 | 生长、修复 |
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sperm


Sperm is the male gamete (sex cell) used in sexual reproduction. Its role is to deliver male genetic information to the egg during fertilization.
In simple terms: 👉 Sperm = male sex cell that carries DNA to the egg
Example (humans):
A sperm cell has three main parts, each with a specific function:
Head
Contains the nucleus (DNA)
Midpiece
Packed with mitochondria
Tail (flagellum)
Enables the sperm to swim toward the egg
This streamlined shape is adapted for speed and mobility.
Sperm are produced in the testes through spermatogenesis:
During fertilization:
Only one sperm normally fertilizes the egg.
Sperm:
精子是用于有性生殖的雄性配子。 它的主要作用是将父方的遗传信息传递给卵细胞。
一句话: 👉 精子 = 携带遗传信息的雄性性细胞
人类例子:
精子主要由三部分组成:
头部
含细胞核(DNA)
中段
富含线粒体
尾部
帮助精子游动
精子在睾丸中通过精子发生(减数分裂)产生:
受精过程:
精子:
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diploid




Diploid describes a cell that contains two complete sets of chromosomes, written as 2n—one set inherited from each parent.
In simple terms: 👉 Diploid = two sets of chromosomes
Example (humans):
In most animals and plants:
Having two sets of chromosomes means:
Typical sexual life cycle:
二倍体指的是:细胞中含有两整套染色体,用 2n 表示,其中一套来自父方,一套来自母方。
一句话: 👉 二倍体 = 含两套染色体的细胞
人类例子:
⚠️ 精子和卵子是单倍体,不是二倍体。
两套染色体的意义:
有性生殖的典型过程:
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haploid




Haploid describes a cell that contains one complete set of chromosomes, written as n.
In simple terms: 👉 Haploid = one set of chromosomes
Example (humans):
In most animals and plants:
Gametes (sex cells) are haploid
Sperm
All other body cells (somatic cells) are diploid.
Haploid cells are produced by meiosis:
This reduction is essential for sexual reproduction.
During fertilization:
This restores the full chromosome number in the new organism.
Haploid cells:
Without haploid cells, species could not maintain a stable genome.
单倍体指的是:细胞中只有一整套染色体,用 n 表示。
一句话: 👉 单倍体 = 只有一套染色体
人类例子:
通常只有配子是单倍体:
身体的其他细胞(体细胞)都是二倍体。
单倍体细胞通过减数分裂形成:
在受精过程中:
单倍体细胞:
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gamete



A gamete is a sex cell used in sexual reproduction. Gametes carry half the normal number of chromosomes and combine during fertilization to form a zygote.
In simple terms: 👉 Gamete = a sex cell with half the chromosomes
There are two main types:
Key differences:
Gametes are haploid (n):
Example (humans):
During fertilization:
This restores the full chromosome number and creates a genetically unique individual.
Gametes:
Without gametes, complex sexual reproduction would not be possible.
| Term | Description | Chromosomes | | ---------------- | -------------------- | ------------ | | Gamete | Sex cell (sperm/egg) | Haploid (n) | | Zygote | Fertilized egg | Diploid (2n) | | Somatic cell | Body cell | Diploid (2n) |
配子是用于有性生殖的性细胞。 它只含有一半的染色体数目,在受精时与另一配子结合形成合子。
一句话: 👉 配子 = 含一半染色体的性细胞
主要有两种配子:
特点对比:
配子是单倍体(n):
人类例子:
在受精过程中:
这是新生命的起点。
配子:
| 概念 | 含义 | 染色体 | | ------- | ---- | --- | | 配子 | 性细胞 | 单倍体 | | 合子 | 受精卵 | 二倍体 | | 体细胞 | 普通细胞 | 二倍体 |
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zygote



A zygote is the single cell formed when a sperm cell fuses with an egg cell during fertilization.
In simple terms: 👉 Zygote = the very first cell of a new organism
Example (humans):
The zygote:
Every cell in the organism develops from this one cell through mitosis.
After fertilization, the zygote:
At this stage:
| Term | Meaning | | ---------- | ----------------------------------- | | Gamete | Sex cell (sperm or egg), haploid | | Zygote | Fertilized egg, diploid | | Embryo | Multicellular stage after divisions |
合子是精子与卵细胞结合后形成的第一个细胞,标志着一个新生命的开始。
一句话: 👉 合子 = 新个体的第一个细胞
人类例子:
合子:
所有体细胞都来源于合子的有丝分裂。
合子形成后会:
早期阶段:
| 概念 | 含义 | | ------ | ------------ | | 配子 | 精子 / 卵子(单倍体) | | 合子 | 受精卵(二倍体) | | 胚胎 | 多细胞阶段 |
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Crossing over



Crossing over is the exchange of DNA segments between homologous chromosomes during prophase I of meiosis.
In simple terms: 👉 Crossing over = swapping DNA between matching chromosomes
This process creates new combinations of genes, increasing genetic variation.
The visible crossover points are called chiasmata (singular: chiasma).
⚠️ Only non-sister chromatids exchange DNA—not sister chromatids.
Crossing over:
Without crossing over:
Both contribute to genetic diversity, but in different ways.
Correct statement: ✔️ Crossing over occurs between non-sister chromatids of homologous chromosomes during prophase I.
交叉互换是指在减数分裂 I 的前期(Prophase I), 同源染色体之间交换 DNA 片段的过程。
一句话: 👉 交叉互换 = 同源染色体之间“交换基因片段”
⚠️ 发生交换的是非姐妹染色单体,不是姐妹染色单体。
交叉互换可以:
二者都是遗传多样性的来源。
❌ 发生在有丝分裂 ❌ 发生在减数分裂 II ❌ 姐妹染色单体之间交换
✔️ 正确表述: 交叉互换发生在减数分裂 I 前期的同源染色体非姐妹染色单体之间
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Homologous




Homologous means corresponding or matching in structure and function because of shared origin.
In genetics, it most commonly refers to homologous chromosomes:
In simple terms: 👉 Homologous = same type, same genes, different versions possible
A pair of homologous chromosomes:
Example:
They are homologous because they control the same trait, even if the versions differ.
| Feature | Homologous Chromosomes | Sister Chromatids | | --------------- | -------------------------------------- | ----------------------------- | | Origin | One from each parent | Copies of the same chromosome | | Genetic content | Same genes, possibly different alleles | Identical DNA | | When paired | Meiosis I | After DNA replication | | Separate during | Meiosis I | Mitosis & Meiosis II |
👉 Homologous ≠ identical
Homologous chromosomes are crucial in meiosis I:
This process:
Outside genetics, homologous can also mean:
Examples:
They look different but come from the same ancestral structure.
homologous 的意思是: 👉 来源相同、结构和功能相对应
在遗传学中,最常见的是同源染色体:
一句话: 👉 同源 = 基因位置相同,但版本可能不同
一对同源染色体具有:
例子:
| 对比 | 同源染色体 | 姐妹染色单体 | | -------- | ------ | -------------- | | 来源 | 父母各一条 | 同一条染色体复制 | | DNA 是否相同 | 不一定 | 完全相同 | | 出现阶段 | 减数分裂 I | 复制后 | | 分离阶段 | 减数分裂 I | 有丝分裂 / 减数分裂 II |
⚠️ 同源 ≠ 相同
在减数分裂 I中:
这是遗传多样性的关键来源。
在进化生物学中,homologous 还指:
例子:
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meiosis


Meiosis is a special type of cell division that produces gametes (sex cells) with half the number of chromosomes of the parent cell.
In simple terms: 👉 Meiosis = making sex cells with half the chromosomes
Meiosis is essential because:
Example (humans):
Meiosis has two rounds of division, but DNA is copied only once (before meiosis begins).
This division reduces chromosome number.
Crossing over occurs
Exchange of DNA between homologous chromosomes
Result after Meiosis I:
This division separates sister chromatids.
Result after Meiosis II:
Meiosis creates variation through:
This is why siblings (except identical twins) are genetically unique.
| Feature | Meiosis | Mitosis | | ----------------- | ------------------- | --------------- | | Divisions | 2 | 1 | | Daughter cells | 4 | 2 | | Chromosome number | Half | Same | | Genetic makeup | Different | Identical | | Purpose | Sexual reproduction | Growth & repair |
减数分裂是一种形成性细胞(精子和卵细胞)的细胞分裂方式,其结果是染色体数量减半。
一句话: 👉 减数分裂 = 产生染色体数量减半的性细胞
减数分裂的作用包括:
人类例子:
减数分裂包含:
DNA 只复制一次,但细胞分裂两次。
这是最重要的一次分裂。
主要特点:
过程类似于有丝分裂。
主要特点:
这是后代差异的根本原因。
| 项目 | 减数分裂 | 有丝分裂 | | ---- | ---- | ----- | | 分裂次数 | 2 | 1 | | 子细胞数 | 4 | 2 | | 染色体数 | 减半 | 不变 | | 遗传信息 | 不同 | 相同 | | 作用 | 生殖 | 生长、修复 |
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chromosomes



Chromosomes are structures made of DNA and proteins that carry genes. They package long DNA molecules so genetic information can be stored, copied, and distributed accurately during cell division.
In simple terms: 👉 Chromosomes = organized DNA packages that carry genes
Each chromosome consists of:
DNA wraps around histones to form chromatin. When a cell is dividing, chromatin condenses into visible chromosomes.
Chromatin:
Long, thin, uncoiled DNA
Chromosome:
Short, thick, condensed DNA
They are the same material, just in different forms.
After DNA replication (S phase), one chromosome has:
During anaphase, sister chromatids separate and become individual chromosomes.
Each species has a characteristic chromosome number.
Examples:
In humans:
Chromosomes:
染色体是由 DNA 和蛋白质组成的结构,负责携带基因。
一句话: 👉 染色体 = DNA 的“打包形式”,用于携带遗传信息
染色体由以下成分构成:
DNA 缠绕蛋白质形成染色质,在细胞分裂时进一步压缩成染色体。
染色质:
松散、细长
染色体:
浓缩、短粗
本质相同,只是状态不同。
DNA 复制后,一条染色体包括:
在后期,姐妹染色单体分离,成为独立染色体。
不同物种的染色体数量不同。
例子:
人类中:
染色体可以:
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cytokinesis




Cytokinesis is the final step of cell division in which the cytoplasm splits, producing two separate daughter cells.
In simple terms: 👉 Cytokinesis = the cell actually splits into two
It usually overlaps with or follows telophase of mitosis.
⚠️ Mitosis divides the nucleus; cytokinesis divides the cell body.
In animal cells, cytokinesis occurs by cleavage:
This process is fast and flexible because animal cells do not have cell walls.
In plant cells, cytokinesis is different because of the rigid cell wall:
| Feature | Animal Cells | Plant Cells | | ---------------- | --------------- | -------------------- | | Method | Cleavage furrow | Cell plate formation | | Cell wall | ❌ No | ✅ Yes | | Structure formed | Furrow | New cell wall |
Cytokinesis ensures:
If cytokinesis fails:
细胞质分裂是细胞分裂的最后一步,指的是细胞质被分开,形成两个独立的子细胞。
一句话: 👉 细胞质分裂 = 细胞真正分成两个
它通常发生在有丝分裂末期(末期)期间或之后。
⚠️ 有丝分裂分的是“核”,细胞质分裂分的是“细胞本身”。
动物细胞通过细胞膜内陷完成分裂:
由于植物细胞有细胞壁,方式不同:
| 对比项 | 动物细胞 | 植物细胞 | | ---- | ---- | ---- | | 分裂方式 | 分裂沟 | 细胞板 | | 细胞壁 | 无 | 有 | | 结果结构 | 膜内陷 | 新细胞壁 |
细胞质分裂可以:
如果细胞质分裂失败:
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mitosis




Mitosis is the process by which a cell divides its nucleus to produce two genetically identical daughter cells. It is used for growth, tissue repair, and asexual reproduction.
In simple terms: 👉 Mitosis = making two identical cells
⚠️ DNA is not copied during mitosis—it was copied earlier in S phase.
Mitosis is remembered as PMAT:
Cytokinesis divides the cytoplasm:
Result: two separate cells
Mitosis allows organisms to:
| Feature | Mitosis | Meiosis | | ------------------- | --------------- | --------- | | Number of divisions | 1 | 2 | | Daughter cells | 2 | 4 | | Genetic makeup | Identical | Different | | Purpose | Growth & repair | Gametes |
有丝分裂是细胞进行细胞核分裂的过程,最终形成 两个遗传信息完全相同的子细胞。
一句话: 👉 有丝分裂 = 产生两个完全相同的细胞
⚠️ DNA 复制发生在间期 S 期,不是有丝分裂中。
记忆口诀:PMAT
最终形成两个独立细胞。
有丝分裂使生物能够:
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interphase




Interphase is the longest stage of the cell cycle, when a cell is not dividing but is actively growing, copying DNA, and preparing for division.
In simple terms: 👉 Interphase = preparation time before cell division
Interphase has three sub-phases:
| Feature | Interphase | Mitosis | | -------------------- | ---------------- | -------------- | | Purpose | Prepare | Divide nucleus | | DNA | Copied (S phase) | Separated | | Length | Longest | Short | | Chromosomes visible? | ❌ No | ✅ Yes |
⚠️ Interphase is part of the cell cycle but NOT part of mitosis
Interphase ensures:
If interphase is rushed or errors aren’t fixed, it can lead to:
间期是细胞周期中时间最长的阶段。 在这个阶段,细胞不进行分裂,而是在生长、复制 DNA,并为分裂做准备。
一句话: 👉 间期 = 细胞分裂前的准备阶段
间期分为三部分:
| 对比项 | 间期 | 有丝分裂 | | ----- | -- | ---- | | 作用 | 准备 | 核分裂 | | DNA | 复制 | 分离 | | 时间 | 最长 | 较短 | | 染色体可见 | 否 | 是 |
⚠️ 间期属于细胞周期,但不属于有丝分裂
间期可以:
如果间期出错,可能导致:
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eukaryotic




Eukaryotic describes cells or organisms whose cells have a true nucleus and membrane-bound organelles.
In simple terms: 👉 Eukaryotic = cells with a nucleus
Eukaryotic cells are characterized by:
Nucleus
DNA is enclosed inside a nuclear membrane
Membrane-bound organelles, such as:
Mitochondria (energy production)
All of the following are eukaryotic:
Examples:
They can be:
| Feature | Eukaryotic | Prokaryotic | | ---------- | --------------- | ----------- | | Nucleus | ✅ Present | ❌ Absent | | Organelles | ✅ Present | ❌ Absent | | Cell size | Larger | Smaller | | Complexity | High | Simple | | Examples | Animals, plants | Bacteria |
Eukaryotic organization allows:
Without eukaryotic cells, complex life forms (like humans) would not exist.
真核的指的是:细胞内具有真正细胞核,并且有膜包裹的细胞器。
一句话: 👉 真核 = 有细胞核的细胞
真核细胞具有以下特点:
细胞核
DNA 被核膜包裹
膜性细胞器,如:
线粒体(能量产生)
以下生物全部是真核生物:
它们可以是:
| 项目 | 真核 | 原核 | | ---- | ----- | -- | | 细胞核 | 有 | 无 | | 细胞器 | 有 | 无 | | 复杂程度 | 高 | 低 | | 例子 | 人类、植物 | 细菌 |
真核细胞的结构使得:
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reinforcement




Reinforcement is anything that increases the likelihood that a behavior will happen again in the future.
In simple terms: 👉 Reinforcement = making a behavior more likely to repeat
It is a key concept in learning, psychology, education, and animal training.
Reinforcement is not the same as punishment.
You add a pleasant stimulus after a behavior.
Example:
Student studies → gets praise
➡️ Behavior increases because something good is added.
You remove an unpleasant stimulus after a behavior.
Example:
Buckling a seatbelt → alarm stops
➡️ Behavior increases because something bad is removed.
⚠️ Negative reinforcement ≠ punishment
Examples:
Teachers use reinforcement to:
Examples:
Over time, reinforcement helps behaviors become habits.
Behaviors that:
are naturally reinforced through natural selection.
Example:
Reinforcement doesn’t always happen every time.
Common schedules:
Example:
Reinforcement:
强化是指:让某种行为在将来更容易再次发生的过程。
一句话: 👉 强化 = 增加某种行为再次出现的概率
这是心理学和学习理论中的核心概念。
强化分为两种:
在行为之后给予奖励。
例子:
学习认真 → 得到表扬
➡️ 因为“有好处”,行为更可能重复。
在行为之后移除不愉快刺激。
例子:
系安全带 → 警报声消失
➡️ 因为“不舒服的东西没了”,行为更可能重复。
⚠️ 负强化不是惩罚
老师常用强化来:
常见方式:
在自然界中:
这是一种自然强化机制,与自然选择相关。
强化帮助我们理解:
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perspectives



Perspectives are the ways people see, understand, or interpret a situation, issue, or event. They are shaped by a person’s background, experiences, knowledge, culture, values, and goals.
In simple terms: 👉 Perspectives = how different people see the same thing differently
People can have different perspectives because of:
🔹 Example: A new school policy may look helpful to teachers but stressful to students.
A perspective often influences many opinions, not just one.
In literature, perspective often refers to:
🔹 Example: The same event feels different when told by a child versus an adult.
Understanding multiple perspectives helps people:
Example:
All are valid perspectives, but they emphasize different concerns.
Ignoring perspectives can result in bias or unfair conclusions.
Perspectives 指的是人们看待、理解和解释事物的方式。 它受到个人的经历、文化、教育、价值观和身份角色影响。
一句话: 👉 视角 = 看问题的角度
不同的人之所以有不同视角,是因为:
🔹 例子: 考试制度在老师、学生和家长眼中,意义可能完全不同。
视角往往决定一个人会形成什么观点。
在文学作品中,视角通常指:
不同视角会影响读者对人物和事件的理解。
考虑不同视角有助于:
例子:
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claims
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A claim is a statement that asserts something is true. It is an idea or position that needs support—it is not automatically a fact.
In simple terms: 👉 Claim = what you say is true
Claim: a statement that can be supported or challenged
Regular exercise improves concentration.
Fact: something proven and verifiable
Water freezes at 0°C (at standard pressure).
Opinion: a personal belief or preference
Exercise is fun.
A strong claim is clear, specific, and debatable.
In essays, debates, and exams, a claim is usually:
This structure is often called CER:
Common categories include:
Claim of fact – says something is or isn’t true
Climate change is accelerating.
Claim of value – judges worth or quality
School uniforms are beneficial.
Claim of policy – suggests an action
Schools should start later.
In science, a claim:
Example:
A strong claim is:
Weak claim:
Claim 指的是:一个认为某事为真的陈述。 它不是自动成立的事实,而是需要证据支持的观点。
一句话: 👉 Claim = 你提出“是真的”的观点
例子:
在论文和讨论中,claim 通常是:
常见结构: CER = Claim + Evidence + Reasoning
在科学中,claim:
好的主张应该:
如果你需要,我可以继续帮你做 ✔️ CER 写作模板 ✔️ Claim vs Evidence 对比练习 ✔️ Biology / Science 论证题示例
Punnett square




A Punnett square is a diagram used to predict the possible genetic outcomes of a cross between two parents.
It shows:
In simple terms: 👉 Punnett square = a tool to predict inherited traits
Punnett squares help us:
They are widely used in Biology 9–11 and genetics problems.
A monohybrid cross looks at one trait.
Let A = dominant, a = recessive Both parents are heterozygous (Aa)
Steps:
Results:
Genotype ratio: 1 AA : 2 Aa : 1 aa
Phenotype ratio: 3 dominant : 1 recessive
A dihybrid cross tracks two traits at once.
Example traits:
This is more advanced but follows the same logic.
Punnett squares show likelihood, not certainty.
Example:
Each offspring is an independent event, like flipping a coin.
潘尼特方格是一种用来预测父母杂交后代遗传结果的表格图示。
它可以显示:
一句话: 👉 潘尼特方格 = 预测遗传性状的工具
潘尼特方格可以帮助我们:
是中学遗传学的核心工具。
单因子杂交只研究一个性状。
A = 显性 a = 隐性 父母都是 Aa
步骤:
结果:
基因型比例: 1 AA : 2 Aa : 1 aa
表现型比例: 3 显性 : 1 隐性
双因子杂交研究两个性状:
潘尼特方格显示的是概率,不是保证。
即使概率是 25%, 也不代表四个孩子一定有一个是这种性状。
如果你愿意,我可以下一步帮你做: ✔️ Biology 10 常考题逐步演示 ✔️ 单因子 vs 双因子对照表 ✔️ 可打印 / 可交互的 Punnett square 模板
inherited traits




Inherited traits are characteristics passed from parents to offspring through genes. They are encoded in DNA and inherited at conception.
In simple terms: 👉 Inherited traits = traits you are born with because of your genes
The combination of alleles you receive determines how a trait is expressed.
Common inherited traits include:
These traits are present from birth, even if they become noticeable later.
Some traits follow dominant–recessive inheritance:
Example:
Examples:
Not all inherited traits follow simple dominant–recessive rules.
Some traits are:
So genes set the potential, not always the exact outcome.
Inherited traits:
遗传性状是指通过基因从父母传给子女的特征。 这些特征由 DNA 控制,在受精时就已经确定。
一句话: 👉 遗传性状 = 天生的、来自基因的特征
等位基因的组合决定性状表现。
这些性状在出生时就已经存在。
例子:
例子:
很多性状是:
基因决定的是可能性范围,不是绝对结果。
遗传性状:
如果你需要,我可以继续帮你整理 ✔️ Biology 10 遗传章节速记卡 ✔️ 显性 / 隐性 / 多基因对照表 ✔️ 双语闪卡 + 练习题
ethical




Ethical describes actions, decisions, or standards that are morally right, fair, and responsible according to accepted principles of right and wrong.
In simple terms: 👉 Ethical = doing what is right, not just what is legal or convenient
Example:
Ethical actions usually involve:
When deciding if something is ethical, people often ask:
Ethics is crucial when decisions affect others’ lives.
Examples:
Something can be:
ethical 指的是:行为、决定或规则符合道德原则,是公平、负责、尊重他人的。
一句话: 👉 伦理的 = 做正确的事,而不只是合法的事
例子:
通常包括:
判断是否符合伦理时,常问:
伦理在涉及生命和权利时尤为重要。
例子:
如果你需要,我可以继续帮你做 ✔️ ethics vs morals vs law 对照表 ✔️ Biology / Science 10 常考伦理案例 ✔️ 双语闪卡(定义+情境判断)
gene



A gene is a specific segment of DNA that contains the instructions to make a functional product—usually a protein, or sometimes a functional RNA.
In simple terms: 👉 Gene = a DNA recipe for making something useful
Example:
Genes provide instructions for:
Proteins then:
Genes don’t act directly. They are expressed in two main steps:
This process is called gene expression.
Example:
Traits are often affected by:
A mutation is a change in a gene’s DNA sequence.
Think of it like this:
基因是 DNA 上的一段特定序列,包含制造功能性产物(通常是蛋白质,有时是 RNA)的信息。
一句话: 👉 基因 = DNA 上的一份“功能说明书”
例子:
基因负责指导合成:
蛋白质决定:
基因通过表达来发挥功能,主要包括两步:
这个过程叫做 基因表达。
注意:
突变是基因 DNA 序列的改变。
结果可能是:
类比:
如果你需要,我可以继续帮你整理 ✔️ Biology 10/11 考点版速记表 ✔️ gene vs allele vs trait 对比 ✔️ 双语闪卡(定义 / 图示 / 易错点)
DNA



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DNA (deoxyribonucleic acid) is the molecule that stores genetic information in almost all living organisms. It contains the instructions that tell cells how to grow, function, and reproduce.
In short: 👉 DNA = the biological instruction manual of life
DNA has a double-helix shape—like a twisted ladder.
Each DNA molecule is made of many nucleotides, and each nucleotide has:
DNA uses four bases:
Complementary base pairing rules:
These pairs are held together by hydrogen bonds, which keep the structure stable but allow it to unzip when needed.
The sequence of bases (A, T, C, G) stores information—similar to letters forming words.
Example:
Different sequences → different genes → different traits (e.g., eye color, enzymes, height potential)
Before a cell divides:
This ensures genetic continuity from cell to cell.
DNA itself doesn’t build structures directly. Instead:
Proteins then:
DNA:
DNA(脱氧核糖核酸)是储存遗传信息的分子,几乎存在于所有生物体中。 它包含指导细胞生长、运作和繁殖的全部信息。
一句话: 👉 DNA = 生命的说明书
DNA 呈现为双螺旋结构,就像一把扭转的梯子。
DNA 由大量核苷酸组成,每个核苷酸包括:
DNA 只有四种碱基:
互补配对规则:
碱基之间通过氢键连接,既稳定又可分离。
DNA 的信息由碱基排列顺序决定。
不同排列 → 不同基因 → 不同性状 (如外貌、代谢能力、身高潜力)
DNA 复制过程:
DNA 本身不“工作”,而是通过:
蛋白质负责:
DNA:
如果你需要,我可以继续帮你做 ✔️ DNA → RNA → Protein 流程图 ✔️ Biology 10 / 11 考试版关键词卡 ✔️ 双语 Q/A 闪卡或交互式 HTML 图示
organism




An organism is any individual living thing. It can be very small (like a bacterium) or very large (like a tree or a whale), but it must be able to carry out life processes on its own.
In simple terms: 👉 Organism = one living individual
To be considered an organism, it must show most or all of these traits:
If something cannot perform life functions independently, it is not an organism.
A) Unicellular organisms (one cell)
One cell performs all life functions.
B) Multicellular organisms (many cells)
Different cells specialize, but together they form one organism.
In multicellular organisms, structure is organized as:
Cells → Tissues → Organs → Organ systems → Organism
🔹 Example (human):
The organism is the highest living level that functions as a complete individual.
生物体指的是单个、完整的生命个体。 它可以非常微小(如细菌),也可以非常巨大(如树或鲸鱼),但它必须能独立完成生命活动。
一句话: 👉 生物体 = 一个完整的生命个体
一个生物体通常具有以下生命特征:
如果不能独立进行生命活动,就不算生物体。
(1)单细胞生物
一个细胞就能完成全部生命功能。
(2)多细胞生物
不同细胞分工合作,组成一个生物体。
多细胞生物的结构层次为:
细胞 → 组织 → 器官 → 器官系统 → 生物体
🔹 人类例子: 肌肉细胞 → 肌肉组织 → 心脏 → 循环系统 → 人(生物体)
如果你愿意,我可以继续帮你做 ✔️ Biology 10 关键词对照表 ✔️ organism vs cell vs ecosystem 对比图 ✔️ 双语闪卡(定义 / 例子 / 易错点)
stumbling




Stumbling literally means losing balance while walking—often because your foot hits an obstacle (a rock, step, root), causing you to almost fall or take awkward steps.
Figuratively, stumbling means having difficulty or making mistakes while trying to do something.
Stumbling over words → speaking hesitantly or making verbal mistakes
Stumbling through a task → progressing with errors or uncertainty
Stumbling block → an obstacle that prevents progress
Example: She stumbled at first, but improved with practice.
Examples:
Compare:
stumbling 的本意是走路时被绊到、失去平衡,可能差点摔倒,但不一定真的摔倒。
在比喻意义上,stumbling 指: 👉 做事不顺、说话卡壳、遇到困难或犯小错
常见用法:
stumble over words → 说话结巴、卡壳
stumble through something → 磕磕绊绊地完成
stumbling block → 阻碍、绊脚石
例句:一开始他有点不顺,但慢慢就好了。
例子:
对比:
如果你愿意,我可以再补充 ✔️ ENGL/考试常见搭配表 ✔️ “stumble vs fail vs struggle” 对比 ✔️ 课堂用情境句子练习
double-helix




A double helix is the three-dimensional shape of DNA. It consists of two long strands that coil around each other, forming a twisted ladder.
Each DNA strand is built from repeating units called nucleotides. Every nucleotide has:
Structure layout:
Inside the double helix, bases pair complementarily:
These base pairs are held together by hydrogen bonds, while the backbone is held by strong covalent bonds.
Because of this pairing:
The ladder twists because of:
This twisting:
The twist creates two unequal grooves:
These grooves are crucial because:
The double-helix structure explains:
In short, the double helix is the physical basis of heredity.
双螺旋(double helix)是 DNA 的三维空间结构。 它由 两条长链 相互缠绕,形成一个扭曲的梯子状结构。
DNA 的每一条链由许多 核苷酸 构成。 每个核苷酸包括:
结构特点:
碱基按照互补原则配对:
A–T
C–G
碱基之间靠 氢键连接
骨架内部靠 共价键连接(更牢固)
这种结构保证:
DNA 不保持直梯形,而是自然扭转,原因包括:
扭转的好处:
双螺旋的扭转形成两种沟:
它们的意义:
双螺旋结构解释了:
一句话总结: 👉 双螺旋是遗传信息储存、复制和表达的物理基础
如果你需要,我可以把 double helix 做成 ✔️ Biology 10 / 11 考试版关键词卡 ✔️ “互补碱基 → 双螺旋”因果图 ✔️ 交互式 HTML 3D 旋转示意图
habitat





A habitat is the natural place where an organism lives. It provides everything the organism needs to survive, grow, and reproduce, including:
In short: Habitat = an organism’s home in nature.
A habitat includes both living (biotic) and non-living (abiotic) factors.
🔹 Example: A pond habitat includes algae and insects (biotic) and water depth, oxygen level, and sunlight (abiotic).
🔹 Example:
Many species can share a habitat, but each has a different niche.
Terrestrial (land):
Aquatic (water):
Each habitat has specific conditions, so only organisms with suitable adaptations can live there.
Organisms have features that help them survive in their habitats.
Examples:
If conditions change too much, the organism may struggle or die.
Habitat destruction (deforestation, pollution, urbanization) is one of the biggest threats to species survival.
栖息地是指生物自然生活的地方。 它为生物提供生存所需的一切条件,包括:
一句话: 👉 栖息地 = 生物在自然界中的“家”
栖息地由生物因素和非生物因素共同构成。
🔹 例子: 池塘栖息地不仅有鱼和水草,还有水温、含氧量和光照条件。
🔹 例子:
陆地栖息地:
水生栖息地:
每种栖息地都有独特环境条件。
生物具有适应其栖息地的特征。
例子:
环境变化过大,生物可能无法生存。
栖息地破坏是物种灭绝的重要原因之一。
如果你需要,我可以把 habitat 整理成 ✔️ 双语闪卡(定义 / 对比 / 易错点) ✔️ Habitat vs niche 对照表 ✔️ 适合 Biology 10 的练习题与图片标注
unity




Unity means everything works together as a whole. Different parts may vary, but they feel connected, consistent, and purposeful, not random or chaotic.
Unity answers the question: 👉 “Do all parts belong together?”
In art, design, and visual composition, unity refers to how elements combine to create a cohesive visual experience.
Unity is achieved through:
🔹 Example: A poster using one color palette, one font family, and repeated shapes feels unified.
Unity ≠ sameness Unity allows variety, but within a shared structure.
Good design balances both:
🔹 Think of a song: Different notes and rhythms, but one key and mood.
In biology, unity refers to how different parts function together to support life.
Examples:
🔹 Example: Heart, lungs, and blood vessels are different, but form one circulatory system.
In chemistry, unity describes how atoms bond to form a stable molecule.
Examples:
Unity here means:
In writing or arguments, unity means:
A unified essay:
统一性指的是:各个部分共同组成一个整体。 虽然每个部分可能不同,但它们之间相互联系、协调一致。
统一性回答的问题是: 👉 “这些部分是否属于同一个整体?”
在艺术、平面设计、网页设计中,统一性指画面是否整体协调、不杂乱。
实现统一性的方式包括:
🔹 例子: 一个网站如果颜色、按钮样式、字体统一,看起来就专业、清晰。
好的作品需要二者平衡:
在生物学中,统一性强调不同结构协同运作。
例子:
🔹 例子: 心脏、肺、血管功能不同,但共同维持生命。
在化学中,统一性体现在:
🔹 例子: 氢和氧单独存在与结合成水,性质完全不同。
在写作中,统一性意味着:
如果你愿意,我可以把 unity 做成 ✔️ 考试用关键词对照表 ✔️ 艺术 / 生物 / 化学对比图 ✔️ 双语闪卡(定义 + 例子 + 易错点)
Reviewer #1 (Public review):
Summary:
Syed et al. investigate the circuit underpinnings for leg grooming in the fruit fly. They identify two populations of local interneurons in the right front leg neuromere of ventral nerve cord, i.e. 62 13A neurons and 64 13B neurons. Hierarchical clustering analysis identifies each 10 morphological classes for both populations. Connectome analysis reveals their circuit interactions: these GABAergic interneurons provide synaptic inhibition either between the two subpopulations, i.e. 13B onto 13A, or among each other, i.e. 13As onto other 13As, and/or onto leg motoneurons, i.e. 13As and 13Bs onto leg motoneurons. Interestingly, 13A interneurons fall into two categories with one providing inhibition onto a broad group of motoneurons, being called "generalists", while others project to few motoneurons only, being called "specialists". Optogenetic activation and silencing of both subsets strongly effects leg grooming. As well activating or silencing subpopulations, i.e. 3 to 6 elements of the 13A and 13B groups has marked effects on leg grooming, including frequency and joint positions and even interrupting leg grooming. The authors present a computational model with the four circuit motifs found, i.e. feed-forward inhibition, disinhibition, reciprocal inhibition and redundant inhibition. This model can reproduce relevant aspects of the grooming behavior.
Strengths:
The authors succeeded in providing evidence for neural circuits interacting by means of synaptic inhibition to play an important role in the generation of a fast rhythmic insect motor behavior, i.e. grooming of the body using legs. Two populations of local interneurons in the fruit fly VNC comprise four inhibitory circuit motifs of neural action and interaction: feed-forward inhibition, disinhibition, reciprocal inhibition and redundant inhibition. Connectome analysis identifies the similarities and differences between individual members of the two interneuron populations. Modulating the activity of small subsets of these interneuron populations markedly affects generation of grooming behavior thereby exemplifying their relevance. The authors carefully discuss strengths and limitations of their approaches and place their findings into the broader context of motor control.
Weaknesses:
Effects of modulating activity in the interneuron populations by means of optogenetics were conducted in the so-called "closed-loop" condition. This does not allow to differentiate between direct and secondary effects of the experimental modification in neural activity, as feedforward and feedback effects cannot be disentangled. To do so open loop experiments, e.g. in deafferented conditions, would be needed. Given that many members of the two populations of interneurons do not show one, but two or more circuit motifs, it remains to be disentangled which role the individual circuit motif plays in the generation of the motor behavior in intact animals.
Comments on revisions:
The authors have carefully revised the manuscript. I have no further suggestions or criticisms.
Reviewer #3 (Public review):
Summary:
The authors set out to determine how GABAergic inhibitory premotor circuits contribute to the rhythmic alternation of leg flexion and extension during Drosophila grooming. To do this, they first mapped the ~120 13A and 13B hemilineage inhibitory neurons in the prothoracic segment of the VNC and clustered them by morphology and synaptic partners. They then tested the contribution of these cells to flexion and extension using optogenetic activation and inhibition and kinematic analyses of limb joints. Finally, they produced a computational model representing an abstract version of the circuit to determine how the connectivity identified in EM might relate to functional output. The study makes important contributions to the literature.
The authors have identified an interesting question and use a strong set of complementary tools to address it:
They analysed serial‐section TEM data to obtain reconstructions of every 13A and 13B neuron in the prothoracic segment. They manually proofread over 60 13A neurons and 64 13B neurons, then used automated synapse detection to build detailed connectivity maps and cluster neurons into functional motifs.
They used optogenetic tools with a range of genetic driver lines in freely behaving flies to test the contribution of subsets of 13A and 13B neurons.
They used a connectome-constrained computational model to determine how the mapped connectivity relates to the rhythmic output of the behavior.
Comments on revisions:
I appreciate that the authors have updated the GitHub repository to include the model and analysis code. Still lacking is: for the authors to explicitly separate empirical findings from modelling inferences in the text, and a supplemental table to make it clear which cell types are included. I should also point out that the code lacks annotations necessary for the results to be reproduced and the model to be reused.
Author response:
The following is the authors’ response to the previous reviews.
Public Reviews:
Reviewer #1 (Public review):
Summary:
Syed et al. investigate the circuit underpinnings for leg grooming in the fruit fly. They identify two populations of local interneurons in the right front leg neuromere of ventral nerve cord, i.e. 62 13A neurons and 64 13B neurons. Hierarchical clustering analysis identifies each 10 morphological classes for both populations. Connectome analysis reveals their circuit interactions: these GABAergic interneurons provide synaptic inhibition either between the two subpopulations, i.e. 13B onto 13A, or among each other, i.e. 13As onto other 13As, and/or onto leg motoneurons, i.e. 13As and 13Bs onto leg motoneurons. Interestingly, 13A interneurons fall into two categories with one providing inhibition onto a broad group of motoneurons, being called "generalists", while others project to few motoneurons only, being called "specialists". Optogenetic activation and silencing of both subsets strongly effects leg grooming. As well activating or silencing subpopulations, i.e. 3 to 6 elements of the 13A and 13B groups has marked effects on leg grooming, including frequency and joint positions and even interrupting leg grooming. The authors present a computational model with the four circuit motifs found, i.e. feed-forward inhibition, disinhibition, reciprocal inhibition and redundant inhibition. This model can reproduce relevant aspects of the grooming behavior.
Strengths:
The authors succeeded in providing evidence for neural circuits interacting by means of synaptic inhibition to play an important role in the generation of a fast rhythmic insect motor behavior, i.e. grooming. Two populations of local interneurons in the fruit fly VNC comprise four inhibitory circuit motifs of neural action and interaction: feed-forward inhibition, disinhibition, reciprocal inhibition and redundant inhibition. Connectome analysis identifies the similarities and differences between individual members of the two interneuron populations. Modulating the activity of small subsets of these interneuron populations markedly affects generation of the motor behavior thereby exemplifying their important role for generating grooming. The authors carefully discuss strengths and limitations of their approaches and place their findings into the broader context of motor control.
We thank the reviewer for their thoughtful and constructive evaluation of our work.
Weaknesses:
Effects of modulating activity in the interneuron populations by means of optogenetics were conducted in the so-called closed-loop condition. This does not allow to differentiate between direct and secondary effects of the experimental modification in neural activity, as feedforward and feedback effects cannot be disentangled. To do so open loop experiments, e.g. in deafferented conditions, would be important. Given that many members of the two populations of interneurons do not show one, but two or more circuit motifs, it remains to be disentangled which role the individual circuit motif plays in the generation of the motor behavior in intact animals.
Our optogenetic experiments show a role for 13A/B neurons in grooming leg movements – in an intact sensorimotor system - but we cannot yet differentiate between central and reafferent contributions. Activation of 13As or 13Bs disinhibits motor neurons and that is sufficient to induce walking/grooming. Therefore, we can show a role for the disinhibition motif.
Proprioceptive feedback from leg movements could certainly affect the function of these reciprocal inhibition circuits. Given the synapses we observe between leg proprioceptors and 13A neurons, we think this is likely.
Our previous work (Ravbar et al 2021) showed that grooming rhythms in dusted flies persist when sensory feedback is reduced, indicating that central control is possible. In those experiments, we used dust to stimulate grooming and optogenetic manipulation to broadly silence sensory feedback. We cannot do the same here because we do not yet have reagents to separately activate sparse subsets of inhibitory neurons while silencing specific proprioceptive neurons. More importantly, globally silencing proprioceptors would produce pleiotropic effects and severely impair baseline coordination, making it difficult to distinguish whether observed changes reflect disrupted rhythm generation or secondary consequences of impaired sensory input. Therefore, the reviewer is correct – we do not know whether the effects we observe are feedforward (central), feedback sensory, or both. We have included this in the revised results and discussion section to describe these possibilities and the limits of our current findings.
Additionally, we have used a computational model to test the role of each motif separately and we show that in the results.
Comments on revisions:
The careful revision of the manuscript improved the clarity of presentation substantially.
Reviewer #2 (Public review):
Summary:
This manuscript by Syed et al. presents a detailed investigation of inhibitory interneurons, specifically from the 13A and 13B hemilineages, which contribute to the generation of rhythmic leg movements underlying grooming behavior in Drosophila. After performing a detailed connectomic analysis, which offers novel insights into the organization of premotor inhibitory circuits, the authors build on this anatomical framework by performing optogenetic perturbation experiments to functionally test predictions derived from the connectome. Finally, they integrate these findings into a computational model that links anatomical connectivity with behavior, offering a systems-level view of how inhibitory circuits may contribute to grooming pattern generation.
Strengths:
(1) Performing an extensive and detailed connectomic analysis, which offers novel insights into the organization of premotor inhibitory circuits.
(2) Making sense of the largely uncharacterized 13A/13B nerve cord circuitry by combining connectomics and optogenetics is very impressive and will lay the foundation for future experiments in this field.
(3) Testing the predictions from experiments using a simplified and elegant model.
Thank you for the positive assessment of our work.
Weaknesses:
(1) In Figure 4-figure supplement 1, the inclusion of walking assays in dusted flies is problematic, as these flies are already strongly biased toward grooming behavior and rarely walk. To assess how 13A neuron activation influences walking, such experiments should be conducted in undusted flies under baseline locomotor conditions.
We agree that there are better ways to assay potential contributions of 13A/13B neurons to walking. We intended to focus on how normal activity in these inhibitory neurons affects coordination during grooming, and we included walking because we observed it in our optogenetic experiments and because it also involves rhythmic leg movements. The walking data is reported in a supplementary figure because we think this merits further study with assays designed to quantify walking specifically. We will make these goals clearer in the revised manuscript and we are happy to share our reagents with other research groups more equipped to analyze walking differences.
(2) Regarding Fig 5: The 70ms on/off stimulation with a slow opsin seems problematic. CsChrimson off kinetics are slow and unlikely to cause actual activity changes in the desired neurons with the temporal precision the authors are suggesting they get. Regardless, it is amazing the authors get the behavior! It would still be important for authors to mention the optogentics caveat, and potentially supplement the data with stimulation at different frequencies, or using faster opsins like ChrimsonR.
We were also intrigued by the behavioral consequences of activating these inhibitory neurons with CsChrimson. We appreciate the reviewer’s point that CsChrimson’s slow off-kinetics limit precise temporal control. To address this, we repeated our frequency analysis using a range of pulse durations (10/10, 50/50, 70/70, 110/110, and 120/120 ms on/off) and compared the mean frequency of proximal joint extension/flexion cycles across conditions. We found no significant difference in frequency (LLMS, p > 0.05), suggesting that the observed grooming rhythm is not dictated by pulse period but instead reflects an intrinsic property of the premotor circuit once activated. We now include these results in ‘Figure 5—figure supplement 1’ and clarify in the text that we interpret pulsed activation as triggering, rather than precisely pacing, the endogenous grooming rhythm. We continue to note in the manuscript that CsChrimson’s slow off-kinetics may limit temporal precision. We will try ChrimsonR in future experiments.
Overall, I think the strengths outweigh the weaknesses, and I consider this a timely and comprehensive addition to the field.
Reviewer #3 (Public review):
Summary:
The authors set out to determine how GABAergic inhibitory premotor circuits contribute to the rhythmic alternation of leg flexion and extension during Drosophila grooming. To do this, they first mapped the ~120 13A and 13B hemilineage inhibitory neurons in the prothoracic segment of the VNC and clustered them by morphology and synaptic partners. They then tested the contribution of these cells to flexion and extension using optogenetic activation and inhibition and kinematic analyses of limb joints. Finally, they produced a computational model representing an abstract version of the circuit to determine how the connectivity identified in EM might relate to functional output. The study makes important contributions to the literature.
The authors have identified an interesting question and use a strong set of complementary tools to address it:
They analysed serial‐section TEM data to obtain reconstructions of every 13A and 13B neuron in the prothoracic segment. They manually proofread over 60 13A neurons and 64 13B neurons, then used automated synapse detection to build detailed connectivity maps and cluster neurons into functional motifs.
They used optogenetic tools with a range of genetic driver lines in freely behaving flies to test the contribution of subsets of 13A and 13B neurons.
They used a connectome-constrained computational model to determine how the mapped connectivity relates to the rhythmic output of the behavior.
Recommendations for the authors:
Reviewer #1 (Recommendations for the authors):
I still have the following specific suggestions and questions, which need the attention of the authors:
P5, 2nd para, li 1: shouldn't "(Figures 1E and 1E')" be (Figures 1G and 1H)?
P7, last para, li 3: shouldn't "(Figures 2C and 2D)" be (Figures 2A and 2B)?
P19, para 2, last 2li: "...we observe that optogenetic activation......triggers grooming movements." I could not find the place in the text or a figure, where this was reported or shown. Please specify
P19, last para: "... shows that 13A neurons can generate rhyhtmic movements....." Given that the experiments were conducted in closed-loop, i.e. including the loop through the leg and its movements, the following formulation appears more justified: "....shows that 13A neurons significantly contribute to the generation of rhythmic movements,....."
P28, para 1, li 3 from bottom: "...themselves, rather than solely between antagonistsic motor neurons." While the authors are correct that in the stick insect and locust alternating inhibitory synaptic drive to flexor and extensor motoneurons has been shown to underly alternating activity of these two antagonistic motoneuron pools the previous studies have not shown or claimed that these synaptic inputs arise from direct interactions between these motoneuron pools. Based on this this text should be moved to the part "feed-forward inhibition" on page 27.
P28: "redundant inhibition": this motif has been shown to be instrumental in the locust flight CPG, e.g. Robertson & Pearson, 1985, Fig. 16.
P28: "reciprocal inhibition" The reviewer agrees with the authors that this motif has been shown for the mouse spinal cord, but also for other CPGs in vertebrates and invertebrates, e.g. clione, leech, xenopus - see the initial comment "(3) Intro and Discussion"
Thank you, we have incorporated the suggested corrections and clarifications into the revised manuscript.
Reviewer #2 (Recommendations for the authors):
I'm satisfied with the revised version
Reviewer #3 (Recommendations for the authors):
The authors have made a substantial effort to address my original points. They corrected the title, expanded Discussion and Methods sections, reran statistical tests using mixed models, added modelling clarifications and constraints, and fixed or removed confusing figure panels. Those changes have improved clarity and reduced some of the claims that I thought were exaggerated.
That said, some of my concerns remain only partially addressed, which could be fixed with relatively small tweaks. The authors should:
(1) Explicitly separate empirical findings from modelling inferences throughout the manuscript, including the Abstract, Results and Discussion (i.e., label claims of "intrinsic rhythmogenesis" as model-based inferences, not direct experimental demonstrations)
(2) Provide supplemental information on modelling to quantify the role of the black-box input (e.g., quantitative coordination/phase/frequency metrics for full model vs constant-input vs no black box), show pre- vs post-fine-tuning weight changes and the exact tuning constraints/optimization details (I could not find these details)
(3) To ensure results are reproducible, provide a supplemental table mapping each split line to EM-identified neuron(s) with NBLAST/morphological scores for each match;
(4) Fully document the statistical models (exact LMM/GLMM formulas, software/packages, etc);
(5) Deposit model code, trained weights and analysis scripts in a public repository.
We have updated the GitHub repository with the full statistical analysis documentation and model code, including trained weights and scripts.
leg
"lower extremity?"
leg
"lower extremity?"
arms
Perhaps use "upper extremity" to avoid reinforcing the perception of "arm" as referring to the entire upper extremity.
Because the spinal cord does not extend through the lower lumbar region of the vertebral column,
Should we mention earlier that the cord ends at L1?
Neurons are very sensitive to oxygen deprivation
I would like to see us tie this back to the conversation about the role of oxygen in ATP production to reinforce why we die without oxygen.
Immediately below the brain stem is the cervical region, followed by the thoracic, then the lumbar, and finally the sacral region.
I'm not sure why we are omitting the coccygeal region here.
which responds primarily to changes in hydrogen, carbon dioxide, and pH levels in the body
Do we want to emphasize the point here that respiration is not primarily controlled by oxygen levels?
Astrocytes support neurons in the central nervous system by maintaining the concentration of chemicals in the extracellular space, removing excess signaling molecules, reacting to tissue damage, and contributing to the blood-brain barrier (BBB)
Maybe we also mention their role in synapse formation?
in the olfactory epithelium (where smell stimuli are sensed) and as part of the retina.
We clarified olfactory epithelium here, but not retina. We might want to clarify both as we have not defined retina yet and some students may be unfamiliar with the term.
made from neuroglia
As we have not yet defined neuroglia, students may misinterpret this as a substance, not a cell type. Maybe "made by cells that support the nervous system called glial cellls, which we will explore in more detail later."
What is the meaning of the comma in "[aeiou]{3, }" ?
Author response:
The following is the authors’ response to the original reviews
Reviewer #1:
(1) As such amount of work has been put into developing this community tool, it would be worth thinking about how it could serve other multiplex-immunofluorescence methods (such as immunoSABER, 4i, etc). Adding an extra tab where the particular method that uses those reagents is mentioned. This would also help as IBEX itself and related methods evolve in the future.
We agree and currently support six other methods beyond the original ”IBEX2D Manual”, with the most generic being ”Multiplexed 2D Imaging”: standard, single cycle (non-iterative) imaging method applied to thin, 2D (5-30 micron) tissue sections. Descriptions of supported methods are given in the reagent glossary. We plan to evolve to include multiplex IF methods such as Immuno-SABER, 4i, Cell DIVE, etc. The current structure of the reagent resources table can support other immunofluorescence methods without modifications. The table contains information for IBEX and related methods. The particular method for which a reagent validation was evaluated is specified in the column titled ”Method”. Descriptions of supported methods are given in the reagent glossary.
(2) It has a rather minimal description of the software. In particular, there is software that has not been developed for IBEX specifically but that could be used for IBEX datasets (ASHLAR, WSIReg, VALIS, WARPY, and QuPath, etc). It would be nice if there was mention of those.
ASHLAR, WSIReg, VALIS, and Warpy have been added to the Knowledge-Base. These software components are specifically relevant for iterative imaging protocols which require image alignment. With respect to QuPath, Fiji, Napari and other general microscopy image analysis frameworks, these are not listed. Such frameworks provide a wide range of operations relevant for many microscopy image analysis tasks and are likely already familiar to researchers who are interested in the information contained in the Knowledge-Base.
(3) There is a concern about how the negative data information will be added, as no publication or peer-review process can back it up. Perhaps the particular conditions of the experiment should be very well described to allow future users to assess the validity.
We agree with this observation and have added the following language to the contribute page:
”When reporting information that has not appeared in a peer-reviewed publication, both negative and positive results, include more details with respect to experimental conditions and provide sample images as part of the supporting material files. In all cases, peer reviewed or not, we encourage providing additional details in the supporting material that you deem important and are not part of the csv file structure. These include, but are not limited to, lot numbers, versioned protocols used in the work, and any other information which will facilitate validation reproducibility.”
(4) The proposed scheme where a reagent can be validated or recommended against by up to 4 different labs should be good. It may be good to make sure that researchers who validate belong to different labs and are not only different ORCID that belong to the same group. Similar to making a case of recommendations against a reagent.
We generally support this recommendation. Based on our experience, even members within the same laboratory encounter challenges when attempting to validate reagents contributed by current or former colleagues. Additionally, research labs often experience significant personnel turnover, with minimal overlap over a five year span.
To address these concerns, we have updated the instructions on the contribute page as follows: ”We only accept up to 5 ORCID additions in the Agree or Disagree columns. This means that the original contributor’s work was replicated by up to 4 individuals or refuted by up to 5 people. Priority is given to contributions from individuals in laboratories distinct from the original source.”
(5) It is very interesting to keep track of the protocol versions used. Perhaps users should be able to validate independent versions and it will be important to know how information is kept.
Thank you for your suggestion. We encourage members of the community to cite the latest version of the Knowledge-Base in the “Citing the Knowledge-Base” section.
(6) The final point I would make is that the need to form a GitHub repository may deter some people from submitting data. For sporadic contributions, authors could think that users could either reach out to main developers and/or provide a submission form that can help less experienced users of command-line and GitHub programming, but still promote the contribution from the community.
We have given this significant thought and now support a secondary path for contributing that does not require familiarity with git or GitHub. This path involves downloading a zip file, modifying the contents of the csv files and providing supporting material text files and images. Once the work is completed, the contributor contacts the Knowledge-Base maintainers and we complete the submission together, with the maintainers dealing with the usage of git and GitHub. This information has been added to the notes which are listed at the top of the Contribute page. We have recently completed the first contribution that followed this new workflow.
We still encourage researchers to familiarize themselves with git and the GitHub repository hosting service. These tools have been shown to be useful for collaborative and reproducible laboratory research.
Reviewer #2:
(1) The potential impact of IBEX KB is very clear. However, the paper would benefit by also discussing more on KB maintenance and outreach, and how higher participation could be incentivized.
We have added the following details to the discussion:
The KB is actively maintained by its chairs, who meet bi-weekly to ensure its continued development and maintenance. In addition to these regular meetings, we engage with both current and prospective community members to gather feedback, encourage contributions, and expand the collective knowledge supporting the KB. To broaden outreach and foster sustained engagement, the IBEX community will collaborate with synergistic initiatives such as the HuBMAP Affinity Reagents Working Group, the European Society for Spatial Biology (ESSB), and the Global Alliance for Spatial Technologies (GESTALT).
As a further incentive for participation, we intend to launch an annual “Reagent Validation Week”, a community driven event inspired by software hackathons. During this dedicated week, researchers would focus on validating or reproducing validation for selected reagents and contribute their findings to the KB. We have also discussed hosting an “Around the World” symposium, featuring presentations from both junior and senior scientists across the community, to showcase diverse perspectives and foster global collaboration.
(2) Use of resources like GitHub may limit engagement from non-coding members of the scientific community. Will there be alternative options like a user-friendly web interface to contribute more easily?
We agree with this observation and have addressed it. Please see detailed response to point 6 from Reviewer 1.
Reviewer #3:
(1) IBEX is a specific immunofluorescence method. However, the utility of the Knowledge base is not limited to the specific IBEX method. Therefore, I suggest removing the unnecessary branding of the term IBEX from the KB and citing potentially other similar cyclic immunofluorescence methods in the manuscript (e.g. CycIF Lin et al 2018). This would also emphasize the wider impact and applicability of the KB to the wider imaging community.
For now, we have decided to keep the original reference to the IBEX method in the resource name and re-brand it in the next development phase. In that phase we intend to solicit reagent validations for methods unrelated to IBEX. We have added the reference to the CycIF publication. The manuscript text now reads: “We are optimistic that future versions will include extension of the IBEX method to other tissues and species and we intend to solicit contributions of reagent validations for other multiplexed imaging techniques such as CycIF Lin et al. (2015). At that point in time we expect to re-brand the KB as the IBEX++ Knowledge-Base...”
(2) I believe reporting negative results with reagents is highly valuable. However, the way to report antibodies must include more details. To ensure data quality, every report should be linked to a specific protocol + images (or doc with the standard document variations, and sample information. This should be a mandatory requirement.
We agree that this information is desirable, but we do not agree that it should be mandatory. In the contribution instructions we now explicitly list lot numbers and versioned protocols as examples of details that we encourage contributors to include in their supporting material files. We believe that requiring this information for a contribution sets the bar too high and will deter many from contributing information that can benefit others.
(3) While cross-validation among researchers is beneficial, even if five individuals fail to reproduce results with a given antibody, their findings may be influenced by techniquespecific factors. It is also important to consider whether these researchers come from the same group, institution, or geographical region, as this could impact reproducibility. Additionally, entries that have not been reproduced at least five times using the same protocol should still be considered valuable information. To address this, an ”insufficient validation data” flag could be implemented, ensuring that incomplete but useful findings remain accessible.
The contribution instructions now state that ”Priority is given to contributions from individuals in laboratories distinct from the original source”.
While our goal is to support reproducing reagent validations, we do not expect these type of contributions be the rule as the only incentive we can provide to encourage this behavior is co-authorship on the authoritative dataset. As a result, it is likely that many of the validations will have a single endorser, the original contributor. These results are valuable information and we do not think they should be singled out (insufficient validation label). We leave it up to the users of the KB to decide whether they trust recommendations with multiple endorsers or if endorsement by a single highly trusted contributor is sufficient for them. In all cases, issues with contributions can be rasied and discussed on the KB discussion forum.
The rationale for limiting the number of reproduction studies to five was that this is a minimal, yet sufficiently large, number that provides confidence in the results. Placing an upper limit ensures that researchers do not provide reproduction results for widely used and well established reagents just because these results are readily available to them.
(4) This system could flag reagents with inconsistent reports, highlight potential techniquespecific issues, and suggest alternative reagents with stronger validation records. Furthermore, a validation confidence ranking could be introduced, taking into account the number of independent confirmations, protocol consistency, and reproducibility data. These measures would help refine the reporting process while maintaining transparency and scientific rigor.
We agree that the functionality described here is desirable, but this is not part of the KB. At its core the KB is a dataset and we do not envision developing dedicated tools to perform these tasks. Instead, we foresee using the KB as context for interacting with AI agents. Providing the KB as context to an AI, one can currently use it to answer domain specific questions and perform related tasks such as designing imaging panels (under subject matter expert supervision). This was added to the sample usecases in the manuscript with a transcript from interaction with an AI model using the website as context provided as supplemental material.
(5) Regarding image formats for results reporting, while JPG files are convenient due to their small size, TIFF files offer significant advantages, such as preserving metadata and maintaining the integrity of real data values. Proper signal adjustments may not always be applied by researchers, making TIFF crucial for accurate data analysis. I suggest in this regard making available the possibility of including a link to the original TIFF data
The goal of the supporting material image is similar to that of an image used in a manuscript and it should not be used for data analysis purposes. This is the reason we chose the JPG format. Sharing these images is not intended to be a substitute for publicly sharing the original images and their associated metadata. This is now noted in the contributing instructions.
(6) Homepage:
Include a brief summary of the knowledge base’s purpose and tabs to provide clarity for new users. The current homepage is a bit misleading for newcomers.
The homepage has been modified to include information about the Knowledge-Base, contents and how to use it including as context for interaction with AI agents.
(7) Reagent Resources Section: Enable users to search for a target name directly, rather than filtering through dropdown options.
The dropdown menu explicitly shows all available targets and also allows for direct search of target name. To use it for direct search, once the dropdown is selected start typing the name of the target and the focus will jump to it. Thus, if looking for ”Zrf1” there is no need to scroll through all targets in the dropdown. This also facilitates easy clearing of a filter, select the dropdown and start typing the word ”clear”, then press enter when it is highlighted. This information has been added to the page.
Provide an option to download the dataset as a CSV file. This feature will be highly valued by non-computational researchers.
Links to download the reagent resources csv file and the whole Knowledge-Base have been added.
Add the same column documentation here as in the contributor instructions. For example, you need to make clear the distinctions between ”Recommend,” ”Agree,” and ”Disagree” ratings, as they may be misleading to those who have not visited the rules to contribute.
A link to the column documentation in the contributor instructions has been added here. Information on the website is displayed in one location and linked as needed. Duplicated display of information creates uncertainty for users and results in more complex instructions when referring to the information.
Include additional details in the dataset, such as lot numbers, or the date of the contribution, that could be relevant in different settings.
Please see response to point 2.
(8) Data & Software Section:
Add filtering options in the table based on organism and tissue availability
This data is not encoded in the available information in an independent manner so we do not directly enable filtering. It is usually included in the ”Details” free form text. This text is duplicated from the original dataset descriptions. One can still search this page using the browsers search functionality to achieve behavior similar to filtering. While the ”Details” text may not be visible due to the usage of the accordion user interface, it is still searchable and will automatically expand when the search text is found under the collapsed accordion button.
(9) Contributor Section:
Incorporate figures from the manuscript to make it more visual and improve understanding of rules and standards.
Figure 4 from the manuscript was added to this page.
I believe reporting negative results with reagents is highly valuable. However, to ensure data quality, every report should be linked to a specific protocol and sample information. This should be a mandatory requirement. To streamline the process, warnings for certain reagents could be implemented, but a reagent should not be outright labeled as ineffective without proper validation.
Please see response to point 2.
Cross-validation among researchers is beneficial, but even if five individuals fail to reproduce results with a given antibody, it may still be due to technique-specific factorsparticularly for non-routine antibodies.
We agree with this observation and have modified the contribution instructions accordingly:
When overturning previously reported results, the number of ORCIDs in the Disagree column becomes greater than those in the Agree column, we will open the contribution for public discussion on the Knowledge-Base forum before accepting it.
The intent is to increase the community’s confidence in the results, particularly when dealing with non-routine antibodies. This allows the original contributor and other members of the community to engage with the researchers who were unable to replicate a specific validation, possibly helping them to replicate the original results by adding missing details to the KB, or explicitly identifying and documenting issues with the original work.
Regarding image formats, JPG files are convenient due to their small size, but TIFF offers significant advantages, such as preserving metadata and maintaining the integrity of real data values. Proper signal adjustments may not always be applied by researchers, making TIFF crucial for accurate data analysis.
Please see response to point 5.
Reviewer #2 (Public review):
Summary:
The paper introduces the IBEX Knowledge-Base (KB), a shared online resource designed to help scientists working with immunofluorescence imaging. It acts as a central hub where researchers can find and share information about reagents, protocols, and imaging methods. The KB is not static like traditional publications; instead, it evolves as researchers contribute new findings and refinements. A key highlight is that it includes results of both successful and unsuccessful experiments, helping scientists avoid repeating failed experiments and saving time and resources. The platform is built on open-access tools ensuring that the information remains available to everyone. Overall, the KB aims to collaboratively accelerate research, improve reproducibility, and reduce wasted effort in imaging experiments.
Strengths:
(1) The IBEX KB is built entirely on open-source tools, ensuring accessibility and long-term sustainability. This approach aligns with FAIR data principles and ensures that the KB remains adaptable to future advancements.
(2) The KB also follows strict data organization standards, ensuring that all information about reagents and protocols is clearly documented and easy to find with little ambiguity.
(3) The KB allows scientists to report both positive and negative results, reducing duplication of effort and speeds up the research process.
(4) The KB is helpful for all researchers, but even more so for scientists in resource-limited settings. It provides guidance on finding affordable alternatives to expensive or discontinued reagents, making it easier for researchers with fewer resources to perform high-quality experiments.
(5) The KB includes a community discussion forum where scientists can ask for advice, share troubleshooting tips, and collaborate with others facing similar challenges.
(6) The authors discuss plans for active maintenance of the database and also to incentivize higher participation from the community.
(7) Even those unfamiliar with Github may contribute with the help of the database maintenance team.
Note: The authors have addressed my comments on the previous version of the article and the current version has been strengthened as a result.
Reviewer #3 (Public review):
Summary:
The authors have developed and interactive knowledge-base that uses crowdsourcing information on antibodies and reagents for immunofluorescence imaging.
Strengths:
The authors provide an extremely relevant and needed interphase for collaboration through a well-built platform. All the links in their website work, the information provided, reagents, datasets, videos and protocols are very informative. The instructions for the community researchers to contribute is clear and they provide detailed instructions in how to technically proceed. Additionally, the interface has been refined to enable the contribution regardless of the computational expertise of the researcher.
Weaknesses:
The Knowledge-Base relies on community contributions without mandatory, standardized metadata and validation criteria. Whilst this enhances the contributions, it limits the reliability of the database.
Note: This response was posted by the corresponding author to Review Commons. The content has not been altered except for formatting.
Learn more at Review Commons
Manuscript number: RC-2025-02932
Corresponding author(s): Amit Tzur
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Reviewer #1 (Evidence, reproducibility and clarity (Required)):
The study highlights a dephosphorylation switch mediated by PP2A as a critical mechanism for coupling E2F7/8 degradation to mitotic exit and G1 phase. The study is clear and experiments are well conducted with appropriate controls
I have some concerns highlighted below:
Point 1. In this sentence: This intricate network of feedback mechanisms ensures the orderly progression of the cell cycle. What feedback mechanism are the authors referring to?
Thank you for pointing this out. We aimed for a general comment. The original line was replaced with: “The intricate network of (de)phosphorylation and (de)ubiquitination events in cycling cells establishes feedback mechanisms that ensure orderly cell cycle progression.”
Point 2. Characterization of disorder in the N-terminal segments of E2F7 and E2F8
What does it mean disorder in this title?
“Disorder” is a structural biology term for describing an unstructured (floppy) region in a protein. We suggest the following title in hope to improve clarity: “The N-terminal segments of E2F7 and E2F8 are intrinsically unstructured”
Point 3. In the paragraph on the untimely degradation of E2F8 the authors keep referring to APC/C Cdc20, however the degradation is triggered by the Ken box which is specifically recognised by APC/C Cdh1. Can it be due to another ligase not APC/C?
In our anaphase-like system, Cdh1 cannot associate with the APC/C due to persistently high Cdk1 activity, maintained by the presence of non-degradable Cyclin B1. While the KEN-box is classically recognized as a Cdh1-specific motif, previous studies have also clearly demonstrated that APC/C-Cdc20 can mediate the degradation of KEN-box substrates. For example, BubR1 interacts with Cdc20 via two KEN-box motifs (PMIDs: 25383541, 27939943 and 17406666). Nek2A is targeted for degradation by the APC/C in mitotic egg extracts lacking Cdh1, in a manner that depends on both D-box and KEN-box motifs (PMID: 11742988). CENP-F degradation in Cdh1-null cells has been shown to be dependent on both Cdc20 and a KEN-motif (PMID: 20053638). Thus, the most simple explanation for our results is that degradation is KEN box dependent and controlled by Cdc20.
Regarding alternative E3 ligases, KEN-box mutant variants of non-phosphorylatable E2F8 remained stable in APC/CCdc20-active extracts, suggesting that this degradation is indeed APC/C-specific.
Please also see our response to Reviewer #3, Point 3.
Point 4. The assays to detect dephosphorylation are rather indirect so it is difficult to establish whether phosphorylation of CDK1 and dephosphorylation by PP2A on the fragments is direct.
First, the phosphorylation sites analyzed in this study conform to the full and most canonical Cdk1 consensus motif: S/TPxK/R. While recognizing that other kinases are proline directed as well, the cell cycle dependent manner of this control, and presence of a similar CDK-dependent mechanism for Cdc6, points us towards considering the role of CDKs.
Second, consistent with the direct role of CDK1 in this regulation, NMR experiments demonstrate conformational shifts of recombinant E2F8 following incubation with Cdk1–Cyclin B1 (not included in manuscript, but shown here for reviewer consideration); see Figure below. We have not yet established equivalent biochemical systems for PP2A.
Figure legend: NMR-based monitoring of E2F7 (a-c) and E2F8 (d-f) phosphorylation by Cdk1.
a(d). 15N,1H-HSQC spectrum of E2F7(E2F8) prior to addition of Cdk1. Threonine residues of interest, T45 (T20) conforming to the consensus sequence (followed by a proline), and T84 (T60) lacking the signature sequence are annotated. b(e). Strips from the 3D-HNCACB spectrum used for assigning E2F7(E2F8) residues. Black (green) peaks indicate a correlation with the 13Cα (13Cβ) of the same and previous residues. The chemical shifts assigned to T45 (T20) and T84 (T60) match the expected values for K44(K19) and P83(P59), thereby confirming the assignment. c(f). Top, overlay of subspectra before adding Cdk1 (black) and after 16 h of activity (red) at 298 K. Bottom, change in intensities of the T45/T84 in E2F7 and T20/T60 in E2F8 showing how NMR monitors phosphorylation and distinguishes between various threonine residues.
Third, PP2A is likely the principal phosphatase counteracting Cdk1-mediated phosphorylation during mitotic exit, targeting numerous APC/C substrates (PMID: 31494926). In light of our findings and the extensive literature, it is therefore reasonable to propose that E2F7 and E2F8 may also be direct PP2A targets.
Fourth, we cannot fully exclude the possibility that dephosphorylation of E2F7 and E2F8 by PP2A occurs indirectly. Nevertheless, indirect studies of PP2A substrate identification in the literature often rely on similar genetic perturbations, chemical inhibition, cell-free systems (coupled with immunodepletion, inhibitory peptides/proteins, and small-molecule inhibitors), and phosphoproteomics. Moreover, more direct assays are not without caveats, as they lack the cellular stoichiometric context, an important limitation for relatively promiscuous enzymes such as phosphatases.
Importantly, repeated attempts (conventional [Co-IP] and less conventional [affinity microfluidics]) to detect interactions between PP2A and E2F7 and E2F8 were unsuccessful. This result was unfortunate but not surprising, given that transient substrate–phosphatase interactions are often challenging to capture experimentally.
Given our evidence showing the regulation of E2F7 and E2F8 degradation in a manner that depends on Cdk1 and PP2A, the title of the manuscript remains appropriate: "Cdk1 and PP2A constitute a molecular switch controlling orderly degradation of atypical E2Fs.”
Please also see our response to Reviewer #3 Point 1.
Point 5. Although there seems to be a control by phosphorylation and dephosphorylation (which could be indirect), it is difficult to establish the functional consequences of this observation. The authors propose a feedback mechanism which regulates the temporal activation inactivation of E2F7/8 however, there are no evidence in support of this.
The components being studied here have been extensively characterized, as have the direct and indirect interactions that connect them and ensure orderly cell cycle progression. For example: i) The E2F1–E2F7/8 transcriptional circuitry functions as a negative feedback loop; ii) Cdk1 and PP2A counteract one another’s activity; iii) E2F1 promotes the disassembly of APC/CCdh1; iv) E2F7 and E2F8 are APC/C substrates with cell cycle-relevant degradation patterns; and v) Loss of Cdh1 leads to premature S-phase entry.
Our study brings these components together into a coherent regulatory module operating in cycling cells, revealed through cell-free biochemistry and newly developed methodologies with broad applicability to signaling research. We believe that advancing mechanistic understanding at this level of central regulators is impactful. And notably, this is a model, which we expect others in the field to test. We stand behind the result of each individual experiment and based on those findings are proposing a feedback circuit.
To address your suggestion, we incorporated phenotypic analyses (see Figure on the next page). Although modest and variable due to transient overexpression, these data align with the mechanistic model proposed in our study.
In Panel a, overexpression of E2F7 or E2F8 reduces E2F1 and its target Plk1, consistent with the established negative feedback within the E2F1–E2F7/8 transcriptional circuitry. A broader impact on cell cycle progression was also evident: G1-phase cells increased and S-phase cells decreased (Panel b), hinting at a delayed G1–S transition when E2F1, an essential driver of S-phase and mitotic entry, is downregulated by excess E2F7 or E2F8.
We next examined the effects of hyper- vs. hypo-phosphorylation–mimicking mutants of E2F7 and E2F8 on E2F1 and Plk1 (Panels c and d). Both raw data (top) and quantification (bottom) are shown. Despite ectopic overexpression, our experimental conditions highlighted the diffenrential outcome of the two phospho-mutant variants. Speificially, E2F1 and Plk1 levels were consistently higher upon expression of non-phosphorylatable variants of E2F7 (T45A/T68A) and E2F8 (T45D/T68D) relative to their phophomimetic counterparts (T45D/T68D; T20D/T44D). These findings suggest that E2F1 downregulation is more pronounced when E2F7/E2F8 are hyper-phosphorylated at Cdk1-regulated sites that control their half-lives. Furthermore, the proportion of S-phase cells was consistently lower for the phospho-mimicking mutants compared with the non-phosphorylatable variants, with complementary, though less pronounced, shifts in G1-phase cells (Panel e).
Figure legend: Evidence for cell cycle control linked to Cdk1–PP2A regulation of the E2F1–E2F7/E2F8 axis.
a) Immunoblot analysis showing reduced E2F1 and its target protein Plk1 upon E2F7/E2F8 overexpression. Antibodies used for immunoblotting (IB) are indicated. b) Cell cycle phase distribution after E2F7/E2F8 overexpression, based on DNA content. Left: representative histograms. Right: quantification of G1- and S-phase cells. Means (x) with individual biological replicates (color-coded; N = 4) are shown. c,d) Top: E2F1 and Plk1 protein levels in cells expressing phosphomimetic (TT-DD) or non-phosphorylatable (TT-AA) E2F7 (c) or E2F8 (d) variants. Antibodies used are indicated (*distorted signal excluded). Bottom: quantification relative to loading controls. Means (x) with individual values (N = 3/4) are shown. e) Cell cycle phase distribution following expression of E2F7/E2F8 phospho-mutant variants. Means (x) with individual values (N = 4) are shown. All experiments were performed in HEK293T cells. Cells were fixed 40–44 h post-transfection. DNA content was assessed using propidium iodide (PI). Mutation sites: T45/T68 (E2F7); T20/T44 (E2F8. Statistical significance was determined by two-tailed Student’s t-test; P-values are indicated.
Taken together, these results support a model in which Cdk1-site (de)phosphorylation modulates the stability of E2F7 and E2F8, thereby shaping E2F1 output and influencing cell cycle preogresion.
Point 6. Reviewer #1 (Significance (Required)):
The study is a good and well conducted work to understand the mechanisms regulating degradation of E2F7/8 by APC/C. This is crucial to establish coordinated cell cycle progression. While the hypothesis that disruption of this mechanism is likely responsible for altered cell cycle progression, there are no evidence this is just a back up pathway, whose functional significance could be limited to lack of APC/C Cdh1 activity. These experiments are rather difficult but the authors could comment on the limitation of the study and emphasise the hypothetical alterations which could result from the alterations of the described feedback loop
We thank Reviewer #1 for this comment. Accordingly, we have expanded the discussion to further elaborate on the potential molecular outcomes and limitations of our study.
Reviewer #2 (Evidence, reproducibility, and clarity (Required)):
Summary: The authors provide strong biochemical evidence that the regulation of E2F7 and E2F8 by APC is affected by CDK1 phosphorylation and potentially by PP2A dependent dephosphorylation. The authors use both full length and N-terminal fragments of E2F8 in cell-free systems to monitor protein stability during mitotic exit. The detailed investigation of the critical residues in the N-terminal domain of E2F8 (T20/T44) is well supported by the combination of biochemical and cell biology approaches.
We thank Reviewer #2 for their encouraging feedback.
Point 1. Major: It is unclear how critical the APC-dependent destruction of E2F7 and E2F8 is for cell cycle progression or other cellular processes. Prior studies have reported that Cyclin F regulation of E2F7 is critical for DNA repair and G2-phase progression. This study would be improved if the authors could provide a cellular phenotype caused by the lack of APC dependent regulation of E2F8 and/or E2F7.
We thank Reviewers #2 and #1 for this comment, which prompted substantial revisions. Below, we reiterate our response to Reviewer #1.
The molecular components examined in this study are well established in the literature. Key principles include: (i) the reciprocal regulation between E2F1 and its repressors, E2F7 and E2F8, which forms a transcriptional feedback loop; (ii) the opposing activities of Cdk1 and PP2A; (iii) the capacity of E2F1 to attenuate APC/CCdh1 activity; (iv) the fact that E2F7 and E2F8 are APC/C substrates with defined cell cycle–dependent degradation patterns; and (v) the requirement for Cdh1 to prevent premature S-phase entry.
Our study integrates these elements into a unified framework operating in proliferating cells. This framework is supported by biochemical reconstitution experiments and newly developed methodological tools, which we anticipate will be broadly applicable for dissecting signaling pathways. We view this type of mechanistic synthesis as valuable for the field. Importantly, we do not present this as a definitive model, but rather as a testable regulatory circuit constructed from robust individual findings.
In response to your request, we incorporated additional phenotypic analyses (see Figure, next page). Although modest and variable due to transient overexpression, the results are consistent with the regulatory architecture we propose.
In panel a, elevating E2F7 or E2F8 levels reduces E2F1 and its downstream target Plk1, consistent with the established inhibitory feedback exerted by E2F7 and E2F8 on E2F1. Additionally, we observed an increase in G1-phase cells and a decrease in S-phase cells (Panel b), hinting at a delayed G1–S transition when E2F1, a key transcriptional engine of S- and M-phase entry, is downregulated by excess E2F7 or E2F8.
Figure legend: Evidence for cell cycle control linked to Cdk1–PP2A regulation of the E2F1–E2F7/E2F8 axis.
a) Immunoblot analysis showing reduced E2F1 and its target protein Plk1 upon E2F7/E2F8 overexpression. Antibodies used for immunoblotting (IB) are indicated. b) Cell cycle phase distribution after E2F7/E2F8 overexpression, based on DNA content. Left: representative histograms. Right: quantification of G1- and S-phase cells. Means (x) with individual biological replicates (color-coded; N = 4) are shown. c,d) Top: E2F1 and Plk1 protein levels in cells expressing phosphomimetic (TT-DD) or non-phosphorylatable (TT-AA) E2F7 (c) or E2F8 (d) variants. Antibodies used are indicated (*distorted signal excluded). Bottom: quantification relative to loading controls. Means (x) with individual values (N = 3/4) are shown. e) Cell cycle phase distribution following expression of E2F7/E2F8 phospho-mutant variants. Means (x) with individual values (N = 4) are shown. All experiments were performed in HEK293T cells. Cells were fixed 40–44 h post-transfection. DNA content was assessed using propidium iodide (PI). Mutation sites: T45/T68 (E2F7); T20/T44 (E2F8. Statistical significance was determined by two-tailed Student’s t-test; P-values are indicated.
We next examined how phospho-regulation of E2F7 and E2F8 influences cell cycle control by comparing the effects of phospho-mimetic and non-phosphorylatable variants on E2F1 levels and cell cycle distribution (panels c and d). Both the raw data and the corresponding quantitative analyses are presented. Despite exogenous overexpression, we identified conditions that distinguish the behaviors of the two mutant classes. Cells expressing the phospho-mimetic variants consistently exhibited lower E2F1 and Plk1 levels than those expressing the non-phosphorylatable forms. This pattern supports a model in which phosphorylation of key Cdk1 sites in E2F7 and E2F8 elevates their stability, thereby enhancing their ability to suppress E2F1. Panel e extends these observations to cell cycle behavior: compared with the non-phosphorylatable variants, The phospho-mimetic forms of E2F7 and E2F8 consistently lower the proportion of S-phase cells, accompanied by corresponding shifts in the G1 population.
The central aim of this manuscript is to define how the Cdk1–PP2A axis is integrated into the APC/C–E2F1 regulatory network controlling cell cycle progression. Collectively, our findings support a model in which Cdk1/PP2A-dependent (de)phosphorylation modulates the stability of E2F7 and E2F8, thereby fine-tuning E2F1 activity and cell cycle progression.
Point 2. Minor: All optional: It would have been interesting to see the T20A/T44A/KM in the live cell experiment (Figure 3F).
This is an excellent point. Following Reviewer #2’s request, we generated a stable cell line expressing a KEN-box mutant variant of E2F8-T20A/T44A (N80 fragment). The figure below demonstrates the impact of the KEN-box mutation on the dynamics of N80-E2F8-T20A/T44A in HeLa cells. Together, our data from both cellular and cell-free systems show that the temporal dynamics of both wild-type and non-phosphorylatable variants of E2F8 depends on the KEN degron. Please note that due to differences in the flow cytometer settings used for acquiring the original measurements and those newly generated at the Reviewer’s request, the numeric data for N80-E2F8-T20A/T44A-KEN mutant will not be integrated into the original plots shown in the original Figure 3c–e in the manuscript.
Figure legend: Dynamics of mutant variants of N80-E2F8-EGFP in HeLa cells.
Top: Bivariate plots showing DNA content (DAPI) vs. EGFP fluorescence, with G1/G1-S phases and G2/M phases highlighted (black and gray frames, respectively). Bottom: Histograms showing EGFP signal distributions within these cell cycle phases. Blue arrows highlight subpopulations of G2/M cells with relatively low EGFP levels. The data was generated by flow cytometry.
Point 3. Figure 4C-D - include the corresponding blots for the WT E2F7.
This is a good point, which we previously overlooked. The requested data will be integrated in the revised manuscript.
Point 4. It is unclear how selective or potent the PP2A inhibitors are that are used in Figure 5. Is it possible to include known targets of PP2A (positive controls for PP2A inhibition) in the analysis performed in Figure 5?
Thank you for this helpful suggestion. Following Reviewer #2’s comment, we performed gel-shift assays of Cdc20 and C-terminal fragment of KIF4 (Residues: 732-1232), both known targets of PP2A (PMIDs: 26811472; 27453045). See data below.
__Figure legend: PP2A inhibitor LB-100 block protein dephosphorylation in G1-like extracts. __
Time-dependent gel shifts of mitotically phosphorylated Cdc20 and the C-terminal fragment of KIF4 (residues 732–1232) following incubation in G1 extracts supplemented with LB-100 or okadaic acid (OA; positive control). Substrates (IVT, 35S-labeled) were resolved by PhosTag SDS–PAGE and autoradiography.
Point 5. Is the APC still active in LB-100 or OA treated conditions? Is it possible to demonstrate the APC is active using known substrates in this assay (e.g., Securin (Cdc20) and Geminin (Cdh1) or similar).
This is an excellent point and we should have clarified this previously. Importantly, treatment with 250 µM LB-100 does not abolish APC/C-mediated degradation (otherwise, the assay would not be viable), but it does attenuate degradation kinetics. This is reflected by the prolonged half-lives of Securin and Geminin relative to mock-treated extracts (see below). Consistently, we noted in the manuscript: “Although APC/C-mediated degradation is also affected, it remains efficient, allowing us to measure relative half-lives of APC/C targets that cannot undergo PP2A-mediated dephosphorylation.” Following this comment, and one by Reviewer #3, these data will be included in the revised manuscript.
__Figure legend: APC/C-specific activity in cell extracts treated with LB-100. __
Time-dependent degradation of EGFP–Geminin (N-terminal fragment of 110 amino acids) and Securin in extracts supplemented with LB-100 and/or UbcH10 (recombinant). A control reaction contained dominant-negative (DN) UbcH10. Proteins (IVT, 35S-labeled) were resolved by SDS-PAGE and autoradiography.
Reviewer #2 (Significance (Required)): Advance: A detailed analysis is provided for the critical N-terminal residues in E2F7 and E2F8 that when phosphorylated are capable of restricting APC destruction. The work builds on prior work that had identified the APC regulation of E2F7 and E2F8.
Point 6. Audience: The manuscript would certainly appeal to a broad basic research audience that is interested in the regulation of APC substrates and/or E2F axis control via E2F7 & E2F8. The study could have a broader interest if the destruction of E2F7 or E2F8 could be shown to be biologically relevant (e.g., critical for cell fate decision G1 vs G0, G1 length, timely S-phase onset, or expression of E2F1 target genes in the subsequent cell cycle).
To clarify, we subdivided Reviewers’ comments into separate points. Reviewer #2’s Points 1 and 6 address essentially the same issue; our detailed response is therefore provided under Point 1. We again thank Reviewer #2 for raising this concern, which led to substantial revisions to both the manuscript text and the supporting data.
We thank Reviewer #2 for their constructive comments and criticism.
Reviewer #3 (Evidence, reproducibility and clarity (Required)):
This manuscript presents a well-structured study on the regulatory interplay between Cdk and Phosphatase in controlling the degradation of atypical E2Fs, E2F7 and E2F8. The work is relevant in the field of cell cycle regulation and provides new mechanistic insights into how phosphorylation and dephosphorylation govern APC/C-mediated degradation. The use of complementary cell-based and in vitro approaches strengthens the study, and the findings have significant implications for understanding the timing of transcriptional regulation in cell cycle progression.
Point 1. However, several points in this paper require further clarification for it to have a meaningful impact on the research community. The characterization of the phosphatase is unclear to me. The use of OA is necessary to guide the research, but it is not precise enough to rule out PP1 and then identify which PP2A is involved - PP2A-B55 or PP2A-B56. To clarify this, the regulatory subunits should either be eliminated or inhibited using the inhibitors developed by Jakob Nilsson's team.
We are grateful for this comment, which prompted an extensive series of experiments that have undoubtedly strengthened our manuscript.
First, we wish to clarify that LB-100, unlike okadaic acid (OA), is not considered a PP1 inhibitor.
Second, we have conducted a large set of experiments to address this important question of the strict identity of the phosphatase involved in the dephosphorylation of atypical E2Fs.
I. We initially attempted to immunodeplete the catalytic subunit of PP2A (α) from G1 extracts as a means to validate PP2A-dependent dephosphorylation. In retrospect, this was a naïve approach given the protein’s high abundance; although immunoprecipitation was successful, immunodepletion was inefficient, preventing us from using this strategy (see Panel a in the figure below). As an alternative, we incubated immunopurified PP2A-Cα with mitotic phosphorylated E2F7 and E2F8 fragments (illustrated in Panel b). A time-dependent gel-shift assay demonstrated enhanced dephosphorylation in the presence of immunopurified PP2A-Cα (Panel c) compared to immunopurified Plk1 (control reaction), suggesting that mitotically phosphorylated E2F7 and E2F8 are targeted by PP2A.
Figure legend: Immunopurified PP2A-Cα facilitates dephosphorylation of E2F7 and E2F8 in cell extracts. a) Inefficient immunodepletion (ID) of the catalytic subunit α of PP2A (PP2A-Cα) from cell extracts despite three rounds of immunopurification, as detected by immunoblotting (IB) with anti-PP2A-Cα and anti-BIP (loading control; LC) antibodies (BD bioscience, Cat#: 610555; Cell Signaling Technology, Cat#: 3177). Briefly, G1 cell extracts were diluted to ~10 mg/mL in a final volume of 65 μL. Anti-PP2A-Cα antibodies (3 μg) were coupled to protein G magnetic DynabeadsTM (15 μL; Novex, Cat#: 10004D) for 20 min at 20 °C. For each depletion round, antibody-coupled beads were incubated with cell extracts for 15 min at 20 °C. Cell extracts and beads were sampled after each step to assess immunodepletion and immunopurification (IP) efficiency. Equivalent immunopurification steps are shown for Plk1 (bottom). b) Schematic of the dephosphorylation assay using mitotically phosphorylated in vitro translated (IVT) targets and immuno-purified PP2A-Cα/Plk1. c) Dephosphorylation of mitotically phosphorylated E2F7 and E2F8 fragments, detected by electrophoretic mobility shifts in Phos-Tag SDS-PAGE. Immunopurified Plk1 was used for control reactions (antibodies: Santa Cruz Biotechnology: Cat#: SC-17783). *Image was altered to improve visualization of mobility shifts.
II. Next, we used pan-B55-specific antibodies for immunodepletion of all B55-type subunits. This approach was unsuccessful despite five rounds of immunopurification (see Panel a in the figure below). Both suboptimal binding and the high abundance of endogenous B55 subunits likely contributed to this outcome. Thus, dephosphorylation in B55-depleted extracts could not be tested.
Figure legend: PP2A-B55 facilitates dephosphorylation of E2F7 and E2F8 fragments.
a) __Immunodepletion (ID) of B55 subunits in G1 extracts is inefficient despite five rounds of immunopurification; assessed by immunoblotting (IB) using anti-pan-B55 and anti-Cdk1 (loading control; LC) antibodies (see previous figure for more details). Cell extracts and beads were sampled after each round to monitor immunodepletion and immunopurification efficiency. b) Schematic of a dephospho-rylation assay using immuno-purified B55 subunits. __c) __Dephosphorylation of mitotically phosphorylated E2F7 and E2F8 fragments by immuno-purified B55. Control reactions performed with immuno-purified Plk1. d) __Schematic of a dephosphorylation assay performed in G1 cell extracts supplemented with B55-interacting (B55i) or control peptides (see peptide sequence on next page). RO-3306 was added to limit Cdk1 activity. __e) __Dephosphorylation of E2F7 and E2F8 fragments (mitotically phosphorylated) in G1 extracts supplemented with B55-interacting/control peptides. __f) __Schematic of the dephosphorylation assay using in vitro–translated B55/B56 subunits (unlabeled). __g) __Dephosphorylation of mitotically phosphorylated E2F7 (top) and E2F8 (bottom) fragments in reticulocyte lysate containing B55/B56 subunits. Dephosphorylation was assessed by electrophoretic mobility shifts in Phos-Tag SDS-PAGE. Panels marked with an asterisk were adjusted to improve visualization of gel-shifts. Arrowheads denote distinct, time-dependent mobility-shifted forms of E2F7 and E2F8 fragments. Antibodies used: anti-pan-B55 (ProteinTech, Cat#: 13123-1-AP); anti-Plk1 (Santa Cruz Biotechnology, Cat#: SC-17783); anti-Cdk1 (Santa Cruz Biotechnology, Cat#: SC-53217). Dynabeads™ (Novex, Cat#: 10004D) were used for immunopurification.
As with PP2A-Cα, we incubated immunoprecipitated B55 subunits with mitotically phosphorylated E2F7 and E2F8 fragments (illustrated in Panel b). The results were less definitive compared to PP2A-Cα; nevertheless, they demonstrated accelerated dephosphorylation in the presence of immunopurified B55 subunits (Panel c) relative to Plk1 (control). These results hint at B55-mediated dephosphorylation of E2F7 and E2F8.
III. Given that PP2A-B55 could be immunodepleted satisfactorily, despite successful immunoprecipitation, we ordered the B55-specific peptide and corresponding control peptide reported recently by Jakob Nilsson’s team as PP2A-B55 inhibitors (see below).
Figure legend: Adapted from Kruse, T., et al., 2024; ____Science Advances. Figure 3, Panel B. ____PMID: 39356758.
Despite our long-anticipated wait for these peptides to arrive, this line of experimentation proved disappointing. We wish to elaborate:
The study by Kruse et al. (PMID: 39356758) is an elegant integration of classical enzymology, performed at the highest level, with structural insight into the conserved PP2A-B55 binding pocket that governs substrate specificity. Their work identified a consensus peptide that binds PP2A-B55 specifically with nanomolar affinity.
Kruse et al. provide compelling evidence for a direct and specific interaction between their reported B55 inhibitor (B55i) and PP2A-B55. Their data show that the engineered inhibitor disrupts the binding of helical elements that underlie substrate recognition by PP2A-B55.
However, we could not find direct evidence of PP2A-B55 enzymatic inhibition by the B55i peptide; for example, a B55-specific in vitro dephosphorylation assay demonstrating sensitivity to B55i in a dose-dependent manner. To the best of our understanding, the sole functional consequence described by Kruse et al. was the delay in mitotic exit observed upon expression of YFP-tagged B55i peptides in cells. However, this approach is indirect, given the long interval between cell manipulation and analysis and the complexity of mitotic exit. Furthermore, we assumed that the requested reagents had been validated in cell-free extracts; however, Kruse et al. do not report any experiments performed in these systems. We, in fact, became uncertain whether we had correctly understood Reviewer #3’s request to use these reagents and therefore sought clarification from the Editor.
In vitro, Kruse et al. reported nanomolar binding affinities for B55i (Figure S14). In our cell extracts, however, we required concentrations of approximately 250 μM to detect an effect on dephosphorylation, evident as altered electrophoretic mobility of both E2F7 and E2F8 (Panel e). At this concentration, the peptide also caused nonspecific effects, rendering the extracts highly viscous (‘gooey’), at times preventing part of the reaction mixture from passing through a 10 μL pipette tip.
The gel-shift assays shown in Panel e (Page 16) do demonstrate delayed dephosphorylation in extracts treated with the B55i peptide relative to the control peptide. Nevertheless, we prefer to exclude these data because the peptide concentrations required for the assay compromised extract integrity. Moreover, we believe that the PP2A-B55–specific peptide described by Nilsson et al. requires additional validation before it can be considered a reliable functional inhibitor in cell-free systems or in vivo. Accordingly, we are unable to directly address the experiments as suggested.
IV. In the final set of experiments (Page 16, Panels f and g), we supplemented dephosphorylation reactions with in vitro–translated B55/B56 subunits (illustrated in Panel f). Although the expected concentration of in vitro–translated proteins in reticulocyte lysate is relatively low (100–400 nM), we reasoned that supplementing the reactions with excess of regulatory B subunits (non-radioactive) could still promote dephosphorylation in a differential manner that reflects the B55/B56 preference of E2F7 and E2F8.
We cloned and in vitro expressed all nine B55/B56 regulatory subunits. While the exact amount of each subunit introduced into the reaction cannot be precisely determined, their expression levels were reasonably uniform (see figure below).
__Figure legend: Expression of B55/B56 subunits in reticulocyte lysate. __B55/B56 subunits were cloned into the pCS2 vector and expressed in reticulocyte lysate supplemented with ³⁵S-Methionin. Proteins were resolved by SDS–PAGE and autoradiography.
Returning to Panel g (Page 16), B55 subunits facilitated the accumulation of lower–electrophoretic mobility forms of both E2F7 and E2F8 fragments to the greatest extent. This is evident from the distinct lower–mobility species that emerge over time (marked by arrowheads) and the smear intensity corresponding to the buildup of dephosphorylated forms. Among the tested subunits, B55β exerted the strongest effect on both substrates, suggesting that mitotically phosphorylated E2F7 and E2F8 display a heightened preference for the PP2A-B55β holoenzyme. Control reactions with reticulocyte lysate are also shown.
Taken together, our original and newly added data indicate that PP2A, specifically PP2A-B55, counteracts Cdk1-dependent phosphorylation during mitotic exit. Importantly, cell cycle regulators such as Cdc20 can be targeted by both PP2A-B55 and PP2A-B56 holoenzymes. Thus, while we are confident in concluding that mitotically phosphorylated E2F7 and E2F8 are targeted by PP2A-B55, we cannot rule out the possibility of functional interactions between E2F7/E2F8 and PP2A-B56.
V. Last, but certainly not least, we used AlphaFold 3 to model interactions between the N-terminal fragments of E2F7 and E2F8 and the PP2A regulatory subunits. To clarify: for us, AlphaFold 3 remains very much a computational “black box,” and although this may sound like an overstatement, we did not anticipate obtaining meaningful or interpretable output.
According to the AlphaFold 3 developer guidelines, the Interface Predicted Template Modeling (IPTM) score is the primary confidence metric for protein–protein interaction predictions. IPTM values above 0.8 indicate high-confidence predictions, whereas values below 0.6 likely reflect failed interaction predictions. In our models, none of the predicted interactions exceeded 0.6 (see figure below). Nevertheless, for both E2F7 and E2F8 fragments, IPTM scores were consistently higher for B55 subunits than for B56 subunits, with B55β yielding the highest scores (each interaction was modeled five times).
__Figure legend: AlphaFold 3 predicts preferential interactions between E2F7 and E2F8 and PP2A-B55β. __Protein–protein interaction predictions between N-terminal fragments of E2F7 and E2F8 and B55/B56 regulatory subunits of PP2A were generated using AlphaFold 3 (AF3). The plot shows IPTM scores from five models per protein pair.
Even if one assumes a scenario in which AlphaFold 3 scores are inaccurate or effectively random, such non-specific behavior would not be expected to produce: (i) a reproducible preference of two distinct substrates for B55β and B55γ, in that order (the modeled fragments of E2F7 and E2F8 share The ability of AlphaFold 3, and specifically the IPTM metric, to predict bona fide PP2A B55/B56–substrate interactions remains unvalidated. Accordingly, we do not rely on these predictions as experimental evidence. Nonetheless, in retrospect, the IPTM scores for the E2F7 and E2F8 fragments proved, unexpectedly, to be highly informative. While we are not the first to explore AlphaFold in the context of PP2A phosphatases (e.g., Kruse et al.), at this early stage of AlphaFold 3 these observations are compelling and may ultimately have implications for PP2A-mediated signaling that extend well beyond the cell-cycle field.
Point 2. It would also be valuable for this study to investigate the mechanisms underlying this regulation. In particular, is it exclusive to E2F7-8 or could other substrates contribute to the generalisation of this regulatory process?
Assuming Reviewer #3 is referring to the cell cycle mechanism regulating E2F7 and E2F8 half-life via conditional degrons, we wish to clarify that the temporal dynamics of APC/C targets regulated by dephosphorylation has been demonstrated previously. Examples include KIFC1, CDC6, and Aurora A (PMIDs: 24510915; 16153703; 12208850, respectively).
Point 3. The observation that Cdc20 may target E2F8 is interesting but needs to be further clarified to ensure that weak Cdh1 activity does not contribute to this degradation. Elimination of Cdc20 would be necessary to support the authors' conclusion.
We gratefully acknowledge this input. The newly implemented experiment and corresponding findings are presented on the next page. The immunodepletion (ID) procedure (Panel a) achieved >60% reduction of Cdc20 and Plk1 in mitotic extracts (Panel b), as confirmed by immunoblotting (IB). Plk1-depleted extracts were used to validate extract-specific activity after successive rounds of immunodepletion at 20°C. Bead-bound Cdc20 and Plk1 were also analyzed by IB for validation (Panel b, right).
As expected, the phospho-mimetic E2F8 fragment (T20D/T44D) remained stable in Plk1- and Cdc20-depleted mitotic extracts, serving as negative control (Panel c). In contrast, degradation of the non-phosphorylatable variant (T20A/T44A), as well as the APC/CCdc20 substrate Securin (positive control), was strongly hampered in Cdc20-depleted extracts compared to Plk1-depleted extracts. These results confirm that the untimely degradation of the non-phosphorylatable E2F8 in mitotic extracts is Cdc20-dependent.
Figure legend: Untimely degradation of the non-phosphorylatable E2F8 in mitotic extracts is Cdc20-dependent.____a) Schematic of the immunodepletion (ID) protocol; additional technical details are provided below. b) Plk1 (top) and Cdc20 (bottom) levels in NDB mitotic extracts before and after three rounds of immunodepletion, as detected by immunoblotting (IB). Plk1 and Cdc20 levels were normalized to Tubulin and Cdk1, respectively. Both normalized and raw values are presented as percentages. Immunoprecipitation (IP) efficiency is shown on the right. c) Degradation profiles of phospho-mutant E2F8 variants and Securin (positive control) in NDB mitotic extracts depleted of Plk1 (control) or Cdc20.
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Point 4. This study focuses on two proteins of the E2F family. These two proteins share similar domains, phosphorylation sites and a KEN box. However, their sensitivity to APC is different. What might explain this difference? Are there any inhibitory sequences for E2F7? Or why is the KEN box functional in E2F8 but not in E2F7?
This is an excellent question. Here are our thoughts: The processivity of polyubiquitination by the APC/C varies between substrates in ways that influence degradation rate and timing (PMID: 16413484). Although E2F7 and E2F8 are related, their sequence identity is below
50%, and their C-terminal domains differ substantially (see below) [FIGURE]. These structural differences likely contribute to differences in APC/C-mediated processivity and, consequently, to variations in protein half-lives. Additionally, E2F8 contains two functional KEN-boxes involved in its degradation, whereas E2F7 has only one. This may increase the kon rate of E2F8 for the APC/C, further enhancing its recognition and ubiquitination. Furthermore, re-examining the study by de Bruin and Westendorp (PMID: 26882548, Figure 2f; copied below), we note that the dynamic of inducibly expressed EGFP-tagged E2F7 in cells exiting mitosis is milder compared to E2F8 (see the black lines in both charts). This, as well as the oversensitivity of E2F7 degradation to Cdh1 downregulation accord with E2F7 being less potent substrate of APC/CCdh1.
Figure legend: Adapted from Boekhout et al., 2016; ____EMBO Reports. Figure 2, Panel F. ____PMID: 26882548.
The stability of the E2F7 fragment in cells and extracts was unexpected. We initially hypothesized that the unique N-terminal tail of E2F7 masks the KEN-box, functioning as an inhibitory sequence. However, removal of this region did not restore degradation (original manuscript; Figure 1e). Furthermore, extending the fragment by 20 additional residues failed to confer degradation (original manuscript; Figure S2). These observations suggest that E2F7 may require a distal or modular docking site for APC/C recognition. We did not pursue this question further.
Point 5. An additional element that could strengthen this work would be referencing the study by Catherine Lindon: J Cell Biol, 2004 Jan 19;164(2):233-241. doi: 10.1083/jcb.200309035. In Figure 1 of this article, there is a degradation kinetics analysis of APC/C complex substrates such as Aurora-A/B, Plk1, cyclin B1, and Cdc20. This could help position the degradation of E2F7/8 relative to known APC/C targets. This can be achieved by synchronizing cells with nocodazole and then removing the drug to allow cells to progress and complete mitosis.
This is an interesting point and one we should have clarified better previously. The temporal dynamics of E2F8 in synchronized HeLa S3 cells, relative to three known APC/C substrates, were reported in our previous study (PMID: 31995441; Figure 1a, copied on the right). Specifically, protein levels were measured for Cyclin B1, Securin, and Kifc1. Unlike Cyclin B1 and Securin, which are targeted by both APC/CCdc20 and APC/CCdh1, Kifc1 is degraded exclusively by APC/CCdh1. Cells were released from a thymidine–nocodazole block.
Following Reviewer #3’s comment, we re-blotted the original HeLa S3 synchronous extracts. The new data [FIGURE] can be incorporated into the revised manuscript if requested.
Point 6. Minor points: Does phosphorylation of E2F7-8 proteins alter their NMR profile? This could help understand how phosphorylation/dephosphorylation affects their sensitivity to the APC/C complex.
Excellent suggestion. Indeed, we had originally aimed to include a more extensive set of NMR data in this manuscript. Our goal was to monitor E2F7 and E2F8 fragments in cell extracts and assess structural changes induced by phosphorylation and dephosphorylation during mitosis and mitotic exit. However, purifying the E2F7 fragment proved more challenging than anticipated. In addition, the extract-to-substrate ratio requires further optimization: Substrate concentrations must be high enough for reliable NMR detection, but below levels that would saturate the enzymatic activity in the extracts.
That said, the short answer to the reviewer’s question is Yes: NMR profiles of E2F7 and E2F8 fragment do change following incubation with recombinant Cdk1–Cyclin B1 (see next page). If possible, we wish to exclude these NMR data from the manuscript.
Point 7. Do these substrates bind to the APC/C complex before degradation? Does E2F7 bind better than E2F8?
We were unable to detect interactions between endogenous E2F7 and E2F8 and the APC/C complex. In general, detecting endogenous E2F8, and especially E2F7, by immunoblotting proved challenging, making co-immunoprecipitation (Co-IP) even more difficult.
Figure legend: NMR-based monitoring of E2F7 (a-c) and E2F8 (d-f) phosphorylation by Cdk1.
a(d). 15N,1H-HSQC spectrum of E2F7(E2F8) prior to addition of Cdk1. Threonine residues of interest, T45 (T20) conforming to the consensus sequence (followed by a proline), and T84 (T60) lacking the signature sequence are annotated. b(e). Strips from the 3D-HNCACB spectrum used for assigning E2F7(E2F8) residues. Black (green) peaks indicate a correlation with the 13Cα (13Cβ) of the same and previous residues. The chemical shifts assigned to T45 (T20) and T84 (T60) match the expected values for K44(K19) and P83(P59), thereby confirming the assignment. c(f). Top, overlay of subspectra before adding Cdk1 (black) and after 16 h of activity (red) at 298 K. Bottom, change in intensities of the T45/T84 in E2F7 and T20/T60 in E2F8 showing how NMR monitors phosphorylation and distinguishes between various threonine residues.
However, interactions between EGFP-tagged E2F7 snd E2F8 and Cdh1 have been demonstrated previously (PMID: 26882548, Figure 2e). In contrast, only the N-terminal fragment of E2F8, but not the corresponding fragment of E2F7, was found to bind Cdh1 (see figure on the right). This observation is consistent with the stability of the E2F7 fragment in APC/C-active extracts.
__Figure legend: N-terminal fragment of E2F8 but not E2F7 binds Cdh1. __
Co-Immunoprecipitation (IP) was performed in HEK293 cells transfected with EGFP-tagged E2F7/E2F8 fragments, using GFP-Trap® (Chromotek, Cat#: GTMA-20). Antibodies used for immunoblotting: ant-GFP (Santa Cruz Biotechnology: Cat#: SC-9996); anti-Cdh1 (Sigma-Aldrich, Cat#: MABT1323).
Point 8. Why do the authors state that 250 µM of LB-100 has little effect on APC/C activity?
We thank Reviewers #2 and 3 for raising this point. As shown in the manuscript, treatment with 250 µM LB-100 does not abolish APC/C-mediated degradation (otherwise, the assay would not be viable). However, it does attenuate degradation kinetics, as reflected by the prolonged half-lives of Securin and Geminin (see figure below).
__Figure legend: APC/C-specific activity in cell extracts treated with LB-100. __
Time-dependent degradation of EGFP–Geminin (N-terminal fragment of 110 amino acids) and Securin in extracts supplemented with LB-100 and/or UbcH10 (recombinant). A control reaction contained dominant-negative (DN) UbcH10. Proteins (IVT, 35S-labeled) were resolved by SDS-PAGE and autoradiography.
Point 9. How can E2F8 be a substrate for both the SCF and APC/C complexes? (If I understood correctly.)
This can happen because they are degraded by different E3 at different times during the cell cycle. To clarify further, certain proteins can be targeted by both the APC/C and SCF complexes, reflecting distinct regulatory needs. A classic example is CDC25A, as shown by M. Pagano and A. Hershko in 2002 (PMID: 12234927). Additional examples include the APC/C inhibitor EMI1 (PMIDs: 12791267 [SCF] and 29875408 [APC/C]).
Reviewer #3 (Significance (Required)): This manuscript presents a well-structured study on the regulatory interplay between Cdk and Phosphatase in controlling the degradation of atypical E2Fs, E2F7 and E2F8. The work is relevant in the field of cell cycle regulation and provides new mechanistic insights into how phosphorylation and dephosphorylation govern APC/C-mediated degradation. The use of complementary cell-based and in vitro approaches strengthens the study, and the findings have significant implications for understanding the timing of transcriptional regulation in cell cycle progression.
We wish to thank Reviewer #3 for their positive and encouraging view of our work.
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This manuscript presents a well-structured study on the regulatory interplay between Cdk and Phosphatase in controlling the degradation of atypical E2Fs, E2F7 and E2F8. The work is relevant in the field of cell cycle regulation and provides new mechanistic insights into how phosphorylation and dephosphorylation govern APC/C-mediated degradation. The use of complementary cell-based and in vitro approaches strengthens the study, and the findings have significant implications for understanding the timing of transcriptional regulation in cell cycle progression.
However, several points in this paper require further clarification for it to have a meaningful impact on the research community. The characterization of the phosphatase is unclear to me. The use of OA is necessary to guide the research, but it is not precise enough to rule out PP1 and then identify which PP2A is involved - PP2A-B55 or PP2A-B56. To clarify this, the regulatory subunits should either be eliminated or inhibited using the inhibitors developed by Jakob Nilsson's team. It would also be valuable for this study to investigate the mechanisms underlying this regulation. In particular, is it exclusive to E2F7-8 or could other substrates contribute to the generalisation of this regulatory process?
The observation that Cdc20 may target E2F8 is interesting, but needs to be further clarified to ensure that weak Cdh1 activity does not contribute to this degradation. Elimination of Cdc20 would be necessary to support the authors' conclusion.
This study focuses on two proteins of the E2F family. These two proteins share similar domains, phosphorylation sites and a KEN box. However, their sensitivity to APC is different. What might explain this difference? Are there any inhibitory sequences for E2F7? Or why is the KEN box functional in E2F8 but not in E2F7?
An additional element that could strengthen this work would be referencing the study by Catherine Lindon: J Cell Biol, 2004 Jan 19;164(2):233-241. doi: 10.1083/jcb.200309035. In Figure 1 of this article, there is a degradation kinetics analysis of APC/C complex substrates such as Aurora-A/B, Plk1, cyclin B1, and Cdc20. This could help position the degradation of E2F7/8 relative to known APC/C targets. This can be achieved by synchronizing cells with nocodazole and then removing the drug to allow cells to progress and complete mitosis.
Minor points:
Does phosphorylation of E2F7-8 proteins alter their NMR profile? This could help understand how phosphorylation/dephosphorylation affects their sensitivity to the APC/C complex.
Do these substrates bind to the APC/C complex before degradation? Does E2F7 bind better than E2F8?
Why do the authors state that 250 µM of LB-100 has little effect on APC/C activity?
How can E2F8 be a substrate for both the SCF and APC/C complexes? (If I understood correctly.)
This manuscript presents a well-structured study on the regulatory interplay between Cdk and Phosphatase in controlling the degradation of atypical E2Fs, E2F7 and E2F8. The work is relevant in the field of cell cycle regulation and provides new mechanistic insights into how phosphorylation and dephosphorylation govern APC/C-mediated degradation. The use of complementary cell-based and in vitro approaches strengthens the study, and the findings have significant implications for understanding the timing of transcriptional regulation in cell cycle progression.
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The study highlights a dephosphorylation switch mediated by PP2A as a critical mechanism for coupling E2F7/8 degradation to mitotic exit and G1 phase. The study is clear and experiments are well conducted with appropriate controls
I have some concerns highlighted below :
In this sentence : This intricate network of feedback mechanisms ensures the orderly progression of the cell cycle. What feedback mechanism are the authors referring to?
Characterization of disorder in the N-terminal segments of E2F7 and E2F8
What does it mean disorder in this title?
In the paragraph on the untimely degradation of E2F8 the authors keep referring to APC/C Cdc20, however the degradation is triggered by the Ken box which is specifically recognised by APC/C Cdh1. Can it be due to another ligase not APC/C?
The assays to detect dephosphorylation are rather indirect so it is difficult to establish whether phosphorylation of CDK1 and dephosphorylation by PP2A on the fragments is direct.
Although there seems to be a control by phosphorylation and dephosphorylation (which could be indirect), it is difficult to establish the functional consequences of this observation. The authors propose a feedback mechanism which regulates the temporal activation inactivation of E2F7/8 however, there are no evidence in support of this.
The study is a good and well conducted work to understand the mechanisms regulating degradation of E2F7/8 by APC/C. This is crucial to establish coordinated celll cycle progression. While the hypothesis that disruption of this mechanism is likely responsible for altered cell cycle progression, there are no evidence this is just a back up pathway, whose functional significance could be limited to lack of APC/C Cdh1 activity. These experiments are rather difficult but the authors could comment on the limitation of the study and emphasise the hypothetical alterations which could result from the alterations of the described feedback loop
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The manuscript by Tarafder et al. describes an interdisciplinary approach, combining biophysical modeling and microbiology, to target antibiotic tolerance in P. aeruginosa biofilms. A key conceptual contribution is the strategy of inhibiting a biophysical mechanism instead of a biochemical interaction. The study is logically organized, advancing from a theoretical model to the design of effective nanobody inhibitors, which are then validated across a series of experimental systems, from in vitro assays to complex static and flow-cell biofilms. The data robustly support the authors' conclusions, suggesting a potentially valuable approach for managing biofilm-based infection. Overall, this is a very interesting and robust study. The conclusions are well-supported by the evidence provided, and the manuscript is well-written, with figures that effectively illustrate the key results.
Major comments:
Minor comments
This study provides a mechanistic insight into the advance and offers a complementary approach to treating biofilm-related infections, which remains an unexplored area in the field. The reported findings are likely to be of interest and significance to microbiologists and clinicians concerned with biofilm infections.
My own expertise lies in the genetic and biochemical aspects of prophage induction and biofilm formation. Therefore, the details of nanobodies and their potential side effects fall outside the scope of my evaluation.
Reviewer #3 (Public review):
This work aims to establish cell-type-specific changes in gene expression upon exposure to different flavors of commercial e-cigarette aerosols compared to control or vehicle. Kaur et al. conclude that immune cells are most affected, with the greatest dysregulation found in myeloid cells exposed to tobacco-flavored e-cigs and lymphoid cells exposed to fruit-flavored e-cigs. The up- and down-regulated genes are heavily associated with innate immune response. The authors suggest that a Ly6G-deficient subset of neutrophils is found to be increased in abundance for the treatment groups, while gene expression remains consistent, which could indicate impaired function. Increased expression of CD4+ and CD8+ T cells along with their associated markers for proliferation and cytotoxicity is thought to be a result of activation following this decline in neutrophil-mediated immune response.
Strengths:
Single-cell sequencing data can be very valuable in identifying potential health risks and clinical pathologies of lung conditions associated with e-cigarettes considering they are still relatively new.
Not many studies have been performed on cell-type-specific differential gene expression following exposure to e-cig aerosols.
The assays performed address several factors of e-cig exposure such as metal concentration in the liquid and condensate, coil composition, cotinine/nicotine levels in serum and the product itself, cell types affected, which genes are up- or down-regulated and what pathways they control.
Considerations were made to ensure clinical relevance such as selecting mice whose ages corresponded with human adolescents so that data collected was relevant.
The discussion addresses the limitations of this study.
Weaknesses:
The exposure period of 1 hour a day for 5 days is not representative of chronic use and this time point may be too short to see a full response in all cell types. There is no gold standard in the field.
Most findings are based on scRNA-seq alone, so interpretations should be made with care as some conclusions are observational.
This paper provides a good foundation for future follow-up studies that will examine the effects of e-cig exposure on innate immunity.
Author response:
The following is the authors’ response to the previous reviews.
Public Reviews:
Reviewer #1 (Public review):
The authors assess the impact of E-cigarette smoke exposure on mouse lungs using single cell RNA sequencing. Air was used as control and several flavors (fruit, menthol, tobacco) were tested. Differentially expressed genes (DEGs) were identified for each group and compared against the air control. Changes in gene expression in either myeloid or lymphoid cells were identified for each flavor and the results varied by sex. The scRNAseq dataset will be of interest to the lung immunity and e-cig research communities and some of the observed effects could be important. Unfortunately, the revision did not address the reviewers' main concerns about low replicate numbers and lack of validations. The study remains preliminary, and no solid conclusions could be drawn about the effects of E-cig exposure as a whole or any flavor-specific phenotypes.
Strengths:
The study is the first to use scRNAseq to systematically analyze the impact of e-cigarettes on the lung. The dataset will be of broad interest.
Weaknesses:
scRNAseq studies may have low replicate numbers due to the high cost of studies but at least 2 or 3 biological replicates for each experimental group is required to ensure rigor of the interpretation. This study had only N=1 per sex per group and some sex-dependent effects were observed. This could have been remedied by validating key observations from the study using traditional methods such as flow cytometry and qPCR, but the limited number of validation experiments did not support the conclusions of the scRNA seq analysis. An important control group (PG:VG) had extremely low cell numbers and was basically not useful. Statistical analysis is lacking in almost all figures. Overall, this is a preliminary study with some potentially interesting observations, but no solid conclusions can be made from the data presented.
The only new validation experiment is the immunofluorescent staining of neutrophils in Figure 4. The images are very low resolution and low quality and it is not clear which cells are neutrophils. S100A8 (calprotectin) is highly abundant in neutrophils but not strictly neutrophil-specific. It's hard to distinguish positive cells from autofluorescence in both Ly6g and S100a8 channels. No statistical analysis in the quantification.
We thank the reviewer for identifying the strengths of this study and pointing out the gaps in knowledge. Overall, our purpose to present this data is to provide the scRNA seq results as a resource to a wider community. We have used techniques like flow cytometry, multianalyte cytokine array and immunofluorescence to validate some of the results. We agree with the reviewer that we were unable to rightly point out the significance of our findings with the immunofluorescent stain in the previous edit. We have revised the manuscript and included the quantification for both Ly6G+ and S100A8+ cells in e-cig aerosol exposed and control lung tissues. Briefly, we identified a marked decrease in the staining for S100A8 (marker for neutrophil activation) in tobacco-flavored e-cig exposed mouse lungs as compared to controls. Upon considering the corroborating evidence from scRNA seq and flow cytometry with regards to increased neutrophil percentages in experimental group and lowered staining for active neutrophils using immunofluorescence, we speculate that exposure to e-cig (tobacco) aerosols may alter the neutrophil dynamics within the lungs. Also, co-immunofluorescence identified a more prominent co-localization of the two markers in control samples as compared to the treatment group which points towards some changes in the innate immune milieu within the lungs upon exposures. Future work is required to validate these speculations.
We have now discussed all the above-mentioned points in the Discussion section of the revised manuscript and toned down our conclusions regarding sex-dependent changes from scRNA seq data.
It is unclear what the meaning of Fig. 3A and B is, since these numbers only reflect the number of cells captured in the scRNAseq experiment and are not biologically meaningful. Flow cytometry quantification is presented as cell counts, but the percentage of cells from the CD45+ gate should be shown. No statistical analysis is shown, and flow cytometry results do not support the conclusions of scRNAseq data.
We thank the reviewer for this question. However, we would like to highlight that scRNA seq and flow cytometry may show similar trends but cannot be identical as one relies on cell surface markers (protein) for identification of cell types, while other is dependent on the transcriptomic signatures to identify the cell types. In our data, for the myeloid cells (alveolar macrophages and neutrophils), the scRNA and flow cytometry data match in trend. However, the trends do not match with respect to the lymphoid cells being studied (CD4 and CD8 T cells). The possible explanation for such a finding could be possible high gene dropout rates in scRNA seq, different analytical resolution for the two techniques and pooling of samples in our single cell workflow. We realize these shortcomings in our analyses and mention it clearly in the discussion as limitation of our work. It is important to note also that cell frequencies identified in scRNA seq just provide wide and indistinct indications which need to be further validated, which we tried to accomplish in our work to some degree. Our flow-based results clearly highlight the sex-specific variations in the immune cell percentages (something we could not have anticipated earlier). In future studies, we will include more replicates to tease out sex-based variations upon acute and chronic exposure to e-cig aerosols.
We have now replotted the graphs in Fig 3A and B and plotted the flow quantification as the percentage of total CD45+ cells. The gating strategy for the flow plots is also included as Figure S6 in the revised manuscript.
Reviewer #2 (Public review):
This study provides some interesting observations on how different flavour e-cigarettes can affect lung immunology; however, there are numerous flaws, including a low replicate number and a lack of effective validation methods, meaning findings may not be repeated. This is a revised article but several weaknesses remain related to the analysis and interpretation of the data.
Strengths:
The strength of the study is the successful scRNA-seq experiment which gives some preliminary data that can be used to create new hypotheses in this area.
Weaknesses:
Although some text weaknesses have been addressed since resubmission, other specific weaknesses remain: The major weakness is the n-number and analysis methods. Two biological n per group is not acceptable to base any solid conclusions. Any validatory data was too little (only cell % data) and not always supporting the findings (e.g. figure 3D does not match 3B/4A). Other examples include:
There aren't enough cells to justify analysis - only 300-1500 myeloid cells per group with not many of these being neutrophils or the apparent 'Ly6G- neutrophils'.
We thank the reviewer for the comment, but we disagree with the reviewer in terms of the justification of analyses. All the flavored e-cig aerosol groups were compared with air controls to deduce the outcomes in the current study. We already acknowledge low sample quality for PGVG group and have only included the comparisons with PGVG upon reviewer’s request which is open to interpretation by the reader.
By that measure, each treatment group (except PGVG group) has over 1000 cells with 24777 genes being analyzed for each cell type, which by the standards of single cell is sufficient. We understand that this strategy should not be used for detection of rare cell populations, which was neither the purpose of this manuscript nor was attempted. We conduct comparisons of broader cell types and mention more samples need to be added in the Discussion section of the revised manuscript.
As for the Ly6G neutrophil category, we don’t only base our results on scRNA analyses but also perform co-immunofluorescence and multi-analyte analyses and use evidence from previous literature to back our outcome. To avoid over-stating our results we have revamped the whole manuscript and ensured to tone down our results with relation to the presence of Ly6G- neutrophils. We do understand that more work is required in the future, but our work clearly shows the shift in neutrophil dynamics upon exposure which should be reported, in our opinion.
The dynamic range of RNA measurement using scRNAseq is known to be limited - how do we know whether genes are not expressed or just didn't hit detection? This links into the Ly6G negative neutrophil comments, but in general the lack of gene expression in this kind of data should be viewed with caution, especially with a low n number and few cells. The data in the entire paper is not strong enough to base any solid conclusion - it is not just the RNA-sequencing data.
We acknowledge this to be a valid point and have revamped the manuscript and toned down our conclusions. However, such limitations exist with any scRNA seq dataset and so must be interpreted accordingly by the readers. We do understand that due to the low cell counts and the limitations with scRNA seq we should not perform DESeq2 analyses for Ly6G+ versus Ly6G- neutrophil categories, which was never attempted at the first place. However, our results with co-immunofluorescence, multianalyte assay and scRNA expression analyses in myeloid cluster do point towards a shift in neutrophil activation which needs to be further investigated. Furthermore, Ly6G deficiency has been linked to immature neutrophils in many previous studies and is not an unlikely outcome that needs to be treated with immense skepticism.
We wish to make this dataset available as a resource to influence future research. We are aware of its limitations and have been transparent with regards to our experimental design, capture strategy, the quality of obtained results, and possible caveats to make it is open for discussion by the readers.
There is no data supporting the presence of Ly6G negative neutrophils. In the flow cytometry only Ly6G+ cells are shown with no evidence of Ly6G negative neutrophils (assuming equal CD11b expression). There is no new data to support this claim since resubmission and the New figures 4C and D actually show there are no Ly6G negative cells - the cells that the authors deem Ly6G negative are actually positive - but the red overlay of S100A8 is so strong it blocks out the green signal - looking to the Ly6G single stains (green only) you can see that the reported S100A8+Ly6G- cells all have Ly6G (with different staining intensities).
We thank the reviewer for this query and do understand the skepticism. We have now quantified the data to provide more clarity for interpretation. As we were using paraffin embedded tissues, some autofluorescence is expected which could explain some of reviewer’s concerns. However we expect that the inclusion of better quality images and quantification must address some of the concerns raised by the reviewer.
Eosinophils are heavily involved in lung macrophage biology, but are missing from the analysis - it is highly likely the RNA-sequence picked out eosinophils as Ly6G- neutrophils rather than 'digestion issues' the authors claim
We thank the reviewer for raising a valid concern. However, the Ly6G- cluster cannot be eosinophils in our case. Literature suggests SiglecF as an important biomarker of eosinophils which was absent in the Ly6G- cluster our in scRNA seq analyses as shown in File S18 and Figure 6B of the revised manuscript. We have now provided a detailed explanation (Lines 476-488; 503-506) of the observed results pertaining to eosinophil population in the revised manuscript to further address some of the concerns raised by this reviewer.
After author comments, it appears the schematic in Figure 1A is misleading and there are not n=2/group/sex but actually only n=1/group/sex (as shown in Figure 6A). Meaning the n number is even lower than the previous assumption.
We concur with reviewers’ valid concern and so are willing to provide this data as a resource for a wider audience to assist future work. Pooling of samples have been practiced by many groups previously to save resources and expense. We did it for the very same reason. It may not be the preferred approach, but it still has its merit considering the vast amount of cell-specific data generated using this strategy. To avoid overstating our results we have ensured to maintain transparency in our reporting and acknowledge all the limitations of this study.
We do not believe that the strength of scRNA seq lies in drawing conclusive results, but to tease our possible targets and direction that need to be validated with more work. In that respect, our study does identify the target cell types and biological processes which could be of importance for future studies.
Reviewer #3 (Public review):
This work aims to establish cell-type specific changes in gene expression upon exposure to different flavors of commercial e-cigarette aerosols compared to control or vehicle. Kaur et al. conclude that immune cells are most affected, with the greatest dysregulation found in myeloid cells exposed to tobacco-flavored e-cigs and lymphoid cells exposed to fruit-flavored e-cigs. The up- and down-regulated genes are heavily associated with innate immune response. The authors suggest that a Ly6G-deficient subset of neutrophils is found to be increased in abundance for the treatment groups, while gene expression remains consistent, which could indicate impaired function. Increased expression of CD4+ and CD8+ T cells along with their associated markers for proliferation and cytotoxicity is thought to be a result of activation following this decline in neutrophil-mediated immune response.
Strengths:
Single cell sequencing data can be very valuable in identifying potential health risks and clinical pathologies of lung conditions associated with e-cigarettes considering they are still relatively new.
Not many studies have been performed on cell-type specific differential gene expression following exposure to e-cig aerosols.
The assays performed address several factors of e-cig exposure such as metal concentration in the liquid and condensate, coil composition, cotinine/nicotine levels in serum and the product itself, cell types affected, which genes are up- or down-regulated and what pathways they control.
Considerations were made to ensure clinical relevance such as selecting mice whose ages corresponded with human adolescents so that data collected was relevant.
Weaknesses:
The exposure period of 1 hour a day for 5 days is not representative of chronic use and this time point may be too short to see a full response in all cell types. The experimental design is not well-supported based on the literature available for similar mouse models. Clinical relevance of this short exposure remains unclear.
We thank the reviewer for this query. However, we would like to emphasize that chronic exposure was never the intention of this study. We wished to design a study for acute nose-only exposure owing to which the study duration was left shorter. Shorter durations limit the stress and discomfort to the animal. The in vivo study using nose-only exposure regimen is still developing with multiple exposure regimen being used by different groups. To our knowledge there is no gold standard of e-cig aerosol exposure which is widely accepted other than the CORESTA recommendations, which we followed. Also, we show in our study how the daily exposure to leached metals vary in a flavor-dependent manner thus validating that exposure regime does need more attention in terms of equal dosing, particle distribution and composition- something we have started doing in our future studies. We have included all the explanations in the revised manuscript (Lines 82-85, 425-435, 648-654).
Several claims lack supporting evidence or use data that is not statistically significant. In particular, there were no statistical analyses to compare results across sex, so conclusions stating there is a sex bias for things like Ly6G+ neutrophil percentage by condition are observational.
We agree with reviewer’s comment and have taken this into consideration. We have now revamped the whole manuscript and toned down most of the sex-based conclusions stated in this work. Having said that, it is important to note that most of the work relying solely on scRNA seq, as is the case for this study, is observational in nature and needs to be assessed bearing this in mind.
Overall, the paper and its discussion are relatively surface-level and do not delve into the significance of the findings or how they fit into the bigger picture of the field. It is not clear whether this paper is intended to be used as a resource for other researchers or as an original research article.
We have now reworked on the Discussion and tried to incorporate more in-depth discussion and the results providing our insights regarding the observations, discrepancies and the possible explanations. We have also made it clear that this paper is intended to be used as a resource by other researchers (Lines 577-579)
The manuscript has some validation of findings but not very comprehensive.
We have now revamped the manuscript. We have Included quantification for immunofluorescence data with better representation of the GO analyses. We have worked on the Results and Discussion sections to make this a useful resource for the scientific community.
This paper provides a strong foundation for follow-up experiments that take a closer look at the effects of e-cig exposure on innate immunity. There is still room to elaborate on the differential gene expression within and between various cell types.
We thank the reviewer for pointing out the strength of this paper. The reason why we refrained from elaborating of the differential gene expressions within and between various cell types was due to low sample number and sequencing depth for this study. However the raw data will be provided with the final publication, which should be freely accessible to the public to re-analyze the data set as they deem fit.
Comments on revisions:
The reviewers have addressed major concerns with better validation of data and improved organization of the paper. However, we still have some concerns and suggestions pertaining to the statistical analyses and justifications for experimental design.
We appreciate the nuance of this experimental design, and the reviewers have adequately commented on why they chose nose-only exposure over whole body exposure. However, the justification for the duration of the exposure, and the clinical relevance of a short exposure, have not been addressed in the revised manuscript.
We thank the editor for this query. We have now addressed this query briefly in Lines 82-85, 425-435, 648-654 of the revised manuscript. We would like to add, however, that we intend to design a study for acute nose-only exposure for this project. Shorter durations limit the stress and discomfort to the animal, owing to which a duration of 1hour per day was chosen. The in vivo study using nose-only exposure regimen is still developing with multiple exposure regimen being used by different groups. Ours is one such study in that direction just intended to identify cell-specific changes upon exposure. Considering our results in Figure 1B showing variations in the level of metals leached in each flavor per day, the appropriate exposure regimen to design a controlled, reproducible experiment needs to be discussed. There could be room for improvement in our strategy, but this was the best regimen that we found to be appropriate per the literature and our prior knowledge in the field.
The presentation of cell counts should be represented by a percentage/proportion rather than a raw number of cells. Without normalization to the total number of cells, comparisons cannot be made across groups/conditions. This comment applies to several figures.
We thank the editor for this comment and have now made the requested change in the revised manuscript.
We appreciate that the authors have taken the reviewers' advice to validate their findings. However, we have concerns regarding the immunofluorescent staining shown in Figure 4. If the red channel is showing a pan-neutrophil marker (S100A8) and the green channel is showing only a subset of neutrophils (LY6G+), then the green channel should have far less signal than the red channel. This expected pattern is not what is shown in the figure, with the Ly6G marker apparently showing more expression than S100A8. Additionally, the FACS data states that only 4-5% of cells are neutrophils, but the red channel co-localizes with far more than 4-5% of the DAPI stain, meaning this population is overrepresented, potentially due to background fluorescence (noise). In addition, some of the shapes in the staining pattern do not look like true neutrophils, although it is difficult to tell because there remains a lot of background staining. The authors need to verify that their S100A8 and Ly6G antibodies work and are specific to the populations they intend to target. It is possible that only the brightest spots are truly S100A8+ or Ly6G+.
We thank the editor for this comment and acknowledge that we may have made broad generalizations in our interpretation of our data previously. We have now revisited the data and quantified the two fluorescence for better interpretation of our results. We have also reassessed our conclusions from this data and reworded the manuscript accordingly. Briefly we believe that Ly6G deficiency could be an indication of the presence of immature neutrophils in the lungs. This is a common process of neutrophil maturation. An active neutrophil population has Ly6G and should also express S100A8 indicating a normal neutrophilic response against stressors. However, our results, despite some autofluorescence which is common with lung tissues, shows a marked decline in the S100A8+ cells in the lung of tobacco-flavored e-cig aerosol exposed mice as compared to air controls. We also do not see prominent co-localization of the two markers in exposed group thus proving a shift in neutrophil dynamics which requires further investigation. We would also like to mention here that S100A8 is predominantly expressed in neutrophils, but is also expressed by monocytes and macrophages, so that could explain the over-representation of these cells in our immunofluorescence results. We have now included this in the Discussion section (Lines 489- 538) of the revised manuscript.
Paraffin sections do not always yield the best immunostaining results and the images themselves are low magnification and low resolution.
We agree with the editor that paraffin sections may not yield best results, we have worked on the final figure to improve the quality of the displayed results and zoomed-in some parts of the merged image to show the differences in the co-localization patterns for the two markers in our treated and control groups for easier interpretation.
Please change the scale bars to white so they are more visible in each channel.
The merged image in Figure 6C now has a white scale bar.
We appreciate that this is a preliminary test used as a resource for the community, but there is interesting biology regarding immune cells that warrants DEG analysis by the authors. This computational analysis can be easily added with no additional experiments required.
We thank the editor for this comment and agree that interesting biology regarding immune cells could be explored upon performing the DEG analyses on individual immune populations. However, due to the small sample size, low sequencing depth and pooling of same sex animals in each treatment group, we refrained from performing that analyses fearing over-representation of our results. We will be providing the link to the raw data with this publication which will be freely accessible to public on NIH GEO resource to allow further analyses on this dataset by the judgement of the investigator who utilizes it as a resource.
Recommendations for the authors:
Reviewer #1 (Recommendations for the authors):
(Minor) The pathway analyses in Fig. 6-8 have different fonts than what's used in all other figures.
We have now made the requested change in the revised manuscript.
Dossier de Synthèse : État Limite
Ce document de synthèse analyse les thèmes centraux d'un corpus de textes décrivant le quotidien d'un service de psychiatrie au sein d'un hôpital public français.
Il met en lumière une crise systémique profonde, caractérisée par une pénurie critique de moyens et de personnel, entraînant l'épuisement des soignants et une déshumanisation des soins.
Face à ce système défaillant, un psychiatre, figure centrale du document, incarne une philosophie du soin basée sur la création de liens humains et la confiance, remettant en question les logiques institutionnelles de quantification et de contention.
À travers une série d'études de cas poignantes — patients suicidaires, polytoxicomanes, psychotiques — le document expose la complexité de la souffrance psychique et les dilemmes éthiques constants auxquels les praticiens sont confrontés.
En définitive, le corpus présente la psychiatrie publique non seulement comme un domaine médical, mais comme une métaphore des tensions de la société, où la question de l'inclusion, de la productivité et de l'interdépendance humaine est posée de manière cruciale.
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Le thème le plus prégnant est celui de l'effondrement du système hospitalier public, en particulier dans le secteur psychiatrique.
Cette crise se manifeste à plusieurs niveaux interdépendants.
Le manque de ressources est une plainte récurrente et fondamentale.
Les institutions sont décrites comme "très paupérisées" et fonctionnant avec des "moyens très faibles".
Cette situation a des conséquences directes sur la qualité des soins et la tension au sein des équipes.
• Sous-effectif chronique : Un soignant déplore que le sous-effectif soit devenu "une habitude", menant à une baisse continue des effectifs car le système "marche" malgré tout.
Il estime qu'il faudrait "5, 6, 7 psychiatres de plus" dans l'hôpital.
• Conséquences matérielles : Un exemple trivial mais révélateur est celui d'un robinet aux urgences qui reste cassé pendant deux mois, alors que des graffitis sont effacés immédiatement.
• Impact sur la prise en charge : Le manque de personnel et de brancards conduit à des situations où des "choix" doivent être faits, au détriment de patients vulnérables comme les SDF, ce qu'un soignant juge inacceptable :
« Je ne suis pas rentré dans ce métier moi pour faire des choix et pour pas m'occuper d'un mec SDF ».
Le psychiatre principal exprime une opposition farouche à la logique de gestion comptable qui s'impose à l'hôpital, notamment la tarification à l'activité (T2A), qu'il juge incompatible avec la nature même du soin psychiatrique.
• L'inquantifiable du soin : « Le problème c'est que moi je lutte contre une logique où on ne peut pas quantifier ce que je fais [...] le traitement c'est de la relation, c'est de bâtir des relations de confiance [...] ça n'a pas de prix. »
• La dévalorisation du temps : Il compare son travail à une opération de la cataracte qui dure 15 minutes, alors que son propre travail n'est "pas prévisible" et peut nécessiter une heure juste pour lire un dossier ou apaiser une famille.
Cette non-prévisibilité justifie difficilement le salaire d'un psychiatre aux yeux d'une administration focalisée sur la productivité.
La pression systémique engendre une fatigue et une détresse profondes chez le personnel soignant, allant jusqu'au burnout.
• Épuisement généralisé : Le psychiatre sent les agents de police "épuisés" lors d'une intervention.
Lui-même admet être "assez anxieux", bien qu'il le cache.
• Le burnout comme symptôme : Une infirmière expérimentée, décrite comme "géniale" et "en or", se retrouve hospitalisée en tant que patiente suite à un burnout.
La cause identifiée est directement liée à "l'encadrement" et à la gestion du service, se sentant "plus utile" et "débordée".
• Impact sur les plus jeunes : Une stagiaire confie être "beaucoup plus anxieuse" et moins bien dormir depuis le début de son stage, le contact avec la souffrance réactivant ses propres angoisses.
Le personnel se retrouve pris dans un dilemme moral, se sentant complice d'un système qui maltraite les patients par négligence structurelle.
• Le sentiment de complicité : Le psychiatre s'interroge : « Est-ce qu'on se rend pas un peu complice tu vois à faire tenir un truc qui conduit à ce que les gens viennent à l'hôpital et qui en fait ils meurent de notre négligence tu vois ? »
• Perte de sens : Cette situation mène à un découragement profond : « Si c'est pour faire le travail comme ça je te cache pas que moi ça me décourage aussi. »
• Déconstruction de l'idéal du service public : Un confrère assène au psychiatre une vérité crue :
« Ils en ont rien à faire tu sais si les patients meurent à l'hôpital public [...] on vit maintenant dans une société où les établissements publics ne remplissent plus du tout leur valeur d'intérêt général. »
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En contrepoint à la faillite du système, le psychiatre principal développe et applique une philosophie du soin résolument humaniste, basée sur le lien et une critique de l'institution.
Au cœur de sa pratique se trouve la conviction que le soin réside avant tout dans la relation interpersonnelle.
• L'interdépendance fondamentale : « Le seule chose qui me paraît être du soin tu vois c'est de se dire on a besoin les uns des autres on est absolument dépendant les uns des autres il faut pas le fuir. »
• Créer des conditions non nuisibles : Il définit son rôle comme celui de créer "des conditions non nuisibles, j'espère le moins nuisible possible et après j'espère qu'il va arriver quelque chose mais c'est pas moi qui décide si ça va arriver ou pas."
• Le suivi comme clé : Il insiste auprès d'un patient alcoolique que le seul conseil qu'il peut donner est que "ce qui va marcher, c'est le suivi".
Son parcours personnel et ses convictions le poussent à remettre en cause les fondements de la psychiatrie traditionnelle.
• Une vocation de "désingueur" : Il raconte avoir choisi cette spécialité pour "désinguer la psychiatrie", trouvant que "ça n'allait pas de soi [...] le fait d'enfermer les gens, le fait de les prendre un peu pour des idiots".
• Une vision politique et sociale : Il souhaitait s'inscrire dans une "dimension plus politique plus social", ce que la psychiatrie lui permet.
• L'utopie d'une psychiatrie dissoute dans la société : Son objectif ultime est qu'il n'y ait "plus de psychiatrie", non pas par absence de soin, mais parce que la société aurait appris à "prendre tous soin des autres", assignant une place et une existence sociale à chacun, même à ceux qui voient le monde de manière "un peu déraisonnable".
Le psychiatre est constamment confronté à des choix difficiles qui mettent en balance la liberté du patient, sa sécurité et le cadre légal.
• Liberté vs. Protection (Cas de Solange) : Avec une patiente psychotique qui souhaite rester en France contre l'avis de sa famille, il verbalise son dilemme :
« C'est la position impossible du psychiatre, il a envie de répondre a priori à votre liberté et en même temps mon pouvoir est tel que comme vous n'êtes pas dans le cadre de la raison je dois vous priver pour vous renvoyer chez vous et ça c'est un dilemme pour moi qui est très difficile. »
• Usage de la force et de la contention : Face à un patient intoxiqué, agité et refusant les soins, il est contraint de passer de la parole à la force. Après avoir tenté de négocier, il conclut :
« On a essayé de jouer les choses avec la parole je pense qu'on va pas y arriver [...] à mon avis on a pas le choix. »
Il ordonne une sédation et une contention physique, malgré l'opposition véhémente du patient.
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Le document est jalonné de rencontres avec des patients dont les histoires illustrent la diversité et la profondeur de la détresse psychique.
| Patient(e) / Situation | Problématique Principale | Détails Clés | | --- | --- | --- | | Alienor | Tentative de suicide, polytraumatisme, relations familiales | A perdu ses deux jambes et un avant-bras après avoir chuté d'un pont et avoir été percutée par un train.
Sa sœur refuse de la voir tant qu'elle n'aura pas la "preuve exacte" qu'elle ne fera "aucune connerie pendant au moins 6 mois".
Le psychiatre nuance sa responsabilité en pointant une prescription précoce et massive de benzodiazépines. | | Patient avec phobies d'impulsion | Re-diagnostic de trouble bipolaire (au lieu de schizophrénie) | Décrit des "phobies d'impulsion" : une peur obsédante de se jeter sous le métro ou par une fenêtre ouverte, bien qu'il n'en ait pas l'envie.
Il met en place des stratégies d'évitement. | | Solange, "la théologienne" | Épisode psychotique ("voyage des fous"), autonomie | Se dit "en voyage", refuse les neuroleptiques.
Le psychiatre pèse le risque de la laisser "livrée à elle-même" contre son désir de rester en France au sein d'une communauté religieuse.
Il décide finalement de la laisser partir. | | Windy | Addictions, mal-être adolescent, échec thérapeutique | Jeune patient suivi par le psychiatre, participant à un atelier théâtre.
Malgré le lien créé, il est retrouvé mort d'une overdose.
Sa mort est un choc pour le psychiatre, symbolisant l'échec de sa mission : "on doit les empêcher de se buter avant qu'ils arrivent à trouver leur place". | | Jeune homme avec pancréatite | Douleur chronique, angoisse existentielle, idées noires | Souffre de douleurs intenses et exprime sa peur de tomber dans l'addiction aux opiacés.
Il déclare : "Je sais pas jusqu'où je serais prêt à aller pour les faire cesser \[les douleurs\]". Son regard est décrit comme empreint de "mélancolie". | | Patient kidnappé et torturé | Traumatisme psychique sévère | Raconte avoir été enlevé par 15 à 20 personnes, frappé, et enfermé dans un coffre de voiture.
Le psychiatre l'écoute et lui offre un cadre sécurisant pour la nuit. | | Patient intoxiqué et agité | Polytoxicomanie, refus de soins, mise en danger | Revendique son droit à se faire du mal (« Si ce n'est qu'à moi ça me regarde »).
Son état d'intoxication rend toute discussion impossible, forçant l'équipe à recourir à la contention physique et à la sédation pour le protéger. | | Patiente et son anniversaire | Traumatisme, deuil, culpabilité | La patiente se met en danger à l'approche de son anniversaire.
Elle révèle que c'est le jour où une amie est décédée dans un accident de voiture en venant la voir. Elle se sent responsable : « Je dis que c'est ma faute ». |
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Au-delà des cas cliniques, la pratique psychiatrique est présentée comme un miroir des valeurs et des dysfonctionnements de la société contemporaine.
Le psychiatre analyse comment l'organisation de la société moderne marginalise structurellement les personnes atteintes de troubles psychiques.
• La perte de "l'idiot du village" : Il oppose le village, où l'on peut avoir de la "sollicitude" pour la personne différente, à la "cité urbaine" qui est un facteur de risque pour les maladies psychiatriques.
• La logique de productivité : Dans un environnement urbain "réfléchi pour permettre à des populations d'être productives", le "fou" est exclu car "il n'est pas productif, il ne sert à rien, il ne produit rien et puis il a un coût en plus".
L'institution devient alors le lieu où on le met à l'écart sous prétexte de le soigner.
Face à ce constat, chaque acte de soin centré sur la relation devient un acte politique de résistance contre la déshumanisation et l'isolement.
L'organisation d'un atelier de théâtre avec des jeunes patients, où ils jouent Molière, est une illustration de cette démarche, visant à recréer du lien social, de la confiance en soi et une existence au-delà du statut de malade.
La finalité est de réaffirmer que, malgré la maladie, une place dans la communauté est non seulement possible, mais nécessaire.
We found that spinosad application significantly reduced herbivory (untreated: 0.53%, treated: 0.15%; F1 = 174.06, p < 0.001; Figure 2a, Table S1).
I am struggling with the Y-axis '% herbivory per leaf'. Firstly, I am confused about the range. It seems to go from around -2% to 3% damage. However, in the methods, damage values are explained as being the percentage of the leaf surface damaged by herbivory, averaged across four leaves). How can there be negative herbivory damage? Also, perhaps the Y axis title should be something like '% leaf area damaged'
AbstractThe increasing availability of viral sequences has led to the emergence of many optimized viral genome reconstruction tools. Given that the number of new tools is steadily increasing, it is complex to identify functional and optimized tools that offer an equilibrium between accuracy and computational resources as well as the features that each tool provides. In this paper, we surveyed open-source computational tools (including pipelines) used for human viral genome reconstruction, identifying specific characteristics, features, similarities, and dissimilarities between these tools. For quantitative comparison, we create an open-source reconstruction benchmark based on viral data. The benchmark was executed using both synthetic and real datasets. With the former, we evaluated the effects to the reconstruction process of using different human viruses with simulated mutation rates, contamination and mitochondrial DNA inclusion, and various coverage depths. Each reconstruction program was also evaluated using real datasets, demonstrating their performance in real-life scenarios. The evaluation measures include the identity, a Normalized Compression Semi-Distance, and the Normalized Relative Compression between the genomes before and after reconstruction, as well as metrics regarding the length of the genomes reconstructed, computational time and resources spent by each tool. The benchmark is fully reproducible and freely available at https://github.com/viromelab/HVRS.
This work has been peer reviewed in GigaScience (see https://doi.org/10.1093/gigascience/giaf159), which carries out open, named peer-review. These reviews are published under a CC-BY 4.0 license and were as follows:
Reviewer 3: Serghei Mangul
The paper is well written and provides a valuable contribution to the field. My only concern pertains to the real data utilized, which lacks a gold standard. Consequently, I question whether the real data adds significant value to the analysis, given the absence of a gold standard. Major comments:1. What are the types of data used in the manuscript? Is it solely metagenomics data? If so, it would be beneficial to clarify this in the abstract and potentially in the title
. Minor comments:1. The phrase "availability of viral sequences"Seemingly suggests that the author intends to reference viral sequencing data or metagenomics data. Currently, it reads as though it refers to viral reference genomes.
AbstractThe increasing availability of viral sequences has led to the emergence of many optimized viral genome reconstruction tools. Given that the number of new tools is steadily increasing, it is complex to identify functional and optimized tools that offer an equilibrium between accuracy and computational resources as well as the features that each tool provides. In this paper, we surveyed open-source computational tools (including pipelines) used for human viral genome reconstruction, identifying specific characteristics, features, similarities, and dissimilarities between these tools. For quantitative comparison, we create an open-source reconstruction benchmark based on viral data. The benchmark was executed using both synthetic and real datasets. With the former, we evaluated the effects to the reconstruction process of using different human viruses with simulated mutation rates, contamination and mitochondrial DNA inclusion, and various coverage depths. Each reconstruction program was also evaluated using real datasets, demonstrating their performance in real-life scenarios. The evaluation measures include the identity, a Normalized Compression Semi-Distance, and the Normalized Relative Compression between the genomes before and after reconstruction, as well as metrics regarding the length of the genomes reconstructed, computational time and resources spent by each tool. The benchmark is fully reproducible and freely available at https://github.com/viromelab/HVRS.
This work has been peer reviewed in GigaScience (see https://doi.org/10.1093/gigascience/giaf159), which carries out open, named peer-review. These reviews are published under a CC-BY 4.0 license and were as follows:
Reviewer 1: Levente Laczkó
I reviewed the manuscript titled "An evaluation of computational methods for reconstruction of human viral genomes" by Sousa et al. The authors reviewed different tools for the reconstruction of viral genomes and developed a benchmarking framework to measure the performance of the different tools. The benchmarking was performed with both synthetic and real sequencing data, and the authors provide recommendations for different scenarios. The benchmarking framework developed with Bash is also made available on GitHub, providing the scientific community a good example to increase reproducibility. The analysis steps are also clearly described in the manuscript. Independent benchmarks, such as presented in the manuscript, are valuable contributions to the scientific literature and help to select the right tool for different tasks. The manuscript is clearly structured and well written, and the results are appropriately presented with rich supplementary material. I definitely recommend the publication of the manuscript in GigaScience. However, I have some questions that I think should be addressed before publishing the final version to further improve the manuscript.
The authors describe that multiple strains may be present within a single infection. Indeed, the variability of strains within a single infection may be particularly important for some viruses. QuRe, ViSpA, SAVAGE and ViQUF are explicitly designed to find quasispecies. Are there any other tools in the benchmark that can predict whether samples are heterogeneous (or whose results can be used to infer this)?
The authors have used the human mitochondrion as a source of contamination to test whether the tools are sensitive to it. Is there a reason why only the mitochondrion was used for this test and other, perhaps random, human DNA fragments were not?
The error rate can strongly influence the accuracy of reference-based genome reconstructions. Has the effect of error rate been tested or could it affect the results, e.g. are there any tools in the benchmark that are less sensitive to higher error rates?
In the synthetic dataset, the coverage ranged from 2-40×. This range represents scenarios where the viral copy number is low, but especially if the viral DNA was enriched before sequencing, the coverage could be much higher. Is there a reason to specifically choose 40x coverage as the highest coverage value? I agree that low coverage is a difficult challenge, but checking the performance of different tools at high read depth can help readers to choose the right tool for these use cases if there is a difference in the performance of the tools at e.g. >100x coverage.
The authors correctly describe that the complexity of genomes can be a challenge for accurate genome reconstruction. Assessing the complexity (e.g. repetitive content ratio, GC ratio) of the genomes used in the synthetic dataset can add additional value to the results by showing how different tools perform on genomes of different complexity.
Some reference-based tools (QVG, TRACESPipe, TRACESPipeLite and V-pipe) produced results with many gaps. Could the different approach be a reason for how they deal with low coverage regions? QVG, for example, masks positions with low sequencing depth to increase the specificity of the search for polymorphisms. Can the gaps be explained by the variation in sequencing depth, i.e. could the gaps be linked to genomic regions with very low or very high sequencing depth?
I agree that benchmarking real datasets without the correct original sequence is a difficult task. I believe that showing the coverage and completeness (e.g. the ratio of the reconstructed length of the reference genome) can be an additional and useful information for the reader to choose the right tool for different tasks. The expected length of the viral genomes could be determined by the length of the reference genomes used, based on the classification of FALCON-meta, and in the case of de novo pipelines, the scaffolds that do not match the references could be classified using e.g. kraken2. This could show how complete the reconstructed genomes are and whether there are other viral genomes in the samples that FALCON-meta missed but still represent valuable information. Supplementary Figures S143-S146 show the number of reconstructed bases with and without gaps, but I think that this experiment should be emphasised more in the main text and that the ratio of reconstructed bases to the expected genome sizes might be more informative than just the total number of reconstructed base pairs.
1) Are the methods appropriate to the aims of the study, are they well described, and are necessary controls included? Yes
2) Are the conclusions adequately supported by the data shown? Yes
3) Please indicate the quality of language in the manuscript. Does it require a heavy editing for language and clarity? The language is well understandable
4) Are you able to assess all statistics in the manuscript, including the appropriateness of statistical tests used? Yes
ABSTRACTArctic and alpine insects face extreme environmental stressors, yet the genomic basis of their adaptation remains poorly understood. Here, we present the first haplotype-resolved, chromosome-level genomes for four species of Diamesa (Diptera: Chironomidae), a genus of cold-adapted midges inhabiting glacial and high-altitude freshwater ecosystems. Using PacBio HiFi sequencing and Hi-C scaffolding, we assembled high-quality genomes with chromosome-level resolution and high k-mer completeness. Phylogenomic analyses support Diamesinae as sister to other Chironomidae except Podonominae, and genomic comparisons provide evidence for introgression between the evolutionary distinct D. hyperborea and D. tonsa. Comparative genomic analyses across 20 Diptera species revealed significant gene family contractions in Diamesa associated with oxygen transport and metabolism, suggesting adaptations to high-altitude, low-oxygen environments. Conversely, expansions were detected in histone-related and Toll-like receptor gene families, likely enhancing chromatin remodeling and immune regulation under cold stress. A single gene family encoding glucose dehydrogenase was significantly expanded across all cold-adapted species studied, implicating its role in cryoprotectant synthesis and oxidative stress mitigation. Notably, Diamesa species exhibit the largest gene family contraction at any node, with minimal overlap in expansions with other cold-adapted Diptera, indicating lineage-specific adaptation. Our findings support the hypothesis that genome size condensation and selective gene family changes underpin survival in cold environments. These genome assemblies represent a valuable resource for investigating adaptation, speciation, and conservation in cold-specialist insects. Future work integrating gene expression and population genomics will further illuminate the evolutionary resilience of Diamesa in a warming world.Competing Interest StatementThe authors have declared no competing interest.Footnotes↵# Indicates shared senior authorshipFunder Information DeclaredThe Research Council of Norway, https://ror.org/00epmv149, 326819, 270068
This work has been peer reviewed in GigaScience (see https://doi.org/10.1093/gigascience/giaf160), which carries out open, named peer-review. These reviews are published under a CC-BY 4.0 license and were as follows:
Reviewer 1: shijun xiao
Using the first haplotype resolved, chromosome-level genomes for four species of Diamesa, authors provide a valuable resource for investigating adaptation, speciation, and conservation in cold-specialist insects and they analyized the genomic reason, including significant gene family contractions and expansions, for their cold environment adaptations. It effectively highlights the ecological importance of Diamesa midges and the novelty of generating haplotype-resolved, chromosome-level genomes, providing a strong rationale for the study. I think the manuscript could be accepted after authors address the following minor issues: 1.The QV values in Table 2 were evaluated using Hi-C data. Could you clarify the rationale for this approach? In general, Hi-C data are not suitable for assessing genome quality; instead, whole-genome short reads are more appropriate for such evaluations. The relatively low QV value of 20 might be due to the use of Hi-C data, as high-quality short-read evaluations typically yield QV values around 30. If short-read data are available, I recommend re-evaluating the genome quality with Merqury using those reads. If short reads are not available, please provide a reasonable justification for the use of Hi-C data, or retain only the QV evaluation based on HiFi read alignments. 2.The title of the manuscript mentions that the genome assemblies are at the chromosome level, and the Conclusions section also refers to chromosome numbers. It would be helpful to include the number of chromosomes in Table 2, which would provide a more intuitive representation of chromosome features and highlight differences among the species. 3.Based on Supplementary Figure 2 and Table 2, it can be observed that the haplotype carrying the fourth scaffold has a slightly larger genome size and more protein-coding genes than the other haplotype, although the difference is not very pronounced. Could the authors clarify whether this is due to a biological feature of Diamesinae species or a consequence of the assembly process? 4.In addition, BUSCO results are only reported as overall completeness, without distinguishing between single-copy and duplicated genes. It would be helpful to provide this information, as it would give a more complete picture of genome quality and potential assembly artifacts.
AbstractHigh-throughput phenotyping is addressing the current bottleneck in phenotyping within breeding programs. Imaging tools are becoming the primary resource for improving the efficiency of phenotyping processes and providing large datasets for genomic selection approaches. The advent of AI brings new advantages by enhancing phenotyping methods using imaging, making them more accessible to breeding programs. In this context, we have developed an open Python workflow for analyzing morphology and heritable morphometric traits using AI, which can be applied to fruits and other plant organs. This workflow has been implemented in almond (Prunus dulcis), a species where efficiency is critical due to its long breeding cycle. Over 25,000 kernels, more than 20,000 nuts, and over 600 individuals have been phenotyped, making this the largest morphological study conducted in almond. As result, new heritable morphometric traits of interest have been identified. These findings pave the way for more efficient breeding strategies, ultimately facilitating the development of improved cultivars with desirable traits.Competing Interest StatementThe authors have declared no competing interest.Footnotes https://github.com/jorgemasgomez/almondcv2 Abbreviations:GPUGraphics Processing UnitYOLOYou Only Look OnceSAMSegment Anything ModelROIRegion of InterestFunder Information DeclaredMinisterio de Ciencia y Universidades, España, PID2021-127421OB-I00, FPU20/00614Fundación Séneca
This work has been peer reviewed in GigaScience (see https://doi.org/10.1093/gigascience/giaf157), which carries out open, named peer-review. These reviews are published under a CC-BY 4.0 license and were as follows:
Reviewer 3: Yu Jiang
The present study entitled "Open RGB Imaging Workflow for Morphological and Morphometric Analysis of Fruits using AI: A Case Study on Almonds" reported the development of a Python-based image analysis pipeline that extract morphological traits of almond nut shells and kernels. A case study was conducted to use the developed pipeline to analyze breeding populations of 665 genotypes and extract both general morphology traits such as height, length, area, aspect ratio, etc. and specialized traits for almond such as width at three heights, vertical and horizontal symmetry, etc. Further, each nut shell or kernel was weighed, so models were established to use the weight and morphological traits to predict the thickness of each nut shell or kernel. In addition to morphological traits, morphometric (or shape) was extracted for each nut shell or kernel. Clustering analysis was performed on the morphometric traits to identify variability among genotypes. To further validate the efficacy of the extracted traits, broad-sense heritability was calculated and used as a criterion.
The major contribution of this study is the integration of different components (e.g., camera calibration, image segmentation, and morphological/morphometric trait extraction, etc.) as a user-accessible, open-source Python implementation for the plant breeding community, especially for almond breeders. However, there several aspects that could be further improved.
First, the present study showed the most number of samples that were phenotyped by the proposed pipeline among recent efforts on almond nut shell and/or kernel phenotyping. However, there was no clear evidence to demonstrate direct benefits to ongoing almond breeding. Certain traits (e.g., aspect ratio, tip/top/side curvatures) could be included in a breeding program, but what's the significance of including these traits in breeding programs. Are they crucial to either improve the productivity, quality, or other management practices or processing practices for the almond industry, especially given breeding context?
Second, the pipeline uses deep learning-based segmentation which is powerful to handle complex background. Based on the limited figures or example images in the GitHub repo, the background is mostly single colored (e.g., white or black) without appearances that may confuse even conventional segmentation, especially if image color is calibrated. Assuming most of the almond nut shell and kernel analyses would be done in a laboratory condition, it is not convincing why conventional segmentation methods may not be preferred if both illumination and camera configuration can be well controlled. Ultimately, the question is whether it is worthy the effort of labeling hundreds of images to fine-tune a deep learning segmentation model compared to a careful hardware-software design to make operation more efficient. Or with the simplified background, vision foundation models such as SAM will be sufficient.
Third, in the Introduction section, some technical statements should be revised to make them accurate. For example, image segmentation is a core computer vision task rather than relying on computer vision algorithms. One-stage and two-stage strategies are used to differentiate models for object detection not image segmentation. Further, Faster RCNN is an object detection model and cannot do image segmentation. It is highly recommended that the authors could find a computer science or engineering colleague to proofread the technical statements to ensure the accuracy.
Last, it is appreciated the authors effort on making an open-source software for the community. However, the dataset can be equally important to advance the scientific discovery and technology development. Is there any plan to make the dataset publicly available to help facilitate the development of additional computer vision algorithms for almond phenotyping?
AbstractHigh-throughput phenotyping is addressing the current bottleneck in phenotyping within breeding programs. Imaging tools are becoming the primary resource for improving the efficiency of phenotyping processes and providing large datasets for genomic selection approaches. The advent of AI brings new advantages by enhancing phenotyping methods using imaging, making them more accessible to breeding programs. In this context, we have developed an open Python workflow for analyzing morphology and heritable morphometric traits using AI, which can be applied to fruits and other plant organs. This workflow has been implemented in almond (Prunus dulcis), a species where efficiency is critical due to its long breeding cycle. Over 25,000 kernels, more than 20,000 nuts, and over 600 individuals have been phenotyped, making this the largest morphological study conducted in almond. As result, new heritable morphometric traits of interest have been identified. These findings pave the way for more efficient breeding strategies, ultimately facilitating the development of improved cultivars with desirable traits.Competing Interest StatementThe authors have declared no competing interest.Footnotes https://github.com/jorgemasgomez/almondcv2 Abbreviations:GPUGraphics Processing UnitYOLOYou Only Look OnceSAMSegment Anything ModelROIRegion of InterestFunder Information DeclaredMinisterio de Ciencia y Universidades, España, PID2021-127421OB-I00, FPU20/00614Fundación Séneca
This work has been peer reviewed in GigaScience (see https://doi.org/10.1093/gigascience/giaf157), which carries out open, named peer-review. These reviews are published under a CC-BY 4.0 license and were as follows:
Reviewer 2: Qi Wang
We would like to thank you for submitting your manuscript to our journal.The manuscript proposes an AI-powered open RGB imaging workflow for morphological and morphometric analysis of fruits or other plant organs, with almonds as a case study. The workflow, developed in Python, covers the full pipeline from image pre-processing, segmentation model development and deployment, to trait measurement and analysis. It aims to improve the efficiency and accuracy of phenotyping in breeding programs by addressing the limitations of traditional methods, such as their time-consuming and labor-intensive nature. However, there are still the following problems in this paper that need further improvement: 1.Table formatting: Some of the tables in the manuscript do not follow the formatting standards of the journal. The authors are encouraged to revise them accordingly to ensure clarity, consistency, and ease of understanding. 2.Formula presentation: Certain mathematical formulas are not clearly formatted and appear disorganized. The authors should re-typeset the equations to improve readability and provide clearer explanations for each formula. 3.Introduction: The introduction could be strengthened by more thoroughly explaining the relationship between phenotypic data and breeding. The authors may also discuss how phenotyping data supports genomic selection and accelerates breeding via high-throughput workflows. 4.Methods section: While the paper clearly explains how morphological traits and kernel thickness are measured, it does not sufficiently explain how this data contributes to breeding decisions. The authors should elaborate on how the extracted traits are applied in practical breeding or selection strategies. 5.Lack of algorithmic novelty: While the integration of existing tools is commendable, the core methods used (e.g., YOLO, SAHI) are based on publicly available models, without introducing new algorithmic components or comparative ablation studies. The authors are advised to clarify the unique contribution of their workflow, especially in terms of engineering integration or practical usability. 6.Limited evaluation metrics: The performance of segmentation models is only reported using error percentage. The inclusion of standard metrics such as IoU, Precision, Recall, and F1-score would allow for a more comprehensive evaluation and comparison across models (see LLRL methods). 7.Figures and captions: Currently, figure images and their descriptions are placed separately, which may reduce readability. It is recommended to place figure captions immediately beneath or alongside the figures to enhance the paper's coherence and user-friendliness. 8.Trait extension suggestions: In order to enhance the expressiveness and resolution of phenotypic trait modeling, authors are advised to refer to the relevant research on extracting fine-grained phenotypic features in plant images in recent years. For example, PlanText proposed a progressive visual guidance strategy to help improve the modeling quality of phenotypic traits in images. Therefore, I would like to give a "Major Revision" recommendation.
AbstractHigh-throughput phenotyping is addressing the current bottleneck in phenotyping within breeding programs. Imaging tools are becoming the primary resource for improving the efficiency of phenotyping processes and providing large datasets for genomic selection approaches. The advent of AI brings new advantages by enhancing phenotyping methods using imaging, making them more accessible to breeding programs. In this context, we have developed an open Python workflow for analyzing morphology and heritable morphometric traits using AI, which can be applied to fruits and other plant organs. This workflow has been implemented in almond (Prunus dulcis), a species where efficiency is critical due to its long breeding cycle. Over 25,000 kernels, more than 20,000 nuts, and over 600 individuals have been phenotyped, making this the largest morphological study conducted in almond. As result, new heritable morphometric traits of interest have been identified. These findings pave the way for more efficient breeding strategies, ultimately facilitating the development of improved cultivars with desirable traits.Competing Interest StatementThe authors have declared no competing interest.Footnotes https://github.com/jorgemasgomez/almondcv2 Abbreviations:GPUGraphics Processing UnitYOLOYou Only Look OnceSAMSegment Anything ModelROIRegion of InterestFunder Information DeclaredMinisterio de Ciencia y Universidades, España, PID2021-127421OB-I00, FPU20/00614Fundación Séneca
This work has been peer reviewed in GigaScience (see https://doi.org/10.1093/gigascience/giaf157), which carries out open, named peer-review. These reviews are published under a CC-BY 4.0 license and were as follows:
Reviewer 1: Yuvraj Chopra
The methods described in this article represent a useful tool for fast and reliable morphometric analysis of almonds with potential applications in fruits. The pipeline is technically sound, and publicly available workflow will advance the adoption of this technology. However, there are critical concerns which needs to be addressed before the manuscript could be further proceeded for publication in the journal - Major Comments - 1. Authors claim this technique as a new phenotyping tool with breakthrough implications; however, I object to this claim. Numerous studies have utilized this technique in plant phenotyping to the extent that labeling it as a new phenotyping tool may not be ideal. Additionally, for kernel or seed morphometrics, a wide array of user-friendly, open-source tools have already been developed and are readily available, for example, - SeedExtractor https://www.frontiersin.org/journals/plant-science/articles/10.3389/fpls.2020.581546/full#h3 - SmartGrain https://academic.oup.com/plphys/article/160/4/1871/6109568 - GrainScan https://link.springer.com/article/10.1186/1746-4811-10-23 - PlantCV https://peerj.com/articles/4088/ These tools and a lot of other options can be readily used for almond kernel morphometrics. Authors are requested to discuss/compare advantages/performance of their model with SeedExtractor, SmartGrain, and GrainScan. 2. Within horticultural crops, workflows and studies (not acknowledged in this article) are available that can be adapted or modified to do the same thing. For example - publications from as early as 2020 used machine learning models to measure size and mass of almonds, however, this relevant study was not acknowledged by the authors https://onlinelibrary.wiley.com/doi/full/10.1111/jfpe.13374 . Discuss how the presented method is better than the aforementioned article, justify the claim 'breakthrough'. 3. The authors claim successfully testing the pipeline for apples and strawberries. Information for fruit size can be extracted from 2D images; however, the example results show only length, width, circularity, and ellipse ratio. How do these parameters assist fruit breeders? Since it is segmentation based classification using a reference scale, the aforementioned tools particularly SeedExtractor can generate similar results. Does it qualify the tool for integration into fruit crops breeding pipeline? Moreover, fruit breeders require on-tree analysis, recent advancements have enabled 3D sensing for significantly better detection particularly using cost effective RGB-D cameras.
Minor Comments - 1. Change title - This study uses deep learning models which are a type of AI. AI is a broader term. Additionally, the potential for utility in fruit breeding pipeline appears to be limited. Suggested - Open RGB imaging workflow for morphological and morphometric analysis of almond kernels using deep learning. 2. The video tutorial showed using YOLOv8, mention it in the methods. Add information for all settings used in CVAT.
ABSTRACTSpatial ‘omics techniques are indispensable for studying complex biological systems and for the discovery of spatial biomarkers. While several current matrix-assisted laser desorption/ionization (MALDI) mass spectrometry imaging (MSI) instruments are capable of localizing numerous metabolites at high spatial and spectral resolution, the majority of MSI data is acquired at the MS1 level only. Assigning molecular identities based on MS1 data presents significant analytical and computational challenges, as the inherent limitations of MS1 data preclude confident annotations beyond the sum formula level. To enable future advancements of computational lipid annotation tools, well-characterized benchmark - or ground truth - datasets are crucial, which exceed the scope of synthetic data or data derived from mimetic tissue models. To this end, we provide two sulfatide-centered, biology-driven magnetic resonance MSI (MR-MSI) datasets at different mass resolving powers that characterize lipids in a mouse model of human metachromatic dystrophy. This data includes an ultra-high-resolution (R ∼1,230,000) quantum cascade laser mid-infrared imaging-guided MR-MSI dataset that enables isotopic fine structure analysis and therefore enhances the level of confidence substantially. To highlight the usefulness of the data, we compared 118 manual sulfatide annotations with the number of decoy database-controlled sulfatide annotations performed in Metaspace (67 at FDR < 10%). Overall, our datasets can be used to benchmark annotation algorithms, validate spatial biomarker discovery pipelines, and serve as a reference for future studies that explore sulfatide metabolism and its spatial regulation.Competing Interest StatementBruker Daltonics co-funded the BMBF-funded projects Drugs4Future and DrugsData within the framework M2Aind, as mandated by BMBF, but did not influence this study. All other authors declare no competing interests.
This work has been peer reviewed in GigaScience (see https://doi.org/10.1093/gigascience/giaf150), which carries out open, named peer-review. These reviews are published under a CC-BY 4.0 license and were as follows:
Reviewer 2: Hikmet Budak
I believe that the dataset produced is a great contribution to the community. My major concerns are as follows: 1. The data described is good but please clarify how would be solution the discrepancy between the manual annotations and the computational annotations and annotations quality for he sulfatide-centered MSI dataset, challenges? 2. Please remove too old references unless they are pioneer and replace with the new ones. 3. Please try to add some of figures as supplementary instead of text, 4. algorithm is not fully optimized or not? 5. How did you recover the missing annotations? Please clarify/elabroate this
Would be happy to review after revisions.
ABSTRACTSpatial ‘omics techniques are indispensable for studying complex biological systems and for the discovery of spatial biomarkers. While several current matrix-assisted laser desorption/ionization (MALDI) mass spectrometry imaging (MSI) instruments are capable of localizing numerous metabolites at high spatial and spectral resolution, the majority of MSI data is acquired at the MS1 level only. Assigning molecular identities based on MS1 data presents significant analytical and computational challenges, as the inherent limitations of MS1 data preclude confident annotations beyond the sum formula level. To enable future advancements of computational lipid annotation tools, well-characterized benchmark - or ground truth - datasets are crucial, which exceed the scope of synthetic data or data derived from mimetic tissue models. To this end, we provide two sulfatide-centered, biology-driven magnetic resonance MSI (MR-MSI) datasets at different mass resolving powers that characterize lipids in a mouse model of human metachromatic dystrophy. This data includes an ultra-high-resolution (R ∼1,230,000) quantum cascade laser mid-infrared imaging-guided MR-MSI dataset that enables isotopic fine structure analysis and therefore enhances the level of confidence substantially. To highlight the usefulness of the data, we compared 118 manual sulfatide annotations with the number of decoy database-controlled sulfatide annotations performed in Metaspace (67 at FDR < 10%). Overall, our datasets can be used to benchmark annotation algorithms, validate spatial biomarker discovery pipelines, and serve as a reference for future studies that explore sulfatide metabolism and its spatial regulation.Competing Interest StatementBruker Daltonics co-funded the BMBF-funded projects Drugs4Future and DrugsData within the framework M2Aind, as mandated by BMBF, but did not influence this study. All other authors declare no competing interests.
This work has been peer reviewed in GigaScience (see https://doi.org/10.1093/gigascience/giaf150), which carries out open, named peer-review. These reviews are published under a CC-BY 4.0 license and were as follows:
Reviewer 1: Morteza Akbari
This manuscript by Gruber et al. provides a Data Note detailing a high-value, sulfatide-focused benchmark dataset for the mass spectrometry imaging (MSI) community. The project is well thought out, technically advanced, and directly meets a major need for biologically relevant, deeply characterized ground-truth data to test MS1-level metabolite annotation software. It is a big technical achievement to create an ultra-high-resolution dataset (R∼1,230,000) with a 7T FT-ICR instrument. The use of isotopic fine structure (IFS) to boost annotation confidence is a major strength. Using QCL-MIR imaging strategically to guide the MSI acquisition is a smart and effective way to do things. It's great that the authors are committed to FAIR principles.
The writing in the manuscript is excellent, and the data is very good. It makes a big difference in the field. There are, however, several changes that should be made to make it clearer, more scientifically complete, and more useful as a stand-alone benchmark resource for the community. The following points are given to help make the manuscript stronger for publication.
Major Revisions
Provision of the "Ground Truth" Annotation List: The benchmark dataset is the most important part of this Data Note. The manuscript's supplementary information, on the other hand, doesn't seem to have the final, curated list of manual annotations that make up the "ground truth." For this dataset to be truly reusable for benchmarking third-party software, it needs another table. This table should show all of the manually annotated sulfatides for each replicate, along with their experimental m/z, proposed sum formula, lipid annotation, mass error (ppm), and a way to tell if IFS was used to confirm them.
Strengthening the "Ground Truth" Justification: The manuscript depends on an earlier publication (Ref) to validate the sulfatide structures using MS/MS. It is acceptable to reference previous work, but a benchmark Data Note should be as self-sufficient as possible. Please add a short paragraph to the "Data Validation and Quality Control" section that sums up the main MS/MS fragmentation evidence from Ref that backs up the sulfatide identifications. This will give users of the dataset a more complete and clear chain of evidence.
Deeper Analysis of Automated Annotation Discrepancies: The comparison with Metaspace shows how important this dataset is by showing that even a top-of-the-line tool can't annotate 14 high-confidence sulfatides. The discussion needs to be longer so that it can look at
why these failures could be happening. Please explain why Metaspace's scoring algorithm, which only looks at the four most intense isotopic peaks, might not work well with this kind of ultra-high-resolution data where low-intensity IFS peaks (like 34 S) are very important. Talking about how future algorithms could make better use of this information would make the paper much more useful and help with the development of new tools.
Minor Revisions
Clarification of Table 1: The row headers for the R2 dataset ("all" vs. "QCL-MIR-guided") are slightly confusing, as all R2 data is QCL-MIR-guided. Please revise these for clarity (e.g., "Total Annotations in ROIs" and "Annotations with Confirmed IFS Evidence").
Definition of "Internal Error": The legend for Figure 1g should include a brief definition or reference for how "internal error" was calculated to ensure the metric is fully understood.
Confirmation of Database Contents: In the Methods section, please add a sentence explicitly confirming that all manually annotated sulfatide species were included in the custom database file used for the Metaspace analysis. This is a crucial detail for a fair comparison.
Explicit Statement of Dataset Limitations: In the "Re-use Potential" section, it would be beneficial to explicitly state the inherent trade-off of the ultra-high-resolution approach. Please add a sentence acknowledging that the dataset is optimized for high-confidence annotation and that this comes at the cost of reduced sensitivity and comprehensive spatial coverage compared to a standard MSI experiment.
Link to Custom Database: The Methods section mentions the creation of a custom database of 780 theoretical sulfatides. Please explicitly state in the text that this database is available as Supplementary Dataset 3.
Addressing these points will significantly enhance the manuscript's value and ensure its lasting impact as a key resource for the computational mass spectrometry community.
ABSTRACTHigh-throughput technologies now produce a wide array of omics data, from genomic and transcriptomic profiles to epigenomic and proteomic measurements. Integrating these diverse data types can yield deeper insights into the biological mechanisms driving complex traits and diseases. Yet, extracting key shared biomarkers from multiple data layers remains a major challenge. We present a multivariate random forest (MRF)–based framework enhanced by a novel inverse minimal depth (IMD) metric for integrative variable selection. By assigning response variables to tree nodes and employing IMD to rank predictors, our approach efficiently identifies essential features across different omics types, even when confronted with high-dimensionality and noise. Through extensive simulations and analyses of multi-omics datasets from The Cancer Genome Atlas, we demonstrate that our method outperforms established integrative techniques in uncovering biologically meaningful biomarkers and pathways. Our findings show that selected biomarkers not only correlate with known regulatory and signaling networks but can also stratify patient subgroups with distinct clinical outcomes. The method’s scalable, interpretable, and user-friendly implementation ensures broad applicability to a range of research questions. This MRF-based framework advances robust biomarker discovery and integrative multi-omics analyses, accelerating the translation of complex molecular data into tangible biological and clinical insights.Competing Interest StatementThe authors have declared no competing interest.FootnotesAuthor Name Correction and Documentation Update.
This work has been peer reviewed in GigaScience (see https://doi.org/10.1093/gigascience/giaf148), which carries out open, named peer-review. These reviews are published under a CC-BY 4.0 license and were as follows:
Reviewer 1: Moran Chen
This manuscript presents a novel multivariate random forest (MRF) framework enhanced by the inverse minimal depth (IMD) metric for integrative multi-omics biomarker discovery. The authors clearly demonstrate the robustness and superiority of the proposed methods through comprehensive simulation studies and validation on TCGA datasets. The manuscript provides clear methodological explanations, offering valuable insights into its practical utility. I recommend accepting the manuscript after minor revisions. Minor Concern: 1. Biological Interpretation Depth: While the authors identified biologically relevant biomarkers, the biological interpretations remain somewhat superficial. A deeper exploration of novel or less-known biomarkers in the context of disease mechanisms would strengthen the biological relevance of the findings. 2. Sensitivity Analysis of Randomness: The authors should conduct and discuss sensitivity analyses regarding different random states or random seeds to assess the stability of the method's results. 3. Comparison with Existing Methods on Real Data: While the simulation studies provide thorough benchmarking, the manuscript could enhance its practical value by including detailed comparisons with methods such as SPLS, PMDCCA, and SGCCA using the real-world TCGA datasets. 4. Applicability to Other Diseases: The authors primarily focus on cancer datasets. It is recommended to discuss potential applicability to other disease contexts, such as neurodegenerative or immunological diseases, to illustrate broader utility. 5. Improved Visualization: Some figures in the manuscript have font sizes that are too small, which might impair readability. It is recommended to enlarge the text labels, legends, and axis annotations to ensure that all information is clearly visible and accessible. In Figure 8, the use of sub-labels (such as a, b, c) is mentioned in the text, but these labels are not visible in the figure itself.
ABSTRACTHigh-throughput technologies now produce a wide array of omics data, from genomic and transcriptomic profiles to epigenomic and proteomic measurements. Integrating these diverse data types can yield deeper insights into the biological mechanisms driving complex traits and diseases. Yet, extracting key shared biomarkers from multiple data layers remains a major challenge. We present a multivariate random forest (MRF)–based framework enhanced by a novel inverse minimal depth (IMD) metric for integrative variable selection. By assigning response variables to tree nodes and employing IMD to rank predictors, our approach efficiently identifies essential features across different omics types, even when confronted with high-dimensionality and noise. Through extensive simulations and analyses of multi-omics datasets from The Cancer Genome Atlas, we demonstrate that our method outperforms established integrative techniques in uncovering biologically meaningful biomarkers and pathways. Our findings show that selected biomarkers not only correlate with known regulatory and signaling networks but can also stratify patient subgroups with distinct clinical outcomes. The method’s scalable, interpretable, and user-friendly implementation ensures broad applicability to a range of research questions. This MRF-based framework advances robust biomarker discovery and integrative multi-omics analyses, accelerating the translation of complex molecular data into tangible biological and clinical insights.Competing Interest StatementThe authors have declared no competing interest.
This work has been peer reviewed in GigaScience (see https://doi.org/10.1093/gigascience/giaf148), which carries out open, named peer-review. These reviews are published under a CC-BY 4.0 license and were as follows:
Reviewer 2: Yun-Juan Bao
The article presents an Integrative Multi-Omics Random Forest Framework for Robust Biomarker Discovery. It addresses the challenge of extracting key shared biomarkers from multiple omics data types by introducing a multivariate random forest-based approach enhanced by an inverse minimal depth metric.
I have some concerns and comments below: 1. The new algorithm described in the study selected omics variables by assigning response variable to decision tree nodes. How the response variables relate to biological responses/outcomes? From the authors' description, it seems that the selected omics variables using the IMD are almighty, i.e., they can predict anything needed, such as prognosis, cancer types, and et al. Actually, the usual logic to select omics variables to predict prognosis is to evaluate the association between omics variables and survival time. 2. Following the discussion in 1, what is the biological meaning to extract shared biomarkers from multiple data layers? While it is straightforward to think that the shared biomarkers between multiple data layers or data types may induce the same biological responses, the unique biomarkers also matter depending on what biological responses we care. 3. The Introduction section is not sufficient. The biological significance and technical details of "extract shared biomarkers from multiple data layers" need to be explained in more details. 4. It is advised to provide some examples of the statement in the Introduction: "may fail to capture nonlinear interactions" of the current methods (sPLS, CCA). 5. It is also advised to explain and illustrate how the new method proposed in this study addressed the challenge of traditional methods for capturing nonlinear relationships. Ablation study could be one of the choices. 6. The authors showed that their new approach "uncovered known cancer biological relevant pathways". How about the functional enrichment of genes selected from traditional methods, such as sPLS, CCA? 7. The authors showed that the selected RNA-seq and ATAC-seq features using the new approach are able to capture the distinction between different cancer types (Figure 8). It is suggested to quantitatively evaluate this capability using metrics of recall, precision, and et al. to calculate how many samples are corrected classified and how many are mis-classified in comparison with other methods. 8. It is advised to re-find the Discussion. In what scenario their new method can be applied? What biological insights can be obtained and what can be missed by the new method? 9. The authors did not provide sufficient details about the datasets they used in the section Method. How many samples in TCGA? How many features did they use? How many features left after filtering? 10. Although the performance of the new approach showed some kind of superior in comparison with other methods, the authors only used the currently known databases. It is advised to apply their approach to additional testing datasets or real-world datasets to increase the confidence of the conclusion of this study. It is also observed that the performance of sPLS is better than others in some cases (Figure 4). 11. It is suggested to re-fine the figures. The labels and legends are too tiny to be seen. 12. There is no sub-figure labels a,b,c,d,e,f in Figure 8. The positions of sub-figure labels in Figure 3, Figure 4, Figure 5, Figure 7 are not correct.
ABSTRACTHigh-throughput technologies now produce a wide array of omics data, from genomic and transcriptomic profiles to epigenomic and proteomic measurements. Integrating these diverse data types can yield deeper insights into the biological mechanisms driving complex traits and diseases. Yet, extracting key shared biomarkers from multiple data layers remains a major challenge. We present a multivariate random forest (MRF)–based framework enhanced by a novel inverse minimal depth (IMD) metric for integrative variable selection. By assigning response variables to tree nodes and employing IMD to rank predictors, our approach efficiently identifies essential features across different omics types, even when confronted with high-dimensionality and noise. Through extensive simulations and analyses of multi-omics datasets from The Cancer Genome Atlas, we demonstrate that our method outperforms established integrative techniques in uncovering biologically meaningful biomarkers and pathways. Our findings show that selected biomarkers not only correlate with known regulatory and signaling networks but can also stratify patient subgroups with distinct clinical outcomes. The method’s scalable, interpretable, and user-friendly implementation ensures broad applicability to a range of research questions. This MRF-based framework advances robust biomarker discovery and integrative multi-omics analyses, accelerating the translation of complex molecular data into tangible biological and clinical insights.Competing Interest StatementThe authors have declared no competing interest.
This work has been peer reviewed in GigaScience (see https://doi.org/10.1093/gigascience/giaf148), which carries out open, named peer-review. These reviews are published under a CC-BY 4.0 license and were as follows:
Reviewer 3: Yingxia Li
Summary: This manuscript presents a novel multivariate random forest (MRF)-based framework, incorporating the Inverse Minimal Depth (IMD) metric, for integrative multi-omics variable selection and robust biomarker discovery. The method is thoughtfully developed, rigorously evaluated through comprehensive simulations, and effectively demonstrated on TCGA datasets. The topic is highly relevant, and the manuscript is generally well-organized and clearly written.
Major comments: The proposed MRF-IMD framework demonstrates significant advantages in handling nonlinear relationships and high-dimensional data integration. However, a more comprehensive comparison with other nonlinear ensemble methods (e.g., gradient boosting or deep learning approaches) is recommended to highlight its uniqueness.
AbstractThe processing and analysis of magnetic resonance images is highly dependent on the quality of the input data, and systematic differences in quality can consequently lead to loss of sensitivity or biased results. However, varying image properties due to different scanners and acquisition protocols, as well as subject-specific image interferences, such as motion artifacts, can be incorporated in the analysis. A reliable assessment of image quality is therefore essential to identify critical outliers that may bias results. Here we present a quality assessment for structural (T1-weighted) images using tissue classification. We introduce multiple useful image quality measures, standardize them into quality scales and combine them into an integrated structural image quality rating to facilitate the interpretation and fast identification of outliers with (motion) artifacts. The reliability and robustness of the measures are evaluated using synthetic and real datasets. Our study results demonstrate that the proposed measures are robust to simulated segmentation problems and variables of interest such as cortical atrophy, age, sex, brain size and severe disease-related changes, and might facilitate the separation of motion artifacts based on within-protocol deviations. The quality control framework presents a simple but powerful tool for the use in research and clinical settings.Competing Interest StatementThe authors have declared no competing interest.
This work has been peer reviewed in GigaScience (see https://doi.org/10.1093/gigascience/giaf146), which carries out open, named peer-review. These reviews are published under a CC-BY 4.0 license and were as follows:
Reviewer 4: Laura Caquelin
Reproducibility report for: The Good, the Bad, and the Ugly: Segmentation-Based Quality Control of Structural Magnetic Resonance Images Journal: GigaScience ID number/DOI: GIGA-D-25-00085 Reviewer(s): Laura Caquelin, Department of Clinical Neuroscience, Karolinska Institutet, Sweden [Worked on reproducing the results and wrote the report] Tobias Wängberg, Department of Clinical Neuroscience, Karolinska Institutet, Sweden [Worked on reproducing the results]
According to our assessment the primary objective is: to develop and validate a standardized framework for assessing the quality of structural (T1-weighted) MRI images, enabling the detection of artifacts on simulated data.
Outcome: Quantitative quality ratings derived from image properties such as noise-to-contrast ratio (NCR), inhomogeneity-to-contrast ratio (ICR), resolution score (RES), and edge-to-contrast ratio (ECR) and Full-brain Euler characteristic (FEC) combined into a Structural Image Quality Rating (SIQR).
Analysis method outcome: Not precised in the manuscript, but with the Matlab script we identified that the quality scores were correlated using Spearman's rank correlation, and statistical significance was assessed using p-values computed using MATLAB's built-in method.
Main result: Results are presented in Figure 5. "The evaluation on the BWP test dataset showed that most quality ratings have a very high correlation (rho > .950, p < .001) with their corresponding perturbation and a very low correlation (rho < |0.1|) with the other tested perturbations (see table in Figure 5A & C). This suggests considerable specificity of the proposed quality measures. The combined SIQR score also showed a very strong association with the segmentation quality kappa (rho = -.913, p < .001) and brain tissue volumes (rhoCSF/GM/WM = -.472/-.484/.736, pCSF/GM/WM < .001) (Figure 5B). […] The edge-based resolution measure ECR, on the other hand, generally performed better (rho = .828, p < .001), but was more affected by noise (rho = .306, p < .001) and inhomogeneity (rho = .223, p < .001) than other scores."
Computational environment of reproduction analysis
Operating system for reproduction: MacOS 15.5 (reviewer 1) and MacOS 15.1 (reviewer 2)
5.1 Original study results - Results 1: Figure 5 C (see screenshot)
5.2 Steps for reproduction
->Finding how to reproduce the results - Issue 1: The methods section lacks sufficient detail regarding the statistical methodology, and the relevant information is not fully provided in the GitHub repository. -- Resolved: A message has been sent to the authors requesting further clarification on the methodology and additional resources (scripts/data) needed to reproduce the results. The script to reproduce the results is "cat_tst_qa_bwpmaintest.m".
-> Reproduce the results using the "cat_tst_qa_bwpmaintest.m" script. - Issue 2: To run the script "cat_tst_qa_bwpmaintest.m", the "eva_vol_calcKappa" function is missing. -- Resolved: The script was shared and added to the Github repository. - Issue 3: While running the script, the following error message encountered: Assigning to 0 elements using a simple assignment statement is not supported. Consider using comma-separated list assignment.
Error in cat_tst_qa_bwpmaintest (line 481) default.QS{find(cellfun('isempty',strfind(default.QS(:,2),'FEC'))==0),4} = [100, 850]; -- Resolved: This error stops the execution of the script. After discussion with the authors, the exact cause of the error encountered at line 480 was not directly identified. We exchanged and compared our environments at the point just before the error occurred and observed notable differences between them. Our environment is almost empty. The authors identified that the default variable is missing from our environment, even though it is referenced at line 437 by a call to the cat_stat_marks function. We confirmed that all required dependencies were installed (including Statistics toolbox, SPM and CAT12), and that we had access to all the necessary data. To ensure the issue was not due to user error, the code was independently executed by two reviewers. The error was consistently reproduced in both cases. About the setup, I specified to the authors: "To summarize my setup: * I have installed SPM, CAT, and the Statistics Toolbox. * I downloaded all datasets from the GigaScience server. * I also downloaded the IXI T1 data, but I've only kept the version available on the GigaScience server in my working directory. Is the version from GigaScience sufficient? I had presumed that this dataset was pre-processed and ready to use, so I ignored the time-consuming pre-processing step. Your last email seems to confirm this point."
The authors answered that: « Yes, this is correct. However, both directories have to be combined so that the original IXI images and the processing files are included. »
In an attempt to proceed, we modified the portion of the code that triggered the error:
% FEC FECpos = find(cellfun('isempty',strfind(default.QS(:,2),'FEC'))==0); try warning off; [Q.fit.FEC, Q.fit.FECstat] = robustfit(Q.FECgt(M,1),Q.FECo(M,1)); warning on; if ~isempty(FECpos) default.QS{FECpos,4} = round([Q.fit.FEC(1) + Q.fit.FEC(2), Q.fit.FEC(1) + Q.fit.FEC(2) * 6], -1); end
catch Q.fit.FEC = [nan nan]; Q.fit.FECstat = struct('coeffcorr',nan(2,2),'p',nan(2,2)); if ~isempty(FECpos) default.QS{FECpos,4} = [100 850]; end end
Following this adjustment, the end of the script "cat_tst_qa_bwpmaintest.m" ran without issue and generated output results:
Finally, the error was identified after numerous exchanges with the authors. The function "cat_stat_marks", available in the Github repository, was not shared in the FTP server. With this function added, the script runs correctly. Please note that the link to the Github repository where the software code can be found is not specified in the manuscript.
-> Compare the results reproduced and the original results - Issue 4: Discrepancy between reproduced results, output results provided by the authors and the original results shown in Figure 5C. -- Unresolved: We reproduced the figures and the corresponding output table using the modified "cat_tst_qa_bwpmaintest.m" script. We ran the script using the only default QC version selected in the script ("cat_vol_qa201901x"). By comparing our output with the result files shared by the authors, we were able to confirm that we had executed the correct pipeline. However, we encountered a discrepancy: neither the generated file in our run (tst_cat_col_qa201901x_irBWPC_HC_T1_pn9_rf100pC_vx200x200x200rptable.csv) nor the corresponding file provided by the authors (outputs from BWPmain_full_202504) matched the numerical values presented in Figure 5C of the manuscript. We contacted the authors to clarify whether the default QC version used in the script was indeed the one produce the figure. In response, they confirmed:
"All figures should show the results of this QC version although I had the plan to run a final check update after the reviewer comments (the figures are finally arranged in Adobe Illustrator)."
Therefore, although the correct version of the QC was used, the differences in the results shown in Figure 5C remain unexplained. This issue is still unresolved.
5.3 Statistical comparison Original vs Reproduced results - Results: Screenshot of reproduced tst_cat_vol_qa201901x_irBWPC_HC_T1_pn9_rf100pC_vx200x200x200_rptable.csv table
(Screenshot of Figure 5C)
(Screenshot of the original output corresponding to the Figure 5C)
the original results presented in figure 5C of the manuscript. Notably, the output file provided by the authors and the results in figure 5C do not match either, indicating potential errors or file versions mismatches. Additionally, many p-values in the reproduced results are equal to 0, which suggests a formatting issue or a problem in the script. Figure 5C also lacks a scale, legend detail, or supplementary data to make possible to verify p-values (assuming the color gradient represents the p-values).
Recommendations for authors We strongly recommend the authors to: -- Ensure all essential code and functions are included in the shared repositories. Some necessary files were not included in the FTP server provided with the paper. Although the GitHub repository (https://github.com/ChristianGaser/cat12) was shared with the journal, but it is not referenced in the manuscript, making it difficult for external users to locate. -- Add detailed documentation of the statistical methods: the current manuscript lacks sufficient information regarding the statistical methodology used, at least for the purpose of the reproducibility review. Please, include detailed explanation of statistical tests, packages and parameter settings (e.g. QC version) to improve reproducibility. -- Clarify the versioning and outputs for the figures: there is a lack of clarity regarding which specific data outputs were used to generate figure 5C. Providing metadata or links to the exact output file used would help to resolve this issue. -- Provide raw numerical data behind figures: figure 5C seems to display p-values using a color gradient but no scale or legend is provided. Sharing the raw data used would allow the comparison and the reproducibility of the figure. -- Improve the clarity of execution instructions and address potential p-values issues: the issue with p-values showing up as exactly 0 in the reproduced results might be caused by differences in the environment setup, such as missing variables, different software versions, or skipped steps before running the script. Improving the instructions for setting up the environment and running the would help prevent issues and facilitate reproducibility.
AbstractThe processing and analysis of magnetic resonance images is highly dependent on the quality of the input data, and systematic differences in quality can consequently lead to loss of sensitivity or biased results. However, varying image properties due to different scanners and acquisition protocols, as well as subject-specific image interferences, such as motion artifacts, can be incorporated in the analysis. A reliable assessment of image quality is therefore essential to identify critical outliers that may bias results. Here we present a quality assessment for structural (T1-weighted) images using tissue classification. We introduce multiple useful image quality measures, standardize them into quality scales and combine them into an integrated structural image quality rating to facilitate the interpretation and fast identification of outliers with (motion) artifacts. The reliability and robustness of the measures are evaluated using synthetic and real datasets. Our study results demonstrate that the proposed measures are robust to simulated segmentation problems and variables of interest such as cortical atrophy, age, sex, brain size and severe disease-related changes, and might facilitate the separation of motion artifacts based on within-protocol deviations. The quality control framework presents a simple but powerful tool for the use in research and clinical settings.Competing Interest StatementThe authors have declared no competing interest.
This work has been peer reviewed in GigaScience (see https://doi.org/10.1093/gigascience/giaf146), which carries out open, named peer-review. These reviews are published under a CC-BY 4.0 license and were as follows:
Reviewer 3: Cyril Pernet
The paper describes an alternative way to QC T1w images with 2 major innovations: a different set of metrics not relying on background and a global score that combines those metrics. In addition, all of this is integrated in a well maintained toolbox allowing easy usage.
I only have suggestions (ie it does not have to be all done) as the overall paper is well written, easy to follow and analyses well conducted. P6 NCR: it can be nice to demonstrate how it performs compared to traditional CNR (mean of the white matter intensity values minus the mean of the gray matter intensity values divided by the standard deviation of the values outside the brain) -- differs markedly because of background difference for sure, since you have plenty of test images you could show that more clearly (later in the method, based on what criteria/reason 'local' is defined as 555?) P7 ECR should capture something similar to Entropy Focus Criterion, would be nice to provide a direct comparison P8 typo, you meant equation 2 P8 SIQR I'm guessing you have experimented with the power function - maybe a side note to share your experience of why or how it works better than eg square
Dr Cyril Pernet
AbstractThe processing and analysis of magnetic resonance images is highly dependent on the quality of the input data, and systematic differences in quality can consequently lead to loss of sensitivity or biased results. However, varying image properties due to different scanners and acquisition protocols, as well as subject-specific image interferences, such as motion artifacts, can be incorporated in the analysis. A reliable assessment of image quality is therefore essential to identify critical outliers that may bias results. Here we present a quality assessment for structural (T1-weighted) images using tissue classification. We introduce multiple useful image quality measures, standardize them into quality scales and combine them into an integrated structural image quality rating to facilitate the interpretation and fast identification of outliers with (motion) artifacts. The reliability and robustness of the measures are evaluated using synthetic and real datasets. Our study results demonstrate that the proposed measures are robust to simulated segmentation problems and variables of interest such as cortical atrophy, age, sex, brain size and severe disease-related changes, and might facilitate the separation of motion artifacts based on within-protocol deviations. The quality control framework presents a simple but powerful tool for the use in research and clinical settings.Competing Interest StatementThe authors have declared no competing interest.
This work has been peer reviewed in GigaScience (see https://doi.org/10.1093/gigascience/giaf146), which carries out open, named peer-review. These reviews are published under a CC-BY 4.0 license and were as follows:
Reviewer 2: Oscar Esteban
Technical Note GIGA-D-25-00085 introduces a segmentation-based quality control (QC) framework for T1-weighted structural MRI integrated into the CAT12 toolbox. The approach defines five interpretable image quality metrics—noise-to-contrast ratio (NCR), inhomogeneity-to-contrast ratio (ICR), resolution score (RES), edge-to-contrast ratio (ECR), and full-brain Euler characteristic (FEC)—which are combined into a composite Structural Image Quality Rating (SIQR). The tool aims to provide a standardized, interpretable scoring system for identifying poor-quality scans, with validation across simulated datasets and real-world imaging data.
The manuscript addresses a critical need in neuroimaging by presenting an automated, interpretable, and practical framework for quality control of T1-weighted structural MRI. By integrating multiple segmentation-derived metrics into a single Structural Image Quality Rating (SIQR), the approach enables fast, standardized assessment of image quality. The tool is embedded in the widely used CAT12/SPM ecosystem, facilitating adoption, and it is validated across a range of synthetic and real-world datasets. The scoring system is designed with user accessibility in mind, offering a clear grading scale and robust detection of motion-related artifacts, making it particularly well-suited for use in large-scale research and clinical imaging settings.
I was given access to the supporting data but chose not to proceed with reproducibility checks at this stage, as the manuscript does not currently meet GigaScience's basic standards for code and data transparency. I look forward to reviewing a revised version that clearly defines the scope of the method, improves methodological transparency, and brings the manuscript into compliance with the journal's reproducibility and FAIR data principles.
Best regards,
Oscar Esteban, Ph. D. Research and Teaching FNS Fellow Dept. of Radiology, CHUV, University of Lausanne
其一是对教育回报率的测度。自改革开放以来,我国的教育回报率不断上升,这与教育价值逐渐获得市场经济的认可有关(刘生龙和胡鞍钢,2019)。有研究表明,我国教育回报率在20世纪80年代仅为 1%~3%(Knight和Song,1991),而进入21世纪,教育回报率则高达7%以上(刘生龙等,2016)。赵忠和何汉儒(2020)的研究也显示,我国城镇劳动力教育回报率随市场化程度的不同而有所差异。
In that sentence author gives the reader authority evidences and used it to proof his points.
La Santé des Adolescents : Évolutions et Défis sur Trente Ans
Ce document de synthèse analyse l'évolution de la santé et du bien-être des adolescents (10-19 ans) en France sur les trente dernières années, sur la base du rapport du Haut Conseil de la santé publique (HCSP).
Le bilan est contrasté, révélant des améliorations notables aux côtés de dégradations profondes et préoccupantes.
Les principales améliorations concernent la mortalité, qui a été divisée par deux depuis 1990, et une baisse de la consommation de substances psychoactives traditionnelles comme le tabac et l'alcool.
Cependant, ces progrès sont assombris par une détérioration progressive et marquée de la santé mentale, particulièrement chez les filles, et accentuée par la pandémie de Covid-19.
Le rapport met en lumière un déclin alarmant de la condition physique, avec une baisse de 13 % de la capacité cardio-respiratoire, et l'ancrage de modes de vie délétères.
On observe une augmentation exponentielle du temps d'écran, une baisse drastique de l'activité physique et une dette de sommeil chronique.
Parallèlement, la stabilisation à un niveau élevé du surpoids et de l'obésité demeure un enjeu majeur.
La socialisation des adolescents a été bouleversée par le numérique, entraînant de nouveaux risques tels que le cyberharcèlement et un sentiment de solitude croissant.
Si l'âge du premier rapport sexuel reste stable, la santé sexuelle se dégrade avec une hausse des Infections Sexuellement Transmissibles (IST) et une baisse de l'usage du préservatif.
Enfin, les inégalités sociales et territoriales de santé (ISTS) se creusent durant l'adolescence, affectant de manière disproportionnée la santé mentale et la surcharge pondérale des jeunes issus de milieux défavorisés.
Les politiques publiques évoluent vers une approche plus préventive, mais la reconnaissance des adolescents comme un groupe spécifique avec des besoins distincts reste insuffisante.
Face aux transformations majeures de notre époque (numérique, pandémies, polycrises), le Haut Conseil de la santé publique (HCSP) a réalisé une analyse approfondie de l'évolution de la santé des adolescents sur trois décennies.
• Période d'étude : Les 30 dernières années.
• Population cible : Les adolescents, définis comme la tranche d'âge de 10 à 19 ans.
• Approche méthodologique : Le rapport s'appuie sur une analyse socio-anthropologique combinant données quantitatives, qualitatives et une analyse de l'environnement.
L'adolescence est considérée comme une phase de construction identitaire, dont la durée s'est allongée, marquée par des tensions entre autonomie et dépendance.
Mortalité et Morbidité
• Mortalité : Le taux de mortalité global chez les adolescents a été divisé par deux depuis 1990. Les 10-14 ans présentent le plus faible taux de mortalité.
Chez les 15-19 ans, les accidents de la route et les suicides demeurent les causes principales de décès.
• Morbidité : Les troubles mentaux (anxiété, dépression) et l'asthme sont les principales causes de morbidité.
On note un recul significatif des blessures liées aux accidents (-71,1 %), des violences (-44,8 %) et des blessures involontaires (-29,4 %). Les filles sont deux fois plus touchées par la dépression et l'anxiété que les garçons.
Bien qu'une majorité d'adolescents se perçoivent en bonne santé mentale, une dégradation progressive est observée depuis 30 ans, avec une accélération notable depuis la pandémie de Covid-19.
• Tendances : Les conditions socio-économiques défavorables et le contexte de polycrise ont un impact négatif direct.
• Disparités de genre : Les filles sont particulièrement concernées, exprimant deux fois plus de plaintes psychologiques que les garçons.
Le changement climatique est identifié comme une nouvelle menace pour la santé mentale des adolescents.
Consommation de Substances Psychoactives
L'adolescence reste une période d'expérimentation, mais les tendances de consommation ont évolué.
• Baisse : Une tendance générale à la baisse est observée pour l'expérimentation et l'usage régulier d'alcool et de tabac.
• Stabilité : La consommation de cannabis s'est stabilisée.
• Hausse : L'usage de la e-cigarette est en forte augmentation, dépassant désormais celui du tabac.
La consommation de poppers et de protoxyde d'azote est également en hausse.
• Comportements : L'âge du premier rapport sexuel est stable, mais les proportions de collégiens et lycéens l'ayant eu diminuent.
L'exposition à la pornographie est massive (deux tiers des moins de 15 ans).
• Prévention : L'usage du préservatif est en baisse, tandis que le recours à la contraception d'urgence augmente.
La pilule est moins utilisée au profit des dispositifs intra-utérins.
• IST : Les infections sexuellement transmissibles sont en progression, notamment les infections à Chlamydia et à gonocoque.
• Éducation : Un programme d'éducation à la vie affective, relationnelle et à la sexualité doit être déployé à la rentrée 2025-2026.
• Puberté et Poids : La puberté débute plus tôt, surtout chez les filles, un phénomène associé au surpoids et à l'obésité.
Après une forte hausse jusqu'en 2005, les taux de surpoids (15 %) et d'obésité (3,5 %) se sont stabilisés à un niveau élevé, particulièrement dans les milieux défavorisés.
• Condition Physique : Une détérioration majeure est constatée, avec une baisse de 13 % de la capacité cardio-respiratoire depuis les années 2000.
• Activité Physique : Le niveau est en forte baisse et très faible (seuls 12 % atteignent les recommandations).
La France se classe mal au niveau international (119e sur 146 pays). La prévalence de l'inactivité a augmenté de 85 %.
• Temps d'écran : Il a connu une hausse exponentielle, passant de 2h/jour dans les années 90 à 5h en 2016. Seuls 20 % des adolescents respectent les seuils recommandés.
• Sommeil : La durée est insuffisante et en baisse. La dette de sommeil est importante (près de 2h chez les 15-17 ans) et les troubles du sommeil touchent environ 40 % des adolescents.
• Alimentation : La consommation de fruits et légumes stagne à un niveau bas, tandis que celle des snacks, plats préparés et boissons sucrées augmente. Le petit déjeuner quotidien est en baisse.
• Socialisation : Le smartphone et les technologies numériques ont profondément transformé la socialisation, avec des effets différenciés selon le genre et le milieu social.
On observe une polarisation des opinions mais peu de radicalisation.
• Violence et Harcèlement : Le harcèlement scolaire diminue, mais le cyberharcèlement augmente, visant particulièrement les filles.
Les violences verbales et sexuelles sont en hausse, tandis que les violences physiques et matérielles reculent.
Les violences intra-familiales, notamment sexuelles, augmentent et ont des effets durables sur la santé mentale.
• Isolement : Le sentiment de solitude est en forte progression, surtout chez les filles.
L'école a connu de profondes transformations (réformes, numérique, inclusion).
Le lien entre santé, bien-être et apprentissage est de plus en plus mis en avant, évoluant d'une approche centrée sur le risque à une approche systémique visant à créer un milieu de vie favorable à la santé.
Le tableau suivant résume les principaux constats et leur évolution sur trois décennies.
| Catégorie | Observations | Évolution en 30 ans | | --- | --- | --- | | Démographie | | | | Mortalité | Causes principales : Accidents de la voie publique, suicides. Taux plus élevé chez les garçons. | (Amélioration) Baisse régulière de la mortalité. | | Morbidité | Causes principales : Anxiété, dépression, asthme. Dépression et anxiété deux fois plus fréquentes chez les filles. | (Amélioration) Baisse des blessures accidentelles (-71,1%), des violences (-44,8%), des blessures involontaires (-29,4%) et des cancers (-36,2%). | | Santé Mentale | | | | Santé mentale | Impact négatif des conditions socio-économiques et des polycrises. Les filles expriment 2 fois plus de plaintes. | (Aggravation) Dégradation progressive, aggravée depuis la pandémie de Covid-19, plus marquée chez les filles. | | Substances | | | | Alcool | Première substance consommée. | (Amélioration) Tendance à la baisse de l'expérimentation et de l'usage régulier. | | Tabac / E-cigarette | L'usage de l'e-cigarette est supérieur à celui du tabac. | (Amélioration) Baisse de la consommation de tabac.<br>(Aggravation) Forte augmentation de la consommation d’e-cigarette. | | Cannabis | Consommation plus forte chez les lycéens. | (Stabilité) Stabilisation de la consommation. | | Santé Physique | | | | Croissance / Puberté | Prévalences élevées de surpoids et d'obésité. | (Stabilité) Stabilisation des paramètres de croissance, du surpoids et de l'obésité.<br>(Aggravation) Début de la puberté féminine de plus en plus jeune. | | Condition physique | Faible capacité cardio-respiratoire et musculaire. | (Aggravation) Forte diminution de la capacité respiratoire et musculaire depuis les années 2000. | | Socialisation | | | | Socialisation | Autonomisation par paliers. Sociabilités cruciales pour la santé. | (Changement majeur) Socialisation bouleversée par l'arrivée du smartphone et des technologies numériques. | | Santé Sexuelle | | | | Âge du premier rapport | Stabilité depuis une dizaine d'années. | (Tendance) Diminution des proportions de jeunes ayant eu un premier rapport. | | Utilisation du préservatif | \- | (Aggravation) Baisse de l'utilisation. | | IST | Taux élevé d'infections à Chlamydia. | (Aggravation) Augmentation des déclarations d'infections à gonocoque. | | Violence/Harcèlement | | | | Violence / Harcèlement | Incidents graves en milieu scolaire élevés. | (Aggravation) Augmentation du cyberharcèlement et des violences sexuelles.<br>(Amélioration) Diminution des crimes et délits. | | Mode de Vie | | | | Activité Physique | Niveau très faible (12% atteignent les recommandations). | (Aggravation) Augmentation de la prévalence de l'inactivité (+85%). | | Comportements sédentaires | Niveau très élevé (plus de 70% ne respectent pas les recommandations). | (Aggravation) Augmentation exponentielle du temps d'écran. | | Sommeil | Durée insuffisante et dette de sommeil importante. | (Aggravation) Diminution de la durée de sommeil et augmentation des troubles du sommeil. | | Alimentation | \- | (Aggravation) Augmentation des produits type snack et des boissons sucrées.<br>(Amélioration) Diminution du grignotage. | | Environnement | | | | Relations | Digitalisation des pratiques culturelles. | (Aggravation) Sentiment d'isolement en forte progression, surtout chez les filles. | | Inégalités (ISTS) | S'accentuent avec la crise sanitaire. | (Aggravation) Augmentation des ISTS, notamment pour la surcharge pondérale et la santé mentale. |
Pour répondre à ces défis, le HCSP propose une série de recommandations systémiques visant à améliorer la santé des adolescents.
• Aménager l'environnement pour modifier les comportements et encourager la mobilité active (marche, vélo).
• Créer des environnements favorables à la libération de la parole sur les sujets de santé mentale et de violence.
• Anticiper et répondre aux effets du changement climatique sur la santé des adolescents.
• Mobiliser les associations socio-culturelles et sportives dans l'éducation à la santé, en cohérence avec l'Éducation nationale et la santé publique.
• Développer la participation des jeunes dans l'élaboration des politiques publiques qui les concernent.
• Mettre en œuvre une politique publique intersectorielle d'éducation au numérique.
• Poursuivre la dénormalisation du tabac et développer celle de l'alcool.
• Produire des stratégies de surveillance et d'encadrement de la vente et de l'usage de la e-cigarette par les mineurs.
• Évaluer et poursuivre le déploiement des programmes de lutte contre les différentes formes de violence.
• Développer des outils de repérage des signes d'alerte et de dépistage précoce des troubles (anxiété, dépression).
• Former les acteurs de première ligne (enseignants, animateurs, médecins) à ces outils.
• Développer la dimension préventive de la prise en charge en santé.
• Adapter et différencier les messages de santé publique (activité physique, alimentation, sexualité) pour qu'ils soient pertinents pour les adolescents.
• Inciter les parents et les proches à encourager l'activité physique et à réduire les temps d'écran.
• Mettre en œuvre des programmes de soutien à la parentalité.
• Promouvoir et éduquer à l'importance du sommeil naturel (durée, qualité, rythme).
Axe 5 : Développer la Recherche et les Données
• Mesurer périodiquement les déterminants de la santé des adolescents.
• Développer des recherches utilisant des méthodes fiables et objectives, notamment sur le sommeil.
• Mettre en place une surveillance du démarrage pubertaire.
• Disposer de données spécifiques par âge, sexe et genre pour mieux comprendre les phénomènes.
• Compléter les indicateurs de santé sexuelle avec des dimensions qualitatives (satisfaction, plaisir, respect des droits).
La Santé des Adolescents : Évolutions et Défis sur Trente Ans
Ce document de synthèse analyse l'évolution de la santé et du bien-être des adolescents (10-19 ans) en France sur les trente dernières années, sur la base du rapport du Haut Conseil de la santé publique (HCSP).
Le bilan est contrasté, révélant des améliorations notables aux côtés de dégradations profondes et préoccupantes.
Les principales améliorations concernent la mortalité, qui a été divisée par deux depuis 1990, et une baisse de la consommation de substances psychoactives traditionnelles comme le tabac et l'alcool.
Cependant, ces progrès sont assombris par une détérioration progressive et marquée de la santé mentale, particulièrement chez les filles, et accentuée par la pandémie de Covid-19.
Le rapport met en lumière un déclin alarmant de la condition physique, avec une baisse de 13 % de la capacité cardio-respiratoire, et l'ancrage de modes de vie délétères.
On observe une augmentation exponentielle du temps d'écran, une baisse drastique de l'activité physique et une dette de sommeil chronique.
Parallèlement, la stabilisation à un niveau élevé du surpoids et de l'obésité demeure un enjeu majeur.
La socialisation des adolescents a été bouleversée par le numérique, entraînant de nouveaux risques tels que le cyberharcèlement et un sentiment de solitude croissant.
Si l'âge du premier rapport sexuel reste stable, la santé sexuelle se dégrade avec une hausse des Infections Sexuellement Transmissibles (IST) et une baisse de l'usage du préservatif.
Enfin, les inégalités sociales et territoriales de santé (ISTS) se creusent durant l'adolescence, affectant de manière disproportionnée la santé mentale et la surcharge pondérale des jeunes issus de milieux défavorisés.
Les politiques publiques évoluent vers une approche plus préventive, mais la reconnaissance des adolescents comme un groupe spécifique avec des besoins distincts reste insuffisante.
Face aux transformations majeures de notre époque (numérique, pandémies, polycrises), le Haut Conseil de la santé publique (HCSP) a réalisé une analyse approfondie de l'évolution de la santé des adolescents sur trois décennies.
• Période d'étude : Les 30 dernières années.
• Population cible : Les adolescents, définis comme la tranche d'âge de 10 à 19 ans.
• Approche méthodologique : Le rapport s'appuie sur une analyse socio-anthropologique combinant données quantitatives, qualitatives et une analyse de l'environnement.
L'adolescence est considérée comme une phase de construction identitaire, dont la durée s'est allongée, marquée par des tensions entre autonomie et dépendance.
Mortalité et Morbidité
• Mortalité : Le taux de mortalité global chez les adolescents a été divisé par deux depuis 1990. Les 10-14 ans présentent le plus faible taux de mortalité.
Chez les 15-19 ans, les accidents de la route et les suicides demeurent les causes principales de décès.
• Morbidité : Les troubles mentaux (anxiété, dépression) et l'asthme sont les principales causes de morbidité.
On note un recul significatif des blessures liées aux accidents (-71,1 %), des violences (-44,8 %) et des blessures involontaires (-29,4 %). Les filles sont deux fois plus touchées par la dépression et l'anxiété que les garçons.
Bien qu'une majorité d'adolescents se perçoivent en bonne santé mentale, une dégradation progressive est observée depuis 30 ans, avec une accélération notable depuis la pandémie de Covid-19.
• Tendances : Les conditions socio-économiques défavorables et le contexte de polycrise ont un impact négatif direct.
• Disparités de genre : Les filles sont particulièrement concernées, exprimant deux fois plus de plaintes psychologiques que les garçons.
Le changement climatique est identifié comme une nouvelle menace pour la santé mentale des adolescents.
Consommation de Substances Psychoactives
L'adolescence reste une période d'expérimentation, mais les tendances de consommation ont évolué.
• Baisse : Une tendance générale à la baisse est observée pour l'expérimentation et l'usage régulier d'alcool et de tabac.
• Stabilité : La consommation de cannabis s'est stabilisée.
• Hausse : L'usage de la e-cigarette est en forte augmentation, dépassant désormais celui du tabac.
La consommation de poppers et de protoxyde d'azote est également en hausse.
• Comportements : L'âge du premier rapport sexuel est stable, mais les proportions de collégiens et lycéens l'ayant eu diminuent.
L'exposition à la pornographie est massive (deux tiers des moins de 15 ans).
• Prévention : L'usage du préservatif est en baisse, tandis que le recours à la contraception d'urgence augmente.
La pilule est moins utilisée au profit des dispositifs intra-utérins.
• IST : Les infections sexuellement transmissibles sont en progression, notamment les infections à Chlamydia et à gonocoque.
• Éducation : Un programme d'éducation à la vie affective, relationnelle et à la sexualité doit être déployé à la rentrée 2025-2026.
• Puberté et Poids : La puberté débute plus tôt, surtout chez les filles, un phénomène associé au surpoids et à l'obésité.
Après une forte hausse jusqu'en 2005, les taux de surpoids (15 %) et d'obésité (3,5 %) se sont stabilisés à un niveau élevé, particulièrement dans les milieux défavorisés.
• Condition Physique : Une détérioration majeure est constatée, avec une baisse de 13 % de la capacité cardio-respiratoire depuis les années 2000.
• Activité Physique : Le niveau est en forte baisse et très faible (seuls 12 % atteignent les recommandations).
La France se classe mal au niveau international (119e sur 146 pays). La prévalence de l'inactivité a augmenté de 85 %.
• Temps d'écran : Il a connu une hausse exponentielle, passant de 2h/jour dans les années 90 à 5h en 2016. Seuls 20 % des adolescents respectent les seuils recommandés.
• Sommeil : La durée est insuffisante et en baisse. La dette de sommeil est importante (près de 2h chez les 15-17 ans) et les troubles du sommeil touchent environ 40 % des adolescents.
• Alimentation : La consommation de fruits et légumes stagne à un niveau bas, tandis que celle des snacks, plats préparés et boissons sucrées augmente. Le petit déjeuner quotidien est en baisse.
• Socialisation : Le smartphone et les technologies numériques ont profondément transformé la socialisation, avec des effets différenciés selon le genre et le milieu social.
On observe une polarisation des opinions mais peu de radicalisation.
• Violence et Harcèlement : Le harcèlement scolaire diminue, mais le cyberharcèlement augmente, visant particulièrement les filles.
Les violences verbales et sexuelles sont en hausse, tandis que les violences physiques et matérielles reculent.
Les violences intra-familiales, notamment sexuelles, augmentent et ont des effets durables sur la santé mentale.
• Isolement : Le sentiment de solitude est en forte progression, surtout chez les filles.
L'école a connu de profondes transformations (réformes, numérique, inclusion).
Le lien entre santé, bien-être et apprentissage est de plus en plus mis en avant, évoluant d'une approche centrée sur le risque à une approche systémique visant à créer un milieu de vie favorable à la santé.
Le tableau suivant résume les principaux constats et leur évolution sur trois décennies.
| Catégorie | Observations | Évolution en 30 ans | | --- | --- | --- | | Démographie | | | | Mortalité | Causes principales : Accidents de la voie publique, suicides. Taux plus élevé chez les garçons. | (Amélioration) Baisse régulière de la mortalité. | | Morbidité | Causes principales : Anxiété, dépression, asthme. Dépression et anxiété deux fois plus fréquentes chez les filles. | (Amélioration) Baisse des blessures accidentelles (-71,1%), des violences (-44,8%), des blessures involontaires (-29,4%) et des cancers (-36,2%). | | Santé Mentale | | | | Santé mentale | Impact négatif des conditions socio-économiques et des polycrises. Les filles expriment 2 fois plus de plaintes. | (Aggravation) Dégradation progressive, aggravée depuis la pandémie de Covid-19, plus marquée chez les filles. | | Substances | | | | Alcool | Première substance consommée. | (Amélioration) Tendance à la baisse de l'expérimentation et de l'usage régulier. | | Tabac / E-cigarette | L'usage de l'e-cigarette est supérieur à celui du tabac. | (Amélioration) Baisse de la consommation de tabac.<br>(Aggravation) Forte augmentation de la consommation d’e-cigarette. | | Cannabis | Consommation plus forte chez les lycéens. | (Stabilité) Stabilisation de la consommation. | | Santé Physique | | | | Croissance / Puberté | Prévalences élevées de surpoids et d'obésité. | (Stabilité) Stabilisation des paramètres de croissance, du surpoids et de l'obésité.<br>(Aggravation) Début de la puberté féminine de plus en plus jeune. | | Condition physique | Faible capacité cardio-respiratoire et musculaire. | (Aggravation) Forte diminution de la capacité respiratoire et musculaire depuis les années 2000. | | Socialisation | | | | Socialisation | Autonomisation par paliers. Sociabilités cruciales pour la santé. | (Changement majeur) Socialisation bouleversée par l'arrivée du smartphone et des technologies numériques. | | Santé Sexuelle | | | | Âge du premier rapport | Stabilité depuis une dizaine d'années. | (Tendance) Diminution des proportions de jeunes ayant eu un premier rapport. | | Utilisation du préservatif | \- | (Aggravation) Baisse de l'utilisation. | | IST | Taux élevé d'infections à Chlamydia. | (Aggravation) Augmentation des déclarations d'infections à gonocoque. | | Violence/Harcèlement | | | | Violence / Harcèlement | Incidents graves en milieu scolaire élevés. | (Aggravation) Augmentation du cyberharcèlement et des violences sexuelles.<br>(Amélioration) Diminution des crimes et délits. | | Mode de Vie | | | | Activité Physique | Niveau très faible (12% atteignent les recommandations). | (Aggravation) Augmentation de la prévalence de l'inactivité (+85%). | | Comportements sédentaires | Niveau très élevé (plus de 70% ne respectent pas les recommandations). | (Aggravation) Augmentation exponentielle du temps d'écran. | | Sommeil | Durée insuffisante et dette de sommeil importante. | (Aggravation) Diminution de la durée de sommeil et augmentation des troubles du sommeil. | | Alimentation | \- | (Aggravation) Augmentation des produits type snack et des boissons sucrées.<br>(Amélioration) Diminution du grignotage. | | Environnement | | | | Relations | Digitalisation des pratiques culturelles. | (Aggravation) Sentiment d'isolement en forte progression, surtout chez les filles. | | Inégalités (ISTS) | S'accentuent avec la crise sanitaire. | (Aggravation) Augmentation des ISTS, notamment pour la surcharge pondérale et la santé mentale. |
Pour répondre à ces défis, le HCSP propose une série de recommandations systémiques visant à améliorer la santé des adolescents.
• Aménager l'environnement pour modifier les comportements et encourager la mobilité active (marche, vélo).
• Créer des environnements favorables à la libération de la parole sur les sujets de santé mentale et de violence.
• Anticiper et répondre aux effets du changement climatique sur la santé des adolescents.
• Mobiliser les associations socio-culturelles et sportives dans l'éducation à la santé, en cohérence avec l'Éducation nationale et la santé publique.
• Développer la participation des jeunes dans l'élaboration des politiques publiques qui les concernent.
• Mettre en œuvre une politique publique intersectorielle d'éducation au numérique.
• Poursuivre la dénormalisation du tabac et développer celle de l'alcool.
• Produire des stratégies de surveillance et d'encadrement de la vente et de l'usage de la e-cigarette par les mineurs.
• Évaluer et poursuivre le déploiement des programmes de lutte contre les différentes formes de violence.
• Développer des outils de repérage des signes d'alerte et de dépistage précoce des troubles (anxiété, dépression).
• Former les acteurs de première ligne (enseignants, animateurs, médecins) à ces outils.
• Développer la dimension préventive de la prise en charge en santé.
• Adapter et différencier les messages de santé publique (activité physique, alimentation, sexualité) pour qu'ils soient pertinents pour les adolescents.
• Inciter les parents et les proches à encourager l'activité physique et à réduire les temps d'écran.
• Mettre en œuvre des programmes de soutien à la parentalité.
• Promouvoir et éduquer à l'importance du sommeil naturel (durée, qualité, rythme).
Axe 5 : Développer la Recherche et les Données
• Mesurer périodiquement les déterminants de la santé des adolescents.
• Développer des recherches utilisant des méthodes fiables et objectives, notamment sur le sommeil.
• Mettre en place une surveillance du démarrage pubertaire.
• Disposer de données spécifiques par âge, sexe et genre pour mieux comprendre les phénomènes.
• Compléter les indicateurs de santé sexuelle avec des dimensions qualitatives (satisfaction, plaisir, respect des droits).
Kuehn, Manfred. 2014. “Some Idiosyncratic Reflections on Note-Taking in General and ConnectedText in Particular.” ConnectedText - The Personal Wiki System. https://web.archive.org/web/20140215043743/http://www.connectedtext.com/manfred.php (January 3, 2026).
ECCO version 3.0 was released in the summer of 1995 with an updated user interface based on a ring binder.[11]
Interesting example of a digital tool mimicking a well known analog tool for its user interface.
At the age of eight, she_______________________ speak three languages. 2. And when she was ten, she ___________________________ speak another two languages. 3. When I was fifteen, I ________________________ ride a motorbike. 4. However, at age fifteen, I ____________________________ drive a car. 5. Unfortunately, I ______________________________ find my keys last night when I got home last night. 6. Fortunately, I ____________________________ unlock the door with a spare key last night. 7. However, I _______________________ find the original keys at that time. 8. The rescuers _______________________contact the trapped miners soon after the mine collapsed yesterday. 9. She ______________________ smell gas coming from the stove, so she turned off the burner. 10. However, she ____________________________ see the escaping gas. 11. I ________________________________understand anything that he was saying. 12. We ______________________________ hear Joe enter the house because he made a loud noise.
she could / was able to speak she was able to speak I could / was able to ride I couldn’t / wasn’t able to drive I couldn’t / wasn’t able to find /I was able to unlock I couldn’t / wasn’t able to find /were able to contact /She could smell/ she couldn’t see/ I couldn’t / wasn’t able to understand /We could hear
3. Negative general ability
couldn't
3. When I was fifteen, I ________________________ ride a motorbike.
couldn't
3.____ We were able to get an excellent price on flights for our trip.
SA
3. Negative general ability
couldn't \ not be able to
1. At the age of eight, she_______________________ speak three languages. 2. And when she was ten, she ___________________________ speak another two languages. 3. When I was fifteen, I ________________________ ride a motorbike. 4. However, at age fifteen, I ____________________________ drive a car. 5. Unfortunately, I ______________________________ find my keys last night when I got home last night. 6. Fortunately, I ____________________________ unlock the door with a spare key last night. 7. However, I _______________________ find the original keys at that time. 8. The rescuers _______________________contact the trapped miners soon after the mine collapsed yesterday. 9. She ______________________ smell gas coming from the stove, so she turned off the burner. 10. However, she ____________________________ see the escaping gas. 11. I ________________________________understand anything that he was saying. 12. We ______________________________ hear Joe enter the house because he made a loud noise.
she could / was able to speak she was able to speak I could / was able to ride I couldn’t / wasn’t able to drive I couldn’t / wasn’t able to find /I was able to unlock I couldn’t / wasn’t able to find /were able to contact /She could smell/ she couldn’t see/ I couldn’t / wasn’t able to understand /We could hear
.____ I was able to ride a bike when I was ten years old. 2.____ Unfortunately, I wasn’t able to make a dentist appointment for this week. 3.____ We were able to get an excellent price on flights for our trip. 4.____ Sherry was able to run faster than her brother when they were young. 5.____ David was able to lift heavy boxes before his injury. 6.____ Randy was not able to drive until age eighteen. 7.____ I used to be able to sing. 8.____ The students were able to pass the Final Exam last fall. 9.____ Were you able to finish your homework yesterday?
1GA 2SA 3SA 4GA 5GA 6GA 7GA 8SA 9SA
.____ I was able to ride a bike when I was ten years old. 2.____ Unfortunately, I wasn’t able to make a dentist appointment for this week. 3.____ We were able to get an excellent price on flights for our trip. 4.____ Sherry was able to run faster than her brother when they were young. 5.____ David was able to lift heavy boxes before his injury. 6.____ Randy was not able to drive until age eighteen. 7.____ I used to be able to sing. 8.____ The students were able to pass the Final Exam last fall. 9.____ Were you able to finish your homework yesterday?
1GA 2SA 3SA 4GA 5GA 6GA 7GA 8SA 9SA
biosphere

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The biosphere is all the parts of Earth where life exists. It includes every living organism (plants, animals, fungi, microorganisms) and the environments they live in.
In simple terms:
Biosphere = all life on Earth + where that life can survive
The biosphere is not a single layer. It overlaps with three major Earth systems:
Life exists:
The biosphere is organized hierarchically:
The biosphere is the largest biological level.
Energy flows one way (sun → organisms → heat), while matter cycles.
The biosphere depends on biogeochemical cycles, such as:
These cycles move matter between:
Without these cycles, life could not continue.
The biosphere is:
Major threats include:
Changes in one part of the biosphere can affect the entire system.
| Term | Meaning | | --------- | ------------------------------- | | Biosphere | All life on Earth | | Ecosystem | Life + environment in one place | | Biome | Large regional ecosystem | | Habitat | Where one species lives |
生物圈是指地球上一切生命存在的总体, 包括所有生物以及它们能够生存的环境。
一句话理解:
生物圈 = 地球上所有生命 + 生命活动的空间
生物圈并不是一个独立的“层”,而是与三大地球系统重叠:
生命可以存在于:
从小到大:
👉 生物圈是最大的生物学层级。
⚠️ 能量是单向流动,不能循环; 而物质是循环的。
生物圈依赖多种循环维持稳定:
这些循环连接:
主要威胁:
| 概念 | 含义 | | ---- | ---------- | | 生物圈 | 地球上所有生命 | | 生态系统 | 某一区域的生命与环境 | | 生物群系 | 大尺度生态系统 | | 栖息地 | 某物种生活的地方 |
如果你愿意,我可以把 biosphere + boreal + mosses + ferns + slugs 整理成一页 Science 10「生态层级总览图」(双语、考试友好版),或做成 PPT / HTML 互动页面,直接用于课堂或复习。
Boreal





Boreal refers to the boreal forest, also called the taiga—a vast cold, northern biome that stretches across Canada, Alaska, Scandinavia, and Siberia. It lies south of the Arctic tundra and north of temperate forests.
These conditions strongly limit which plants can survive.
The boreal forest is dominated by coniferous trees, such as:
Key adaptations:
The forest floor commonly supports:
Common animals include:
Animal adaptations:
Life in the boreal forest is highly seasonal:
Many organisms must complete their entire life cycle quickly during the short summer.
The boreal forest is one of Earth’s most important ecosystems:
| Feature | Boreal Forest | Temperate Forest | Tundra | | -------------- | --------------- | -------------------- | ------------------- | | Trees | Conifers | Broadleaf + conifers | Almost none | | Winters | Very long, cold | Mild to cold | Extreme | | Growing season | Short | Moderate | Very short | | Soil | Acidic, thin | Richer | Frozen (permafrost) |
Because recovery is slow, damage can last decades or longer.
Boreal 指的是北方针叶林生物群系,也叫 泰加林(taiga)。 它分布在北半球高纬度地区,包括加拿大、阿拉斯加、北欧和西伯利亚, 位于苔原以南、温带森林以北。
这些条件限制了植物种类。
以针叶树为主:
适应特征:
林下常见:
动物适应方式:
北方针叶林的生命活动高度依赖季节:
许多生物必须在极短的夏季完成生长和繁殖。
| 特征 | 北方针叶林 | 温带森林 | 苔原 | | --- | ----- | ----- | ---- | | 树木 | 针叶树 | 阔叶+针叶 | 几乎没有 | | 冬季 | 很冷很长 | 较温和 | 极寒 | | 生长季 | 短 | 中等 | 极短 | | 土壤 | 贫瘠 | 较肥沃 | 冻土 |
由于恢复速度慢,生态破坏影响深远。
如果你需要,我可以把 Boreal + mosses + ferns + slugs 整合成一页 Science 10 生物群系图谱 / 双语 PPT / HTML 复习页面,非常适合课堂或考试复习使用。
mosses





Mosses are small, non-vascular plants. They do not have true roots, stems, or leaves, and they do not produce flowers or seeds. Instead, mosses reproduce using spores.
They are among the earliest land plants, helping pave the way for later plants by colonizing bare rock and soil.
Because mosses lack vascular tissue, water and nutrients move by diffusion, limiting their size.
Mosses have alternation of generations, but unlike ferns:
Steps:
Mosses thrive in:
They can survive drying out and then revive when water returns, a trait called desiccation tolerance.
Mosses play crucial roles in ecosystems:
| Feature | Mosses | Ferns | Flowering Plants | | ------------------------------ | ------ | ----- | ---------------- | | Vascular tissue | ❌ No | ✅ Yes | ✅ Yes | | True roots | ❌ No | ✅ Yes | ✅ Yes | | Seeds | ❌ No | ❌ No | ✅ Yes | | Spores | ✅ Yes | ✅ Yes | ❌ | | Water needed for fertilization | ✅ Yes | ✅ Yes | ❌ |
苔藓植物是一类无维管植物。 它们没有真正的根、茎、叶,也不开花、不结种子,而是靠孢子繁殖。
苔藓是最早登陆陆地的植物之一,对地表生态系统的形成非常重要。
由于没有维管组织,苔藓体型很小。
苔藓也有世代交替,但特点是:
过程:
苔藓常见于:
它们可以干燥休眠,遇水后迅速恢复生命活动。
| 特点 | 苔藓 | 蕨类 | 开花植物 | | ------ | --- | --- | ---- | | 维管组织 | ❌ 无 | ✅ 有 | ✅ 有 | | 真根 | ❌ 无 | ✅ 有 | ✅ 有 | | 种子 | ❌ 无 | ❌ 无 | ✅ 有 | | 孢子繁殖 | ✅ | ✅ | ❌ | | 是否需水受精 | ✅ | ✅ | ❌ |
如果你需要,我可以把 mosses + ferns + slugs 整合成一张 Science 10 生物分类 / 非种子植物对比表,或做成 双语 PPT / HTML 学习页,方便你直接课堂使用。
ferns





Ferns are vascular plants that do not produce flowers or seeds. Instead, they reproduce using spores. Ferns are among the oldest groups of land plants, appearing hundreds of millions of years ago—long before flowering plants.
They commonly grow in moist, shaded environments, such as forests, wetlands, and near streams.
Fronds – the large, divided leaves of a fern
Each frond is often made up of many smaller leaflets.
Fiddleheads – tightly coiled young fronds
They uncoil as they grow (a key identifying feature).
Rhizome – an underground stem
Anchors the fern and stores nutrients.
Sori – small brown or black spore clusters
Found on the underside of mature fronds.
Ferns reproduce through a two-stage life cycle called alternation of generations:
This is why ferns are strongly associated with wet environments.
As a result, ferns thrive in forest understoreys, ravines, and damp coastal regions.
Ferns play several important roles:
| Feature | Ferns | Flowering Plants | | ------------------------------ | ------------- | ---------------- | | Seeds | ❌ No | ✅ Yes | | Flowers | ❌ No | ✅ Yes | | Reproduction | Spores | Seeds | | Water needed for fertilization | ✅ Yes | ❌ No | | Typical habitat | Moist, shaded | Wide range |
蕨类植物是一类有维管组织、但不开花、不结果实的植物。 它们通过孢子繁殖,而不是种子。 蕨类植物非常古老,在恐龙出现之前就已经存在。
它们多生长在潮湿、阴凉的环境中,如森林、溪流旁和湿地。
蕨类具有世代交替的生命周期:
这就是蕨类依赖潮湿环境的重要原因。
因此,蕨类常见于森林下层(林下植被)。
| 特征 | 蕨类 | 开花植物 | | ------ | ---- | ----- | | 种子 | ❌ 无 | ✅ 有 | | 花 | ❌ 无 | ✅ 有 | | 繁殖方式 | 孢子 | 种子 | | 是否需水受精 | ✅ 需要 | ❌ 不需要 | | 生境 | 阴湿环境 | 多样 |
如果你愿意,我可以把 slugs + ferns 合并成一页 Science 10 生态系统对照图表 / HTML 学习页 / 双语 PPT,非常适合课堂或复习用。
slugs





Slugs are soft-bodied land mollusks, closely related to snails. Unlike snails, they do not have a visible external shell. Some species still possess a small internal shell plate, hidden beneath the mantle.
Tentacles (feelers) – usually two pairs:
Upper pair: eyes at the tips (detect light and shapes)
Slugs move using wave-like muscle contractions along the foot. The mucus:
Slugs prefer cool, moist environments, which is why they are commonly seen:
Sunlight and dry air can quickly dry them out, so they avoid exposed areas.
They play an important role in nutrient recycling, even though gardeners may see them as pests.
Slugs are prey for:
They are an important link in ecosystem energy flow.
Most slugs are hermaphrodites (each individual has both male and female organs). After mating, they lay clusters of gel-like eggs in moist soil. This allows populations to increase rapidly under favorable conditions.
蛞蝓是一种陆生软体动物,和蜗牛同属腹足纲。 与蜗牛不同的是,蛞蝓没有明显的外壳,但很多种类仍保留着退化的内壳,藏在外套膜下面。
触角:通常有两对
上触角:顶端有眼点,感知光线
蛞蝓靠足部产生的波浪式肌肉收缩前进。 分泌的黏液可以:
蛞蝓喜欢阴凉、潮湿的环境,因此常见于:
干燥和阳光会让它们迅速脱水。
它们在生态系统中帮助分解有机物、循环养分。
蛞蝓是许多动物的食物,包括:
是生态系统中重要的一环。
多数蛞蝓是雌雄同体,交配后在潮湿环境中产下胶状卵团。 因此在条件合适时,数量会迅速增加。
如果你愿意,我可以把这套内容整理成 Science 10 / Biology 图文 PPT 或 HTML 教学页面(双语、可直接课堂使用)。
Pronghorn antelope




Below is a thorough explanation of “Pronghorn antelope” with appropriate pictures, in both English and Chinese, suitable for Science / Biology / Ecology / Biomes (Grasslands).
The pronghorn antelope (often called simply pronghorn) is a hoofed mammal native to North America.
Important note:
From the pictures above, notice:
Horns are unique:
Pronghorns are the fastest land mammals in North America and the second fastest in the world (after the cheetah).
This speed evolved to escape ancient predators.
Pronghorns live in:
They prefer wide, open spaces, where their speed and vision are most useful.
Pronghorns are herbivores.
Their diet includes:
They can survive in dry environments with little water.
Their white rump patch can stand up like a flag to warn others.
叉角羚是一种原产于北美洲的有蹄类哺乳动物。
重要说明:
从图片中可以看到叉角羚的特征:
角的特点非常独特:
叉角羚是:
特点:
叉角羚主要生活在:
它们依赖开阔视野和高速奔跑生存。
叉角羚是草食动物,主要吃:
它们对干旱环境适应能力很强。
尾部白色毛可竖起,用作危险警示信号。
The pronghorn is a uniquely North American mammal famous for its incredible speed. 叉角羚是一种北美特有、以惊人速度著称的哺乳动物。
如果你愿意,我可以把 pronghorn vs deer vs antelope 做成一张 考试对比表(中英 + 配图),非常适合 Science 10 / 地理生物综合复习。
Tundra



Below is a thorough explanation of “Tundra” with appropriate pictures, in both English and Chinese, suitable for Science / Geography / Ecology / Biomes.
Tundra is a cold, treeless biome found in the far north of the Earth and at high mountain elevations.
The word tundra comes from a Finnish word meaning “treeless plain.”
Key idea:
Very cold + very short growing season + no trees
Tundra climates are extreme:
Temperatures can stay below freezing for most of the year.
A defining feature of tundra is permafrost.
This prevents:
Deep root growth
This is why tundra landscapes are flat and treeless.
Plants must survive cold, wind, and frozen ground.
Common tundra plants:
Adaptations:
Animals are adapted to cold and scarce food.
Common tundra animals:
Adaptations include:
There are two main types:
Arctic tundra
Found near the North Pole
Very cold, flat, and vast
Alpine tundra
Found on high mountains
Melting permafrost can:
Release greenhouse gases
苔原是一种寒冷、几乎没有树木的生物群系,主要分布在:
“Tundra” 一词源自芬兰语,意思是 “没有树的平原”。
苔原气候十分严酷:
一年中大部分时间气温低于 0°C。
苔原最重要的特征是永久冻土:
这使苔原呈现平坦、无树的景观。
苔原植物必须适应寒冷和冻土:
常见植物:
适应方式:
苔原动物适应寒冷和食物稀少:
常见动物:
适应方式:
主要有两种苔原:
北极苔原
接近北极
寒冷、广阔、平坦
高山苔原
位于高山之上
永久冻土融化会:
释放温室气体
The tundra is a cold, treeless biome with permafrost and a very short growing season. 苔原是一种寒冷、无树、具有永久冻土、生长季极短的生物群系。
如果你需要,我可以把 tundra vs taiga vs desert 做成一张 中英对照 + 配图的考试对比表,非常适合 Science 10 复习。
garter
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Below is a thorough explanation of “garter” (as in garter snake) with appropriate pictures, in both English and Chinese, suitable for Science / Biology / Ecology.
In biology, “garter” most commonly refers to a garter snake.
A garter snake is a small to medium-sized, non-venomous snake widely found in North America.
From the pictures, notice these typical traits:
The striped pattern makes garter snakes easy to recognize.
Garter snakes live in many environments, including:
They are very adaptable and common.
Garter snakes are carnivores.
They eat:
They help control pest populations.
If threatened, they may:
Bite (rarely)
They prefer to escape rather than fight.
In spring, many may gather together after hibernation.
在生物学中,garter 通常指 袜带蛇。
袜带蛇是:
从图片中可以看到袜带蛇的典型特征:
袜带蛇适应性很强,常见于:
袜带蛇是肉食性动物,主要捕食:
受到惊吓时可能会:
假咬
通常会选择迅速逃离。
A garter snake is a harmless, striped snake commonly found in North America. 袜带蛇是一种常见于北美、无毒且有条纹的蛇类。
如果你需要,我可以把 garter snake vs rattlesnake(袜带蛇 vs 响尾蛇) 做成一张 考试对比表(中英 + 配图)。
newt




Below is a thorough explanation of “newt” with appropriate pictures, in both English and Chinese, suitable for Science / Biology / Ecology / Life Cycles.
A newt is a type of amphibian, closely related to salamanders. Newts typically spend part of their life in water and part on land.
From the pictures above, notice:
Newts are usually smaller than frogs and keep their tails as adults.
Newts undergo metamorphosis:
This life cycle shows why newts are called amphibians (“double life”).
Newts live in:
They require moist environments because their skin must stay damp for breathing.
Newts are carnivores.
They eat:
Newts have several remarkable defenses:
This makes newts very important in scientific research.
蝾螈是一种两栖动物,与蝾螈类/鲵类(salamanders)关系密切。
它们一生中:
从图片可以看到蝾螈的典型特征:
蝾螈经历变态发育:
这体现了两栖动物的“双重生活”。
蝾螈常见于:
必须保持环境湿润,因为它们通过皮肤辅助呼吸。
蝾螈是肉食性动物,主要捕食:
蝾螈具有非常独特的能力:
因此在生物医学研究中非常重要。
A newt is a small amphibian that lives both in water and on land and can regenerate lost body parts. 蝾螈是一种既能在水中又能在陆地生活、并具有再生能力的两栖动物。
如果你需要,我可以把 newt vs frog vs salamander 做成一张 中英对照 + 配图的考试对比表,非常适合 Science 10 复习。
moose




Below is a thorough explanation of “moose” with appropriate pictures, in both English and Chinese, suitable for Science / Biology / Ecology / Food Web topics.
A moose is the largest member of the deer family (Cervidae). Moose live mainly in cold, northern regions, especially boreal forests.
From the pictures, notice these distinctive traits:
Moose prefer:
They are common in Canada, Alaska, Scandinavia, and northern Russia.
Moose are herbivores.
Their diet includes:
They can eat many kilograms of plants per day.
Moose have several adaptations for cold environments:
Moose can dive underwater to eat aquatic plants.
Despite their size, moose can run fast and swim very well.
驼鹿是鹿科中体型最大的动物,主要生活在寒冷的北方地区,尤其是寒带森林。
从图片可以看到驼鹿的典型特征:
驼鹿常生活在:
在加拿大非常常见。
驼鹿是草食性动物,主要吃:
每天可以吃掉大量植物。
驼鹿具备多种适应性特征:
它们还能潜水取食水草。
The moose is the largest deer, adapted for cold forests and wetlands. 驼鹿是最大的鹿类,适应寒冷森林和湿地环境。
如果你愿意,我可以把 moose vs elk vs deer 做成一张 中英对照 + 配图的考试对比表,很适合 Science 10 复习。
herons




Below is a thorough explanation of “herons” with appropriate pictures, in both English and Chinese, suitable for Science / Biology / Ecology / Food Web topics.
Herons are large wading birds that usually live near water. They belong to a group of birds adapted for standing and hunting in shallow water.
From the pictures, notice these classic heron traits:
Herons are commonly found in:
They are widespread across most continents, except Antarctica.
Herons are carnivorous predators.
Typical hunting method:
They eat:
Herons are often used as indicator species:
苍鹭是一类生活在水边的大型涉禽,适合在浅水中行走和捕食。
从图片中可以看到苍鹭的典型特征:
苍鹭常见于:
分布范围很广,除南极洲外几乎遍布全球。
苍鹭是肉食性捕食者。
典型捕食方式:
主要食物包括:
苍鹭常被视为生态指示物种: 👉 出现苍鹭,通常说明湿地生态较健康。
Herons are long-legged birds adapted for hunting in shallow water. 苍鹭是适合在浅水中捕食的长腿涉禽。
如果你需要,我可以把 herons 与 egrets / cranes / storks 的区别 做成一张 考试对比表(中英 + 配图),非常适合 Science 10 复习。
erosion




Below is a thorough explanation of “erosion” with appropriate pictures, in both English and Chinese, suitable for Science / Geography / Earth Science.
Erosion is the process by which soil, rock, or sediment is worn away and moved from one place to another by natural forces.
Key idea:
From the pictures above, erosion is mainly caused by:
Water
Rain washes soil downhill
Wind
Blows away loose sand and soil (common in deserts)
Ice (glaciers)
Scrapes rock as glaciers move
Waves
Wear away coastal cliffs and beaches
Gravity
Landslides and rockfalls pull material downslope
Erosion speeds up when:
Plants normally hold soil in place with roots.
Negative effects:
Positive effects (long-term):
侵蚀指的是: 👉 土壤、岩石或沉积物被磨损并被搬运到别处的过程。
关键区分:
从图片可以看到,侵蚀主要由以下因素造成:
水
雨水冲刷土地
风
吹走沙土(沙漠常见)
冰川
移动时刮擦岩石
海浪
冲刷海岸和悬崖
重力
引发滑坡、崩塌
侵蚀更严重的情况包括:
植物根系能固定土壤,减少侵蚀。
负面影响:
正面影响(长期):
例如:
Erosion is the movement of weathered material by water, wind, ice, or gravity. 侵蚀是风、水、冰或重力把风化后的物质搬走的过程。
如果你需要,我可以把 erosion vs weathering vs deposition 做成一页 Science 10 考试对照表 + 标注示意图。
snowshoehare




Below is a thorough explanation of “snowshoe hare” with appropriate pictures, in both English and Chinese, suitable for Science / Biology / Ecology / Food Web study.
A snowshoe hare is a large hare that lives in cold, snowy regions, especially in boreal forests of North America.
It is called a snowshoe hare because of its very large hind feet, which work like snowshoes.
From the pictures above, notice:
Seasonal color change
Winter: white fur (snow camouflage)
Snowshoe hares live mainly in:
They rely on vegetation for cover and protection.
Snowshoe hares are herbivores.
This seasonal diet matches food availability.
Snowshoe hares are a classic example of adaptation:
These traits greatly reduce predation risk.
Snowshoe hares are the primary prey of lynx.
Their populations show a famous predator–prey cycle:
This cycle is widely used to teach:
| Feature | Hare | Rabbit | | ------- | -------------------------- | ----------------------- | | Size | Larger | Smaller | | Young | Born furred, eyes open | Born naked, eyes closed | | Habitat | Open forests | Burrows | | Speed | Faster | Slower |
Snowshoe hares are hares, not rabbits.
雪鞋兔是一种生活在寒冷多雪地区的大型兔类,主要分布在北美寒带森林。
名字中的 snowshoe(雪鞋) 来自它们又大又宽的后脚。
从图片可以看到:
季节性变色
冬天:白色(雪地伪装)
雪鞋兔主要生活在:
雪鞋兔是草食动物:
雪鞋兔是“适应性进化”的经典例子:
雪鞋兔是猞猁最重要的猎物。
两者形成著名的种群周期:
这是生态学中讲解:
的必考案例。
The snowshoe hare is a cold-adapted hare with large feet and seasonal color change. 雪鞋兔是一种适应寒冷环境、脚大如雪鞋、会随季节变色的兔类。
如果你愿意,我可以把 lynx–snowshoe hare 种群循环 整理成一页 Science 10 考试速记图 + 中英对照笔记。
lynx




Below is a thorough explanation of “lynx” with appropriate pictures, in both English and Chinese, suitable for Science / Biology / Ecology / Food Web topics.
A lynx is a medium-sized wild cat found in cold and temperate regions of the Northern Hemisphere.
Lynx are predators and belong to the cat family (Felidae).
From the pictures, notice these classic lynx traits:
These features help lynx survive in snowy forests.
Lynx typically live in:
They are common in:
They prefer quiet, forested areas with good cover for hunting.
Lynx are carnivores.
Their diet mainly includes:
Because lynx depend heavily on hares, their populations often rise and fall together.
Lynx and hare populations show a famous predator–prey cycle:
This cycle is a classic example used in ecology to explain:
They rely on stealth, not speed.
Lynx are top or near-top predators:
猞猁是一种中等体型的野生猫科动物,生活在北半球寒冷或温带地区。
猞猁是肉食性捕食者,属于猫科。
从图片可以清楚看到猞猁的典型特征:
这些特征帮助猞猁在雪地森林中生存。
猞猁主要生活在:
常见于:
猞猁是纯肉食动物,主要捕食:
猞猁数量与雪鞋兔数量高度相关。
猞猁与雪鞋兔构成著名的种群周期:
这是生态学中讲解:
的经典案例。
猞猁属于高位捕食者:
The lynx is a cold-adapted wild cat with tufted ears and snowshoe-like paws. 猞猁是一种适应寒冷环境、长有耳簇和“雪鞋脚掌”的野生猫科动物。
如果你愿意,我可以把 lynx–hare 种群循环 做成一张 Science 10 考试图解 + 中英对照表,非常适合复习生态学。
monarch




Below is a thorough explanation of “monarch” (monarch butterfly) with appropriate pictures, in both English and Chinese, suitable for Science / Biology / Ecology / Evolution topics.
In biology, monarch usually refers to the monarch butterfly (Danaus plexippus).
It is one of the most famous butterflies in the world, known for:
From the pictures:
Sex difference:
Monarch caterpillars feed on milkweed plants.
Milkweed contains toxic chemicals (cardiac glycosides):
This makes monarchs a classic example of chemical defense.
The monarch’s bright orange color is not for camouflage.
Instead, it is warning coloration:
This is why other butterflies benefit from mimicking monarchs.
Monarch butterflies are famous for their multi-generation migration:
No single butterfly makes the entire round trip— it takes several generations to complete the cycle.
Monarchs undergo complete metamorphosis:
Key species for teaching:
Natural selection
They are also a major conservation symbol due to population decline.
在生物学中,monarch 指的是 帝王蝶。
帝王蝶因以下特点而闻名:
从图片可见:
雌雄区别:
帝王蝶幼虫只吃马利筋(milkweed)。
马利筋含有有毒化学物质:
帝王蝶鲜艳的颜色不是为了隐藏,而是为了警告:
👉 “我有毒,不好吃。”
捕食者一旦学会,就会避开所有相似颜色的蝴蝶。
帝王蝶拥有昆虫中最壮观的迁徙行为之一:
迁徙是通过多代接力完成的,而非一只蝴蝶往返全程。
帝王蝶经历:
是学习以下概念的经典物种:
进化
同时也是全球生物保护的象征。
The monarch butterfly is toxic, brightly colored, and famous for its long-distance migration. 帝王蝶是一种有毒、颜色鲜艳、以长距离迁徙著称的蝴蝶。
如果你愿意,我可以把 monarch vs viceroy 做成一页 考试专用对比表(带标注图),非常适合 Science 10 / Biology 复习。
viceroy butterfly




Below is a thorough explanation of “viceroy butterfly” with appropriate pictures, in both English and Chinese, suitable for biology, ecology, and evolution (mimicry) topics.
The viceroy butterfly is a North American butterfly well known for looking very similar to the monarch butterfly.
At first glance (as you can see in the pictures), it is:
Because of this similarity, it is often mistaken for a monarch.
A major visual difference:
➡️ The viceroy has a black line across the hindwing (the lower wing). ➡️ Monarchs do NOT have this line.
This black transverse line is the easiest way to tell them apart in pictures.
The viceroy butterfly is a classic example used in biology to explain mimicry.
Modern research shows:
Viceroy butterflies are commonly found in:
They are widely distributed across North America.
Caterpillars (larvae):
Adults:
Serve as an important teaching example of:
Adaptation
副王蝶是一种分布在北美的蝴蝶,最著名的特点是—— 👉 外形与帝王蝶极其相似。
从图片中可以看到:
因此在野外常被误认为帝王蝶。
👉 副王蝶在后翅上有一条明显的黑色横线 👉 帝王蝶没有这条线
这条黑线是区分两者最快、最可靠的方法。
副王蝶是讲解拟态进化的经典例子。
现在认为:
副王蝶常见于:
广泛分布于整个北美洲。
幼虫(毛毛虫):
成虫:
是学习以下概念的经典物种:
进化
The viceroy butterfly survives by mimicking the appearance of toxic butterflies. 副王蝶通过模仿有毒蝴蝶的外形来提高生存率。
如果你愿意,我可以把 viceroy butterfly vs monarch butterfly 做成一张 考试对比表(中英 + 标注图),非常适合 Science 10 / Biology 复习。
stick bugs



Below is a thorough explanation of “stick bugs” with appropriate pictures, in both English and Chinese, suitable for biology / ecology study.
Stick bugs are insects that look like twigs or small branches. They are also commonly called stick insects or walking sticks.
Their twig-like appearance is a form of camouflage, helping them avoid predators.
From the pictures, notice that:
This makes predators (birds, lizards) mistake them for real sticks.
Stick bugs live mainly in:
They are common in tropical and subtropical regions, but some species live in temperate areas.
They usually stay on plants, blending in with twigs and leaves.
Stick bugs are herbivores:
Besides camouflage, stick bugs may:
stick bugs 是一种外形极像树枝或细枝的昆虫。 它们也叫:
从图片中可以看到:
这是典型的拟态 / 伪装,用来躲避天敌。
竹节虫主要生活在:
多见于热带和亚热带地区,也有一些生活在温带地区。
竹节虫是草食性动物:
除了伪装,竹节虫还可以:
Stick bugs are insects that survive by looking almost exactly like twigs. 竹节虫是一种通过“长得像树枝”来生存的昆虫。
如果你愿意,我可以把 stick bugs 和 camouflage / mimicry / predators 做成一张 生物概念对照表,或整理成 Science 10 考试速记卡片。
twigs



Below is a thorough explanation of “twigs” with appropriate pictures, in both English and Chinese, suitable for biology / ecology / reading-comprehension contexts.
Twigs is the plural of twig.
A twig is a small, thin, woody branch at the outermost part of a tree or shrub. It is younger and thinner than a branch.
From the pictures:
Twigs grow:
They are the most recent growth of a woody plant.
A twig may have:
In winter (for deciduous trees), twigs are especially important because:
Twigs play several ecological roles:
Fallen twigs:
Twig vs branch
Twig: very thin, young, flexible
Branch: thicker, older, structural
Twig vs stick
Twig: attached to a living plant (or recently fallen)
twigs 是 twig(细枝、嫩枝) 的复数形式。
twig 指的是: 👉 树或灌木最外侧、最细、最新生长的木质枝条
从图片可以看到:
细枝通常:
一根细枝通常包括:
在冬季(落叶树):
细枝的作用包括:
掉落在地上的细枝:
twig vs branch(细枝 vs 粗枝)
twig:细、小、年轻
branch:粗、大、较老
twig vs stick(细枝 vs 木棍)
twig:来自活植物
Twigs are the thin, young branches at the tips of trees where new growth occurs. 细枝是树木末端最细、最新生长的枝条,是新叶和新花生长的地方。
如果你愿意,我可以把 twigs 和 leaves / branches / stems 做成一个 对比表(中英 + 配图),或者整理成 Science 10 生物考试速记卡片版。
clams




Below is a thorough explanation of “clams” with appropriate pictures, in both English and Chinese, suitable for biology / ecology study.
Clams are the plural of clam. A clam is a bivalve mollusk, meaning it has two hard shells (valves) joined by a hinge.
From the pictures above, you can see:
Clams usually live:
In the images, notice how:
Clams are filter feeders.
From the diagram:
This feeding method helps:
From the images:
When threatened, clams:
Snap shells shut
They rely more on defense and hiding than speed.
Ecologically
For humans
clams 是 clam(蛤 / 蛤蜊) 的复数形式。 蛤蜊属于双壳类软体动物,有两片硬壳。
从图片可以看到:
蛤蜊通常生活在:
图片中可以看到:
蛤蜊是滤食性动物。
根据结构图:
这种方式:
从图片可见:
遇到危险时:
壳会迅速闭合
蛤蜊主要依靠隐藏和防御生存。
生态意义
人类用途
Clams are bivalve animals that live buried in sand and feed by filtering water. 蛤蜊是埋在沙泥中的双壳动物,通过过滤水中的微小生物来进食。
如果你愿意,我可以把这一部分整理成 Science 10 / Biology 的考试笔记版,或做成 中英对照表 + 关键术语卡片。
Porcupines


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Porcupines are medium- to large-sized rodents best known for their sharp defensive quills that cover much of their body.
They are not aggressive animals, but they are very well protected.
There are two main groups:
Porcupines have:
❗ Quills are not shot or thrown — they detach easily when touched.
When a predator touches or bites the porcupine:
Quills embed into the predator’s skin
This is a classic example of structural defense.
Porcupines live in:
Many species:
Porcupines are herbivores. They eat:
In winter, some species rely heavily on tree bark.
Porcupines:
❌ Porcupines shoot quills → false ❌ Porcupines are aggressive → false ✅ Quills detach on contact ✅ Porcupines defend passively
豪猪是一种啮齿类动物, 最显著的特征是覆盖全身的尖刺(硬毛)。
它们通常性情温和,但防御能力极强。
分为两大类:
豪猪具有:
⚠️ 豪猪不会射出刺,刺是被动脱落的。
捕食者接触时:
刺会扎进皮肤
这是典型的结构性防御。
豪猪生活在:
它们通常:
豪猪是草食动物,食物包括:
冬季常啃食树皮。
豪猪:
❌ 豪猪会射刺 ❌ 豪猪主动攻击
✅ 豪猪靠被动防御 ✅ 刺一碰就脱落
豪猪不打人,刺替它说话
If you want, I can next:
canine




Canine has two closely related meanings, depending on context:
Canine describes something related to dogs or dog-like animals, or related to canine teeth.
A canine is a type of tooth—the long, pointed tooth located between the incisors and premolars.
Canine teeth are:
They are especially prominent in carnivores, but also present in humans.
Functions:
In mammals, the tooth order is:
Incisors → Canines → Premolars → Molars
Humans have four canines:
So:
All fangs are canines, but not all canines are fangs.
Large canines are usually associated with predatory lifestyles.
Canine teeth reflect:
Long canines → predators Reduced canines → herbivores
Canine 有两个常见含义:
表示与狗或犬类有关的,或与犬齿有关的。
Canine 指的是一种牙齿——犬齿。
犬齿是:
人类和许多动物都有犬齿。
门齿 → 犬齿 → 前臼齿 → 臼齿
人类一共有 4 颗犬齿。
犬齿大小反映:
长犬齿 → 肉食性强
If you want, I can next:
cougar
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A cougar is a large wild cat native to the Americas. It is one of the most widespread land mammals in the Western Hemisphere.
The cougar is known by many names, including:
All of these names refer to the same species.
Cougars have:
They can:
Cougars live in a wide range of habitats, including:
Their range stretches from:
They are highly adaptable predators.
Cougars are carnivores and ambush predators.
They hunt mainly:
Hunting strategy:
They usually hunt alone.
Cougars are apex predators, meaning:
By controlling herbivores, cougars help maintain ecosystem balance.
Cougars:
Conservation focuses on:
美洲狮是一种分布在美洲大陆的大型猫科动物, 是西半球分布最广的陆生哺乳动物之一。
它有多个名称:
这些都指同一种动物。
美洲狮具有:
它们:
美洲狮生活在多种环境中:
分布范围从:
美洲狮是肉食性伏击猎手:
主要猎物:
捕猎方式:
通常独居。
美洲狮是顶级捕食者:
If you want, I can next:
pterosaur




A pterosaur is a group of extinct flying reptiles that lived during the age of dinosaurs (the Mesozoic Era, about 230–66 million years ago).
Very important:
They were the first vertebrates ever to fly.
Pterosaurs flew using wings made of skin, not feathers.
Their wings:
This is very different from:
Pterosaurs varied enormously in size:
One of the largest known:
Quetzalcoatlus
About the height of a giraffe
They are the largest flying animals ever known.
Different pterosaurs occupied different ecological niches:
Their teeth and beak shapes varied depending on diet.
Pterosaurs lived:
Many species were excellent soarers, similar to modern albatrosses, using air currents to stay aloft.
| Feature | Pterosaurs | Birds | | ------------ | ---------------------- | ---------------------- | | Wings | Skin membrane | Feathers | | Wing support | One very long finger | Arm + feathers | | Teeth | Many species had teeth | Modern birds have none | | Origin | Reptiles | Dinosaurs (theropods) |
Pterosaurs went extinct during the mass extinction that ended the age of dinosaurs (~66 million years ago), likely due to:
Birds survived; pterosaurs did not.
Pterosaurs are important because they show:
翼龙是一类已经灭绝的会飞的爬行动物, 生活在恐龙时代(中生代,约2.3亿–6600万年前)。
重点区分:
它们是地球上最早会飞的脊椎动物。
翼龙的翅膀是由皮膜构成的:
这与:
翼龙体型跨度非常大:
代表性巨型翼龙:
Quetzalcoatlus
站立高度接近长颈鹿
不同翼龙占据不同生态位(niches):
牙齿和嘴型反映了不同的取食方式。
翼龙常生活在:
许多翼龙善于滑翔,类似今天的信天翁。
| 特征 | 翼龙 | 鸟类 | | ---- | ------ | ------- | | 翅膀 | 皮膜 | 羽毛 | | 支撑结构 | 一根超长手指 | 手臂 + 羽毛 | | 牙齿 | 多数有 | 现代鸟类无 | | 进化来源 | 爬行动物 | 恐龙 |
翼龙在约 6600 万年前的大灭绝事件中消失, 可能原因包括:
翼龙帮助我们理解:
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albatrosses




Albatrosses are very large seabirds that live mainly over the open oceans, especially in the Southern Ocean and the North Pacific.
They are famous for their enormous wingspans—the largest of any living bird.
Albatrosses are known for:
Some species can have a wingspan of over 3.5 meters (11 feet).
Albatrosses use a flight technique called dynamic soaring:
Because of this, albatrosses can travel thousands of kilometers without landing.
Albatrosses mainly eat:
They usually:
This high parental investment means populations recover very slowly if numbers decline.
Albatrosses:
They are often used as sentinel species for changes in marine ecosystems.
Many albatross species are threatened or endangered due to:
信天翁是一类体型极大的海鸟, 主要生活在远洋海域,尤其是南大洋和北太平洋。
它们以世界上最大的鸟类翼展而闻名。
信天翁具有:
信天翁使用动态滑翔:
主要捕食:
信天翁:
许多信天翁正面临威胁:
信天翁 = 超长翅膀 + 远洋滑翔大师
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pelicans




Pelicans are large water birds known for their long bills and distinctive throat pouches (gular pouches). They live near oceans, lakes, rivers, and wetlands and are specialized fish eaters.
Pelicans are easy to recognize because they have:
The pouch is used to scoop fish, then drain water before swallowing.
Pelicans use two main feeding strategies:
Plunge diving (e.g., brown pelicans) They dive from the air into water to catch fish.
Cooperative fishing (common in white pelicans) Groups work together to herd fish into shallow water, then scoop them up.
Pelicans live in:
They usually nest in colonies on islands, sandbars, or quiet shorelines.
Pelicans:
鹈鹕是一种体型很大的水鸟, 以超长的嘴和可伸展的喉囊而闻名。
它们主要以鱼类为食,生活在水域附近。
鹈鹕具有:
鹈鹕有两种常见捕食方式:
俯冲捕鱼(如褐鹈鹕) 从空中俯冲入水抓鱼。
合作捕鱼(常见于白鹈鹕) 多只鹈鹕一起把鱼赶到浅水区再捕食。
鹈鹕生活在:
它们常常群体筑巢。
鹈鹕:
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elk




An elk is a large deer species native to North America and eastern Asia. In North America, “elk” usually refers to wapiti (Cervus canadensis).
They are among the largest land mammals on the continent.
Elk live in a range of habitats:
They often move seasonally, migrating to higher elevations in summer and lower areas in winter.
Elk are herbivores and eat:
They are grazers and browsers, depending on season and location.
During the rut:
Elk are important because they:
They occupy a clear ecological niche as large grazing herbivores.
| Animal | Difference | | --------- | ---------------------------------------- | | Elk | Very large deer, big antlers, loud bugle | | Moose | Even larger, broader antlers | | Deer | Smaller body and antlers |
在北美,elk 通常指 美洲赤鹿(wapiti), 是一种体型巨大的鹿科动物。
常进行季节性迁徙。
草食动物,吃:
麋鹿:
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coyotes
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Coyotes are medium-sized wild canids native to North America. They are scientifically known as Canis latrans, meaning “barking dog.”
They are closely related to:
Coyotes typically have:
They are smaller than wolves but usually larger than foxes.
Coyotes are extremely adaptable and live in:
They are now found across:
Their range has expanded, not shrunk, despite human activity.
Coyotes are omnivores, meaning they eat both animals and plants.
They eat:
This flexible diet helps them survive in many environments.
Coyotes play a key role as mesopredators:
In some areas, they replace wolves as the top predator.
Understanding their role is important for wildlife management.
郊狼是一种生活在北美洲的中型野生犬科动物, 学名是 Canis latrans,意思是“会叫的狗”。
它们与:
郊狼通常:
体型介于狐狸和狼之间。
郊狼适应能力极强,可生活在:
如今分布范围比历史上更广。
郊狼是杂食动物,食物包括:
食性灵活,使它们能在多种生态系统中生存。
郊狼是重要的中级捕食者:
在一些地区,它们成为顶级捕食者。
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rangeland




Rangeland refers to large natural or semi-natural open lands that are not cultivated (not farmed) but are used mainly for grazing livestock and supporting wildlife.
Rangelands include areas dominated by:
They are managed, but not plowed or planted like cropland.
Rangeland can include:
These areas usually receive limited rainfall, making crop farming difficult.
Rangelands are commonly used for:
They support food production without intensive agriculture.
| Rangeland | Farmland | | ------------------ | ------------------------------------ | | Natural vegetation | Crops planted by humans | | Not plowed | Regularly tilled | | Grazing-based use | Crop-based use | | Lower inputs | High inputs (fertilizer, irrigation) |
Rangelands:
Overgrazing can damage rangelands, so careful management is essential.
Examples of rangelands include:
They make up a large portion of Earth’s land surface.
Rangeland 指的是天然或半天然的开阔土地, 不用于种植农作物,主要用于放牧牲畜和维持野生动物生境。
牧场地可以包括:
这些地区通常降雨少,不适合耕作。
| 牧场地 | 农田 | | ---- | ---- | | 天然植被 | 人工种植 | | 不翻耕 | 定期翻耕 | | 放牧为主 | 种植作物 | | 投入较低 | 高投入 |
牧场地:
❌ 牧场地 = 荒地 ✅ 牧场地 = 重要生态系统
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knapweed




Knapweed is the common name for a group of flowering plants (mainly in the genus Centaurea) that are native to Europe but have become invasive weeds in many other parts of the world, including Canada and the United States.
The most well-known invasive types include:
Knapweed plants usually have:
They often grow in dense patches.
Knapweed is considered invasive because it:
Once established, it is very hard to remove.
Knapweed spreads mainly by seeds:
This allows knapweed to spread rapidly.
Knapweed:
In places like British Columbia, knapweed control is a major environmental issue.
Managing knapweed often requires multiple methods:
Early detection is critical.
Knapweed 指一类开花植物,原产于欧洲, 但在加拿大和美国等地成为入侵性杂草。
常见的入侵种包括:
矢车菊类杂草通常具有:
常成片生长。
Knapweed 之所以危险,是因为它:
常见方法包括:
Knapweed = 外来入侵杂草 + 抢占生态位
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expends
Expends is the third-person singular form of the verb expend. It means to use up, spend, or consume something, especially effort, energy, time, money, or resources.
expend = use (something) for a purpose
You usually expend things that are limited:
Common pattern:
expend + object expends energy / expends resources
In biology and ecology, expends often describes energy use:
This is especially common in topics like:
expends 是动词 expend 的第三人称单数形式,意思是:
👉 消耗、花费、用掉(能量、时间、精力、资源等)
通常用于有限资源:
在科学语境中,expends 常指能量消耗:
expend = 把有限的东西用掉
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herons


Herons are large wading birds that live near water and feed mainly on fish and other aquatic animals. They belong to a bird family that also includes egrets and bitterns.
They are especially known for their:
Herons are well adapted to shallow water environments:
When flying, herons pull their necks back (unlike cranes, which stretch them forward).
Herons are sit-and-wait predators:
They eat:
Herons live near:
They are found on every continent except Antarctica.
Despite nesting together, herons usually hunt alone.
Herons occupy the ecological niche of:
Top or mid-level predators in wetland ecosystems
They help:
| Bird | Key Difference | | ---------- | -------------------------------- | | Herons | Neck folded back in flight | | Cranes | Neck stretched forward in flight | | Storks | Larger body, heavier bill | | Egrets | Usually white; a type of heron |
苍鹭是一类生活在水域附近的大型涉禽, 主要以鱼类和水生动物为食。
它们与白鹭、麻鳽属于同一类鸟。
苍鹭的身体非常适合水边生活:
飞行时,苍鹭会把脖子缩回,这是重要识别特征。
苍鹭是伏击型捕食者:
食物包括:
苍鹭常见于:
除南极洲外,全球都有分布。
苍鹭的生态位是:
湿地生态系统中的捕食者
作用包括:
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Niches





In ecology, a niche is the role a species plays in its ecosystem.
It describes how a species lives, not just where it lives.
A niche includes:
👉 A common summary:
Habitat = address Niche = job
A species’ niche usually includes:
Examples:
Examples:
Examples:
Examples:
| Type | Meaning | | --------------------- | --------------------------------------------------------------- | | Fundamental niche | The full range of conditions a species could live in | | Realized niche | The part it actually uses due to competition, predators, etc. |
👉 Competition usually shrinks a niche.
Two species cannot occupy the exact same niche in the same place for long.
This is the competitive exclusion principle:
Example:
Species may divide:
This allows biodiversity to exist.
Understanding niches helps explain:
生态位指的是一个物种在生态系统中的“角色”或“功能”。
它描述的是:
这个物种如何生存、如何与环境和其他生物互动
简单记忆:
例子:
例子:
例子:
例子:
| 类型 | 含义 | | --------- | ------------ | | 基本生态位 | 理论上可以利用的全部条件 | | 实现生态位 | 实际被限制后的生态位 |
竞争排斥原理:
物种通过分化来共存:
生态位解释了:
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vireos



Vireos are small songbirds belonging to the bird family Vireonidae. They are known for their:
Vireos are common in North and Central America, especially in woodlands and forests.
Vireos typically have:
They are not flashy, but well camouflaged among leaves.
Vireos are mainly:
They forage slowly and carefully, inspecting leaves and branches—unlike warblers, which move quickly.
Vireos build:
Nests are made of:
These nests are strong but unfortunately easy targets for brood parasites.
Vireos are frequent hosts of brood parasitism, especially by cowbirds.
What happens:
This is a parasitic relationship (+ / −):
Vireos are important because they:
Vireos 是一类小型鸣禽,属于 Vireonidae 科。
它们的特点是:
绿鹃鵙通常:
绿鹃鵙筑的是:
巢材包括:
绿鹃鵙常遭遇巢寄生,尤其是牛鹂(cowbirds)。
过程是:
这是典型的 寄生关系(+ / −)。
绿鹃鵙:
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Cowbirds




Cowbirds are a group of songbirds best known for their unusual reproductive strategy called brood parasitism.
Instead of building their own nests and raising their own young, cowbirds:
The most well-known species is the brown-headed cowbird (Molothrus ater).
Historically, cowbirds:
Because they moved constantly with herds, it was impractical to build nests, which likely led to the evolution of brood parasitism.
This is a form of parasitism (+ / −):
Cowbird chicks:
Some host species lose most or all of their offspring when parasitized.
Cowbirds can:
Because of this, cowbirds are sometimes managed or controlled in conservation areas.
Cowbirds may parasitize 200+ species.
牛鹂是一类鸣禽, 最著名的特点是它们采用巢寄生(育雏寄生)的繁殖方式。
牛鹂:
最常见的是 褐头牛鹂。
牛鹂过去常常:
长期迁徙使筑巢变得困难, 于是演化出了巢寄生行为。
这是典型的 寄生关系(+ / −)。
牛鹂:
因此在某些自然保护区会被人为管理。
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brood




Brood refers to a group of young animals that are:
It can also be used as a verb, meaning to hatch or raise young.
A brood is the offspring produced in one reproductive event.
This term is often used for:
To brood means:
Example:
| Term | Meaning | | ------------- | ------------------------------- | | Brood | Young from one hatching/birth | | Offspring | General term for children/young | | Litter | Mammal young born together | | Clutch | Group of eggs laid together |
In many species, parents:
This increases survival chances.
Some animals do not raise their own young.
Instead, they:
Classic example:
The parasite’s brood benefits, while the host’s brood may suffer.
The concept of a brood helps scientists:
Brood 指的是:
可以指:
表示“一窝孩子”:
表示:
例如:
| 词汇 | 含义 | | ------------- | -------- | | brood | 同一次繁殖的幼体 | | offspring | 后代(泛指) | | litter | 哺乳动物一胎 | | clutch | 一窝蛋 |
许多动物会:
某些动物:
如:布谷鸟。
“brood”这个概念用于:
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filaments
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Filaments are very thin, thread-like structures. The word is used in many scientific fields, but the shared meaning is always:
long, slender, hair-like strands
In flowering plants, a filament is part of the stamen (the male reproductive structure).
👉 Function: position pollen so it can reach pollinators.
In fungi:
These filaments:
Some algae grow as:
Example: filamentous green algae in ponds.
| Term | Meaning | | ------------ | --------------------------------------- | | Filament | very thin, thread-like structure | | Strand | a single thread or line (often visible) | | Fiber | a structural thread, often stronger |
👉 A filament is usually finer than a strand or fiber.
Because they are thin and long, filaments:
That’s why evolution uses filaments repeatedly in plants, fungi, and animals.
Filaments 指的是细长、像线一样的结构。
核心含义:
又细又长,像头发或丝线
在开花植物中:
在真菌中:
菌丝负责:
吸收养分
某些藻类:
| 词 | 含义 | | ------------ | -------- | | filament | 极细的丝状结构 | | strand | 一根线或一条 | | fiber | 偏结构性、较结实 |
丝状结构可以:
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strands


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Strands are long, thin, thread-like pieces that are separate but often part of a whole.
A strand is usually:
Here, strands means individual thin parts.
In biology, strands often describe thin, string-like biological structures:
Example:
The parasite spreads through thin strands inside the host.
Strand can also mean a line or thread of ideas:
Meaning: one connected part of a larger whole.
When used with plants, strands may refer to:
Example:
The plant attaches to the host using thin strands.
This is common in descriptions of:
Example:
Strands 指的是: 细长、像线一样的一条一条的结构, 通常是整体中的一部分。
在生物学中,strands 常用来描述:
例句:
寄生植物通过细丝状结构扩散。
也可表示“线索、脉络”:
在植物描述中,strands 往往指:
strand = 像头发一样细长的一条
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vine




A vine is a plant with long, flexible stems that cannot support itself upright. Instead of standing alone like a tree, a vine climbs, trails, or sprawls by using other structures for support.
Those supports can be:
Vines climb using different strategies:
Twining stems – the stem wraps around a support Example: morning glory
Tendrils – thin, curling structures that grab supports Example: grape vines
Adventitious roots – small roots that stick to surfaces Example: ivy
Hooks or spines – latch onto other plants Example: roses (climbing types)
Each method helps the vine reach sunlight without investing energy in a thick trunk.
| Feature | Vine | Tree | Shrub | | ----------------- | -------------- | ------------------ | --------------------- | | Stem | Long, flexible | Thick, woody trunk | Woody, multiple stems | | Self-supporting | ❌ No | ✅ Yes | ✅ Yes | | Uses other plants | ✅ Yes | ❌ No | ❌ No |
Vines are an energy-efficient strategy:
This makes vines very common in tropical rainforests, but they also grow in temperate regions.
Vines:
Some vines are harmless climbers; others can overwhelm host plants.
So:
All parasitic hosts here are vines, but not all vines are parasitic.
藤本植物是指: 茎细长、柔软,不能独立直立生长的植物。
它们必须:
借助其他物体才能向上生长。
藤蔓常见的攀爬方式包括:
| 特点 | 藤蔓 | 乔木 | 灌木 | | ---- | -- | -- | -- | | 是否直立 | 否 | 是 | 是 | | 茎 | 柔软 | 粗壮 | 较粗 | | 是否攀附 | 是 | 否 | 否 |
藤蔓:
因此在热带雨林中极其常见。
藤蔓:
藤蔓靠“借力向上”,不是吸养分生存
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tetrastigma




Tetrastigma is a genus of tropical climbing vines in the grape family (Vitaceae). They grow mainly in Southeast Asian rainforests and are adapted to warm, humid environments.
Tetrastigma plants are especially famous because they are the only known host plants for Rafflesia arnoldii.
Tetrastigma vines typically have:
They often grow along forest floors and climb up into the canopy to reach sunlight.
On their own, Tetrastigma plants:
They help:
Tetrastigma has a very unusual role in biology:
Rafflesia:
👉 This relationship is parasitism (+ / −):
Without Tetrastigma:
This makes Tetrastigma a keystone host species in rainforest ecosystems.
Tetrastigma is not parasitic:
It is the host, not the parasite.
Tetrastigma 是一种热带攀援藤本植物属, 属于葡萄科(Vitaceae),主要分布在东南亚雨林。
它最著名的原因是: 👉 它是大王花(Rafflesia arnoldii)唯一的寄主植物。
Tetrastigma 通常具有:
Tetrastigma 本身:
大王花:
这是典型的 寄生关系(+ / −):
没有 Tetrastigma:
❌ Tetrastigma 是寄生植物 ✅ Tetrastigma 是被寄生的宿主植物
Tetrastigma = 宿主藤本 Rafflesia = 完全寄生花
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Rafflesia arnoldii.



Rafflesia arnoldii is a rare parasitic flowering plant famous for producing the largest single flower in the world.
The flower emits an odor similar to decaying flesh, which is why it’s called the “corpse flower”.
This smell attracts its pollinators:
These insects normally lay eggs on dead animals, so the plant tricks them into visiting.
Unlike most plants, Rafflesia arnoldii has:
It lives entirely inside another plant, a vine in the genus Tetrastigma, and only becomes visible when the flower emerges.
Rafflesia arnoldii is a parasite:
This is parasitism (+ / −), not mutualism or commensalism.
This makes successful reproduction very rare.
Rafflesia arnoldii:
Rafflesia arnoldii is endangered due to:
Protecting it requires protecting entire rainforest ecosystems.
大王花是一种极其罕见的寄生开花植物, 以拥有世界上最大的单朵花而闻名。
大王花散发出类似腐烂肉类的气味, 这是为了吸引它的传粉者:
这些昆虫被“欺骗”,误以为这里有尸体。
大王花:
它完全寄生在藤本植物体内, 只有开花时才露出地表。
Rafflesia arnoldii 是寄生植物:
这是典型的 寄生关系(+ / −)。
大王花:
大王花濒临灭绝,原因包括:
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lodgepole




Lodgepole usually refers to the lodgepole pine, a type of coniferous tree common in western North America.
When people say “lodgepole forest” or “lodgepole”, they almost always mean lodgepole pine trees, not a building or pole.
The name comes from Indigenous peoples of North America, who used the straight, tall trunks of this pine to build:
The wood is naturally long, straight, and uniform, making it ideal for construction.
Lodgepole pine typically has:
It often forms forests where many trees are the same age.
Lodgepole pine is famous for its relationship with wildfire.
Many lodgepole pines have serotinous cones:
This means:
👉 This is an example of adaptation to disturbance.
Lodgepole pine is found in:
It thrives in:
Lodgepole pine forests:
They are often a pioneer or early-succession species.
在生态和地理中,lodgepole 通常指 扭叶松(lodgepole pine), 是一种生长在北美西部的针叶树。
日常说“lodgepole 森林”,就是指扭叶松林。
“lodgepole” 源自北美原住民的用途:
扭叶松通常具有:
扭叶松与森林火灾高度相关:
这是对火灾环境的适应性进化。
扭叶松广泛分布于:
适应:
扭叶松:
lodgepole pine = 直、耐火、火后再生
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intestine



The intestine is a long, tube-like organ in the digestive system. Its main jobs are to:
It connects the stomach to the anus.
The intestine has two major sections:
It absorbs:
Special structures called villi and microvilli greatly increase surface area.
Main functions:
Absorb water
Water removal here turns liquid waste into solid feces.
Some parasites live in the intestine because it provides:
For example:
| Feature | Stomach | Intestine | | ----------------- | --------------- | ------------------------ | | Main role | Start digestion | Absorb nutrients & water | | Shape | Sac-like | Long tube | | Acid | Very acidic | Less acidic | | Parasites common? | Rare | Common |
肠道是消化系统中一条又长又弯的管状器官, 主要功能是:
它连接胃和肛门。
小肠内壁有绒毛和微绒毛,大大增加吸收面积。
主要作用:
吸收水分
肠道适合寄生虫生存,因为:
例如:
| 项目 | 胃 | 肠道 | | ---- | ---- | ------ | | 主要功能 | 初步消化 | 吸收营养和水 | | 形态 | 囊状 | 管状 | | 酸性 | 很强 | 较弱 | | 寄生虫 | 少 | 多 |
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feces




Feces (also called stool, poop, or excrement) are solid or semi-solid waste that leave the body through the digestive system.
They are what remains after food has been digested and nutrients have been absorbed.
Feces typically contain:
So feces are not just “waste food” — they are also biological material.
Feces are important because they:
Doctors and scientists often study feces to detect:
In many parasite life cycles, feces are a transmission stage.
For example:
This is why sanitation and hygiene are critical for disease prevention.
In nature, feces:
So while unpleasant to humans, feces are ecologically important.
粪便是指食物经过消化吸收后, 人体或动物排出的固体或半固体废物。
也常被称为:
粪便通常包含:
粪便可以反映:
因此医学检查中常有粪便检测。
在许多寄生虫的生命周期中:
这就是为什么卫生条件差容易传播寄生虫病。
在自然界中,粪便:
feces = 消化后的排泄物,也是疾病传播的重要媒介
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feces




Feces (also called stool, poop, or excrement) are solid or semi-solid waste that leave the body through the digestive system.
They are what remains after food has been digested and nutrients have been absorbed.
Feces typically contain:
So feces are not just “waste food” — they are also biological material.
Feces are important because they:
Doctors and scientists often study feces to detect:
In many parasite life cycles, feces are a transmission stage.
For example:
This is why sanitation and hygiene are critical for disease prevention.
In nature, feces:
So while unpleasant to humans, feces are ecologically important.
粪便是指食物经过消化吸收后, 人体或动物排出的固体或半固体废物。
也常被称为:
粪便通常包含:
粪便可以反映:
因此医学检查中常有粪便检测。
在许多寄生虫的生命周期中:
这就是为什么卫生条件差容易传播寄生虫病。
在自然界中,粪便:
feces = 消化后的排泄物,也是疾病传播的重要媒介
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Ancylostoma caninum




Ancylostoma caninum is a species of hookworm that primarily parasitizes dogs. It is a parasitic roundworm (nematode) that lives in the small intestine of its host.
This is a classic example of parasitism (+ / −):
The name comes from its hook-shaped mouthparts.
This blood-feeding behavior is what makes it dangerous.
In humans, it usually does not mature, but can still cause disease.
Infective larvae enter a new host by:
penetrating the skin, or
In dogs, Ancylostoma caninum can cause:
Puppies are especially vulnerable.
When larvae penetrate human skin, they cause:
Cutaneous larva migrans
itchy, red, winding tracks under the skin
The worms cannot complete their life cycle in humans, but symptoms can still be severe and uncomfortable.
犬钩虫是一种寄生线虫, 主要寄生在狗的小肠中。
这是典型的 寄生关系(+ / −):
犬钩虫的口器:
它通过吸血维生。
在人类体内,幼虫通常不能发育成成虫。
幼虫通过:
皮肤钻入,或
犬钩虫可导致:
在人类身上会引起:
虽然不能在人体内成熟,但症状明显。
犬钩虫:
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hookworm




A hookworm is a parasitic roundworm (nematode) that lives in the small intestine of humans or animals. It gets its name from the hook-shaped mouthparts it uses to attach to the intestinal wall.
Hookworms are a classic example of parasitism:
The most important human hookworms are:
They are common in warm, moist regions, especially where sanitation is poor.
This skin entry stage can cause an itchy rash called “ground itch.”
Inside the intestine, hookworms:
Possible effects include:
Like many parasites, hookworms:
This allows the parasite to live longer and spread more effectively.
Prevention focuses on:
Hookworms are important because they:
钩虫是一种寄生线虫, 生活在人或动物的小肠中。
它们用钩状口器附着在肠壁上吸血,因此得名。
这是典型的 寄生关系:
人类最常见的钩虫包括:
多见于温暖潮湿地区。
钩虫:
可能造成:
钩虫需要宿主长期存活, 因此通常造成慢性损害,而不是立即致命。
钩虫:
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nectar




Nectar is a sweet liquid produced by many flowering plants. Its main purpose is to attract pollinators such as bees, butterflies, moths, birds, and bats.
Nectar is not food for the plant—it is a reward offered to animals.
Nectar is mostly:
It may also contain:
Nectar is produced in special structures called nectaries.
Nectaries can be located:
This is a classic mutualistic relationship (+ / +):
Different plants produce nectar adapted to different pollinators:
Nectar placement and composition help plants select the right pollinator.
| Nectar | Pollen | | ---------------------- | ----------------------- | | Liquid | Powder | | Energy source | Protein source | | Reward for pollinators | Male reproductive cells |
Pollinators often collect both, but for different reasons.
花蜜是许多开花植物产生的一种甜液体, 主要作用是吸引传粉者。
花蜜不是给植物自己吃的, 而是给动物的“奖励”。
花蜜主要由:
还可能含有:
花蜜由蜜腺(nectaries)分泌,位置可能在:
传粉过程:
这是典型的 互利共生(+ / +)。
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acacia




Acacia refers to a group of trees and shrubs (the genus Acacia) commonly found in Africa, Australia, and other warm regions.
Acacias are especially famous for:
Most acacia plants have:
These features help acacias survive in hot, dry climates.
Acacias often grow in places with large herbivores (e.g., giraffes, antelope).
Defenses include:
This is an example of plant–herbivore co-evolution.
Some acacia species have a mutualistic relationship with ants:
Acacia provides:
Hollow thorns for ant housing
Nectar and protein-rich food bodies
Ants provide:
Protection from herbivores
This is mutualism (+ / +):
Acacias:
They are often keystone species in dry ecosystems.
Humans use acacia for:
金合欢是一类树或灌木植物, 广泛分布在非洲、澳大利亚和热带、亚热带地区。
它们以:
金合欢通常具有:
金合欢常生长在有大型食草动物的环境中:
这是协同进化的结果。
某些金合欢与蚂蚁形成互利关系:
金合欢提供:
中空刺作为住所
花外蜜腺和食物
蚂蚁提供:
防御食草动物
这是典型的 互利共生(+ / +)。
金合欢:
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bullhorn




A bullhorn is a handheld loudspeaker, also called a megaphone, used to amplify a person’s voice so it can be heard clearly over long distances or by large crowds.
Despite the name, it has nothing to do with bulls 🐂. The word comes from its horn-like shape and powerful sound.
Older megaphones were purely acoustic; modern bullhorns are battery-powered.
Bullhorns are used when clarity and reach matter:
A typical bullhorn may include:
Some can project sound hundreds of meters.
Technically:
Megaphone = general term
In practice, people use the words interchangeably.
Bullhorn can also be used metaphorically:
Meaning: a tool that amplifies a message to many people.
Bullhorn 是一种手持式扩音器, 用于把人的声音放大,让远处或人群中的人能清楚听见。
虽然叫 bullhorn(牛角), 但只是因为形状像角、声音大,和牛无关。
“bullhorn” 也可作比喻:
意思是:放大声音、扩大影响力的工具。
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thorns




Thorns are sharp, rigid, pointed structures on plants that serve mainly as defense against animals that might eat them.
They can pierce skin and discourage grazing or browsing.
In botany, true thorns are:
Because they are modified stems, thorns:
These terms are often confused:
| Structure | What it is | Example | | ----------- | --------------------------------- | -------- | | Thorn | Modified stem/branch | Hawthorn | | Spine | Modified leaf or leaf part | Cactus | | Prickle | Outgrowth of epidermis (skin) | Rose |
👉 Roses technically have prickles, not true thorns, though people commonly say “rose thorns.”
Thorns help plants by:
In some plants, thorns may also:
Plants with thorns often live where:
Over time, plants with better defenses were more likely to survive and reproduce, leading to thorny species.
刺是植物上的坚硬、尖锐结构, 主要作用是防止动物啃食。
在植物学里,真正的刺(thorns)是:
因此:
| 名称 | 本质 | 例子 | | --------------- | ------- | --- | | 刺(thorn) | 茎或枝的变形 | 山楂 | | 针(spine) | 叶或叶的一部分 | 仙人掌 | | 皮刺(prickle) | 表皮突起 | 玫瑰 |
👉 日常说的“玫瑰刺”,其实是皮刺。
刺可以:
在放牧压力大的环境中:
刺防吃,针防旱,皮刺容易掰
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seedlings




Seedlings are very young plants that have just grown from seeds. They appear after germination and before the plant becomes fully mature.
In short:
Seed → germination → seedling → mature plant
A typical seedling has:
Cotyledons
Come from the seed
Often look different from adult leaves
True leaves
Grow after cotyledons
Seedlings are delicate and need:
Because they are small, seedlings are more vulnerable than adult plants.
Seedlings represent:
Many plants die at the seedling stage due to:
In ecosystems, seedling success determines:
That’s why factors like shade, soil quality, and moisture matter greatly.
幼苗是指刚从种子萌发出来的植物幼体, 处于植物生命的最早阶段。
顺序是:
种子 → 发芽 → 幼苗 → 成熟植物
幼苗通常包括:
子叶
来自种子内部
外形通常简单
真叶
发芽后才长出
幼苗对环境要求高:
幼苗阶段最脆弱。
幼苗决定:
幼苗的成活率影响:
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bumblebees




Bumblebees are large, fuzzy bees belonging to the genus Bombus. They are important pollinators, especially in cool or cloudy climates where other bees are less active.
Bumblebees are easy to recognize because they:
The hairs help them collect and hold pollen.
Bumblebees are famous for buzz pollination (sonication):
This method is essential for plants like:
Many plants cannot be pollinated without bumblebees.
Bumblebees are strong and heavy, so many flowers are adapted to them:
This is a clear example of mutualism (+ / +):
Bumblebees are social insects, but their colonies are:
They usually nest:
Generally, no.
Bumblebees:
Many species are declining due to habitat loss and climate change.
熊蜂是一种体型较大、毛茸茸的蜜蜂,属于 Bombus 属。 它们是非常重要的传粉者,尤其适合在低温、阴天环境中工作。
熊蜂通常具有:
体毛有助于粘附花粉。
熊蜂能进行振动传粉:
番茄、蓝莓等植物高度依赖熊蜂。
许多花专门适合熊蜂:
这是典型的 互利共生(+ / +)。
熊蜂是社会性昆虫,但群体较小:
通常不具攻击性:
熊蜂:
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Snapdragon




A snapdragon is a flowering plant in the genus Antirrhinum. It is best known for its dragon-shaped flowers that appear to “open and close” when gently squeezed.
The name snapdragon comes from this snapping, mouth-like motion.
Snapdragons typically have:
The flower is normally closed and only opens under pressure.
Snapdragons are adapted for bee pollination, especially by bumblebees.
How it works:
Small insects cannot open the flower, so they do not steal nectar.
This design:
It is a good example of plant–pollinator specialization and mutualism (+ / +):
Snapdragons are commonly found:
They prefer:
Snapdragon:
Closed flower
Spur flowers (e.g., columbine):
Nectar hidden in long tubes
Both are adaptations to control pollinators, but in different ways.
金鱼草是一种开花植物,学名 Antirrhinum。 因花朵形状像龙嘴,被挤压时会“张嘴、合嘴”,因此得名 snapdragon。
金鱼草具有:
花在自然状态下是关闭的。
金鱼草主要依靠大型蜜蜂(如熊蜂)传粉。
过程:
小昆虫打不开花,无法偷蜜。
这种设计可以:
这是典型的 互利共生(+ / +):
金鱼草常见于:
两者都是植物对传粉者的适应性进化。
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spurs



In botany, spurs are long, narrow, tube-like extensions of a flower that usually contain nectar.
They are most often found on:
Their main function is to store nectar deep inside the flower.
Spurs help plants control which animals can pollinate them.
Because nectar is hidden deep inside the spur:
This increases pollination efficiency and reduces wasted pollen.
Spurs are a classic example of plant–pollinator co-evolution.
This is especially common in moth-pollinated flowers.
In these plants, spur length often matches the pollinator’s tongue length.
Think of a spur as:
a nectar straw built into the flower
The nectar is not at the surface—it’s hidden at the tip of the spur.
The word spur can also mean:
⚠️ In biology, spur means a flower structure, not any of the above.
在植物学中,花距是指: 花朵上细长的管状延伸结构, 通常用来储存花蜜。
它可能来自:
花距的作用是筛选传粉者:
只有口器较长的动物才能吸到
蛾
这样可以:
花距是协同进化的经典例子:
在蛾类传粉植物中尤为常见。
花距 = 花朵自带的“吸管”
❌ 花距 = 花刺 ❌ 花距 = 动物的刺
✅ 花距 = 储存花蜜的细长结构
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Moth-pollinated




Moth-pollinated describes flowers that are pollinated mainly by moths rather than by bees, butterflies, birds, or wind.
This type of pollination usually happens at night and is a form of biotic pollination (done by animals).
Flowers adapted for moth pollination often share these traits:
These traits are called pollination syndromes.
Hawk moths can hover like hummingbirds and have extremely long proboscises.
Many of these flowers open or release scent only at night.
Moth pollination:
Is a classic example of mutualism:
moth gets nectar
蛾类传粉的 指的是: 主要依靠蛾(而不是蜜蜂或蝴蝶)来完成传粉的花。
这种传粉通常发生在夜间,属于生物传粉。
常见特征包括:
这些特征是植物对蛾类传粉的适应性进化。
蛾类传粉:
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pollinators





Pollinators are animals (or sometimes natural forces) that transfer pollen from the male parts of a plant (anthers) to the female parts (stigma), allowing fertilization to occur.
Without pollinators, many plants cannot produce seeds or fruits.
When animals do the job → biotic pollination When wind or water does it → abiotic pollination
Pollinators are crucial because they:
About ¾ of flowering plants depend at least partly on animal pollinators.
Many pollinators have mutualistic relationships with plants:
This is mutualism (+ / +).
Some plants are highly specialized, relying on one pollinator species, leading to co-evolution.
Pollinators are declining due to:
Their decline threatens ecosystems and food security.
传粉者是指把花粉从雄蕊传到雌蕊、 从而使植物能够完成受精并结果的生物或自然力量。
没有传粉者,许多植物无法繁殖。
传粉者:
多数传粉属于互利共生:
这是典型的 互利关系(+ / +)。
传粉者减少会直接影响生态系统与粮食安全。
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wasps




Wasps are insects that belong to the order Hymenoptera, the same group as bees and ants. They are known for their slender bodies, narrow waists, and, in many species, a stinger.
Unlike bees, most wasps are not fuzzy and look smooth and shiny.
Most wasps share these traits:
Wasps have diverse diets, depending on the species:
Because of this, wasps play an important role in controlling insect populations.
Wasps are more aggressive when:
Wasps are important because they:
Despite their reputation, wasps are ecologically beneficial.
| Feature | Wasps | Bees | | -------- | ------------------------ | ------------------------- | | Body | Smooth, slender | Fuzzy, rounder | | Diet | Insects, meat, sugar | Mostly nectar & pollen | | Stinger | Can sting multiple times | Usually sting once | | Behavior | Often aggressive | Generally less aggressive |
黄蜂 是一种昆虫,属于膜翅目, 和蜜蜂、蚂蚁是近亲。
与蜜蜂不同,黄蜂:
黄蜂通常具有:
不同种类的黄蜂食性不同:
因此,黄蜂对控制害虫数量很重要。
社会性黄蜂
独居黄蜂
黄蜂:
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anchored



Anchored means firmly fixed in place so that something does not move or drift.
It comes from the noun anchor (a heavy object used to hold a ship in place).
Something is anchored when it is securely attached to prevent movement.
In science, anchored often means attached to a surface for stability.
Here, anchoring prevents organisms from being:
Anchored can also mean mentally or emotionally fixed.
Anchored 指的是: 被牢牢固定在某处,不会随意移动。
词源来自 anchor(锚)。
船用锚固定: 船停泊在港湾中。
物体被固定住: 帐篷被牢牢固定在地面上。
在生物学中,anchored 常指: 生物体附着在某个基底上以保持稳定。
anchored = 像船下了锚一样,不再乱动
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orchids




Orchids are a large and diverse group of flowering plants belonging to the family Orchidaceae. They are famous for their beautiful, often complex flowers and their highly specialized ways of surviving and reproducing.
Orchids are found on every continent except Antarctica.
Most orchids share these features:
Many orchids are epiphytes, meaning they:
This is a form of commensalism:
Not all orchids are epiphytes—some grow in soil—but epiphytic orchids are the most famous.
Orchids grow in:
They are especially abundant in humid, warm environments.
Orchids have some of the most specialized pollination systems in nature:
This leads to:
Orchids:
Humans value orchids for:
兰花是一大类开花植物,属于兰科(Orchidaceae)。 它们以形态奇特、结构精巧的花朵而闻名。
兰花分布在除南极洲以外的所有大陆。
大多数兰花具有:
许多兰花是附生植物:
这属于共栖关系(+ / 0)。
兰花可以生长在:
其中,湿润环境最适合兰花生长。
兰花的传粉方式极其特殊:
这是协同进化的经典例子。
兰花:
兰花在人类文化中象征:
也是研究进化、生物适应性的重要对象。
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epiphyte




An epiphyte is a plant that grows on another plant (usually a tree) for physical support only, not for nutrients.
This relationship is a classic example of commensalism (+ / 0).
Epiphytes are often confused with parasites, but they are not parasitic:
Well-known epiphytes include:
They are especially common in tropical rainforests, where light is strongest in the canopy.
Epiphytes have special adaptations:
Living high above the ground allows epiphytes to:
The tree benefits neither positively nor negatively.
Epiphytes:
附生植物是指生长在其他植物上、 只借助支撑、不吸取养分的植物。
这是典型的 共栖关系(+ / 0)。
常见误区:
热带雨林中尤其常见。
附生植物的适应方式包括:
附生能让植物:
宿主树木通常不受影响。
附生植物:
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Barnacles




Barnacles are small marine animals that live attached permanently to hard surfaces such as:
Although they look like shells, barnacles are animals, not plants—and not mollusks.
Barnacles belong to the group crustaceans, which also includes:
So biologically, barnacles are more closely related to crabs than to clams.
A typical barnacle has:
The shell protects the barnacle from:
Barnacles are filter feeders.
They eat by:
They rely on water movement (waves, tides, swimming animals).
Barnacles are found:
They are common in coastal oceans worldwide.
When barnacles live on whales:
This relationship is a classic example of commensalism (+ / 0).
Barnacles are important because they:
藤壶 是一种生活在海洋中的小型动物, 会永久附着在坚硬表面上,比如:
外形像贝壳,但:
藤壶是动物,不是植物,也不是贝类。
藤壶属于甲壳类动物, 和螃蟹、龙虾、虾是近亲。
藤壶具有:
硬壳可以:
藤壶是滤食动物:
藤壶常见于:
几乎分布于全球沿海海域。
藤壶附着在鲸鱼身上时:
这是典型的 共栖(commensalism) 关系(+ / 0)。
藤壶:
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candy-striped




Candy-striped describes a pattern of alternating, brightly colored stripes, most commonly red and white, like those on a candy cane.
It is an adjective used to describe how something looks, not what it is made of.
A candy-striped pattern usually has:
The key idea is that the pattern looks sweet-like, decorative, and eye-catching.
A) Everyday objects
B) Nature & science
In biology, it’s a descriptive term only, used to help identify appearance.
Scientists often use familiar objects to describe patterns:
This helps readers visualize organisms quickly without photos.
Candy-striped 指一种像糖果一样的条纹图案, 最常见的是红白相间,类似拐杖糖的花纹。
它是一个形容词,用于描述外观图案。
糖果条纹通常具有:
重点不是颜色本身,而是像糖果一样的条纹感觉。
① 日常生活
② 生物描述
在生物学中,这是外形描述词,不是分类名。
这种词能:
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anemone




In biology, an anemone usually refers to a sea anemone — a marine invertebrate animal that lives attached to rocks, coral, or the sea floor.
Although it looks like a flower, a sea anemone is not a plant. It is an animal, closely related to jellyfish and corals.
Sea anemones have:
The tentacles are used to:
They are predators, despite their stationary lifestyle.
Sea anemones are found:
They do not swim freely like jellyfish.
Sea anemones are famous for mutualism with certain animals.
Classic example: clownfish & sea anemone
The anemone benefits from:
nutrients from fish waste
This is a mutualistic symbiotic relationship (+ / +).
Sea anemones:
在生物学中,anemone 通常指 海葵, 是一种生活在海洋中的无脊椎动物。
虽然外形像花,但:
海葵不是植物,而是动物。
它与水母、珊瑚是近亲。
海葵具有:
虽然不移动,但海葵是捕食者。
小丑鱼与海葵是经典例子:
这是典型的 互利共生(+ / +)。
海葵:
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crimson




Crimson is a deep, rich red color with a slight bluish or purplish tone. It is darker and stronger than bright red, but usually brighter than maroon.
Think of blood-red, ripe cherries, or dark red velvet.
Quick comparison:
The word crimson comes from:
So historically, crimson meant a luxurious, expensive red.
A) Describing color
B) Symbolic meaning Crimson often symbolizes:
C) Literature & poetry Writers use crimson instead of red to sound:
Example:
Her face turned crimson with anger.
Crimson 指一种深而浓烈的红色, 通常带一点蓝色或紫色调。
比普通红色更深,比酒红色(maroon)稍亮。
简单对比:
crimson 最初指一种由昆虫提取的红色染料, 在古代非常昂贵,因此常与高贵、华丽联系在一起。
① 描述颜色
② 象征意义
③ 文学用法 在文学中用 crimson, 比 red 更有画面感和情绪张力。
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Queen Charlotte Sound




Queen Charlotte Sound is a large body of ocean water on the Pacific coast of Canada, in the province of British Columbia.
It lies:
It is part of the Northeast Pacific Ocean.
Queen Charlotte Sound acts as a major marine crossroads:
Because of this position, it is known for strong winds, waves, and currents.
The sound is famous (and sometimes feared) for:
These conditions come from:
For sailors, it has historically been one of the most challenging waters on the BC coast.
Queen Charlotte Sound supports rich marine ecosystems, including:
The nutrient mixing caused by strong currents makes it biologically productive.
In school geography or science, Queen Charlotte Sound is often used to illustrate:
夏洛特女王湾 是位于加拿大不列颠哥伦比亚省西海岸的一片太平洋海域。
它的位置是:
属于东北太平洋的一部分。
夏洛特女王湾是一个重要的海洋过渡区:
因此海况复杂多变。
这里以风大浪急闻名:
原因包括:
历史上被认为是 BC 海岸最危险的航道之一。
这里的海洋生态非常丰富:
强烈的水体混合带来高生产力生态系统。
在 BC Science / Geography 中,它常用于说明:
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symbiosis




Symbiosis is a close, long-term biological relationship between two different species that live in direct contact or very close association.
Symbiosis is classified by who benefits or is harmed:
| Type | Symbol | Meaning | | ---------------- | ------- | ------------------------------------- | | Mutualism | (+ / +) | both species benefit | | Commensalism | (+ / 0) | one benefits, the other is unaffected | | Parasitism | (+ / −) | one benefits, the other is harmed |
All three are forms of symbiosis.
Bee & flower → mutualistic symbiosis Food for the bee; pollination for the plant.
Barnacles on whales → commensal symbiosis Barnacles gain transport/food flow; whale unaffected.
Tick on dog → parasitic symbiosis Tick gains blood; dog is harmed.
Lichen (fungus + algae) → obligate mutualistic symbiosis Two organisms function together as one unit.
A relationship is considered symbiosis if it is:
Quick rule for exams: If it’s long-term + close + interspecies → it’s symbiosis.
❌ Symbiosis = mutual benefit → Wrong
✅ Symbiosis = close, long-term interaction → Correct
❌ Parasitism is not symbiosis → Wrong
✅ Parasitism is a type of symbiosis → Correct
Symbiosis:
共生 指的是: 两种不同物种之间形成的长期、紧密的生物学关系。
它是一个总称概念,并不意味着一定是“双赢”。
根据“谁得益、谁受损”来分类:
| 类型 | 符号 | 含义 | | -------- | ------- | ----------- | | 互利共生 | (+ / +) | 双方受益 | | 共栖 | (+ / 0) | 一方受益,另一方无影响 | | 寄生 | (+ / −) | 一方受益,另一方受害 |
这三种都属于共生关系。
通常需要满足:
口诀:
先判断是不是共生 → 再判断是哪一类共生
❌ 共生 = 和谐、互帮互助 ✅ 共生 = 长期紧密关系
❌ 寄生不算共生 ✅ 寄生是共生的一种
共生关系:
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Symbiotic




Symbiotic describes a close, long-term biological relationship between two different species that live in direct contact or close association.
So when we say two organisms are symbiotic, we mean they are involved in some kind of symbiosis.
“Symbiotic” does not mean “friendly” by default. It includes three main types, classified by who benefits or is harmed:
| Type | Effect | Meaning | | ---------------- | ------- | ------------------------------------- | | Mutualism | (+ / +) | both species benefit | | Commensalism | (+ / 0) | one benefits, the other is unaffected | | Parasitism | (+ / −) | one benefits, the other is harmed |
All three are symbiotic relationships.
Bee & flower → mutualistic symbiosis Both benefit: food ↔ pollination
Barnacles on whales → commensal symbiosis Barnacles benefit; whale unaffected
Tick on dog → parasitic symbiosis Tick benefits; dog is harmed
Lichen (fungus + algae) → obligate mutualistic symbiosis They function as a single unit
A relationship is considered symbiotic if it is:
Quick rule:
If two species live closely together for a long time → it’s symbiotic, then classify it as mutualism, commensalism, or parasitism.
❌ Symbiotic = beneficial → wrong ✅ Symbiotic = close, long-term interaction → correct
❌ Parasitism is not symbiosis → wrong ✅ Parasitism is a type of symbiosis → correct
Symbiotic relationships:
Symbiotic 指的是: 两种不同物种之间形成的、长期而紧密的关系。
“共生”并不等于“互相帮助”,它是一个总称,包括三种主要形式:
| 类型 | 关系 | 含义 | | -------- | ------- | ----------- | | 互利共生 | (+ / +) | 双方都受益 | | 共栖 | (+ / 0) | 一方受益,另一方无影响 | | 寄生 | (+ / −) | 一方受益,另一方受害 |
这三种都属于共生关系。
一个关系若满足以下条件,通常称为共生:
口诀:
先判断是不是共生 → 再判断是哪一类共生
❌ 共生 = 双赢 ✅ 共生 = 长期紧密关系
❌ 寄生不属于共生 ✅ 寄生是共生的一种
共生关系:
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parasitism




Parasitism is a type of ecological relationship between two different species in which:
It is commonly written as (+ / −).
Parasitism is one major form of symbiosis (close, long-term interactions between species), but unlike mutualism, the benefits are one-sided.
A parasite typically:
A) Ectoparasitism
B) Endoparasitism
C) Parasitic plants
D) Brood parasitism
All follow the same rule: parasite benefits; host pays the cost.
| Relationship | Effect | | ---------------- | ------------------------------------ | | Mutualism | (+ / +) both benefit | | Commensalism | (+ / 0) one benefits, one unaffected | | Parasitism | (+ / −) one benefits, one harmed | | Amensalism | (0 / −) one unaffected, one harmed |
Parasitism:
寄生(parasitism) 是指两种不同物种之间的一种关系:
通常表示为 (+ / −)。
它属于共生关系的一种,但本质上是不对等的。
寄生生物通常:
① 外寄生
② 内寄生
③ 寄生植物
④ 巢寄生(育雏寄生)
共同点:寄生者得利,宿主付出代价。
寄生关系:
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mutualism



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Mutualism is a type of ecological relationship between two different species in which:
Mutualism is one major form of symbiosis (close, long-term interactions between species).
The word mutualism comes from mutual, meaning shared or reciprocal. In biology, it means each partner gives and receives benefits.
Each species typically provides something the other needs:
The key idea: neither species could do as well alone (in many cases).
Bees and flowering plants
Bee gains nectar/pollen (food)
Plant gains pollination → reproduction → (+ / +)
Clownfish and sea anemones
Clownfish gets protection from predators
Anemone gets cleaning, nutrients, and defense → (+ / +)
Lichens (fungus + algae/cyanobacteria)
Algae provides photosynthetic sugars
Fungus provides structure, moisture, protection → Neither can survive well alone in harsh environments
Mycorrhizae (fungi + plant roots)
Fungus increases water & mineral absorption
| Relationship | Effect | | ---------------- | ------------------------------------ | | Mutualism | (+ / +) both benefit | | Commensalism | (+ / 0) one benefits, one unaffected | | Parasitism | (+ / −) one benefits, one harmed | | Amensalism | (0 / −) one unaffected, one harmed |
Mutualism:
Without mutualism, many ecosystems would collapse.
互利共生(mutualism) 是指两种不同物种之间的一种关系:
它是共生(symbiosis)中最“对等”的一种关系。
mutual 意为“相互的、彼此的”。 互利共生的核心就是:你帮我,我也帮你。
双方通常交换不同类型的资源或服务:
重点:双方都因为对方而活得更好。
蜜蜂与开花植物 蜜蜂得花蜜;植物完成授粉 → 双赢
小丑鱼与海葵 小丑鱼得保护;海葵得清洁与营养
地衣(真菌 + 藻类) 藻类光合作用供能;真菌提供结构与保护
菌根(真菌 + 植物根) 真菌增强吸水吸矿;植物提供糖类
① 专性互利共生
② 兼性互利共生
互利共生:
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commensalism
Below is a thorough, bilingual explanation of commensalism, now including appropriate visual examples to make the idea concrete and easy to remember.




Commensalism is a type of ecological relationship between two different species in which:
It is commonly summarized as (+ / 0).
Commensalism is one subtype of symbiosis.
The word comes from Latin:
Literally, it means “sharing a table” — one organism gets to “eat” or benefit, while the other experiences no real change.
The benefiting species may gain:
Importantly, the host species is not measurably affected.
Barnacles on whales Barnacles gain transportation and food-rich water flow; whales are unaffected.
Remora fish with sharks Remoras hitch rides and eat leftovers; sharks are largely unaffected.
Epiphytes (orchids) on trees Orchids gain sunlight and support; trees are not harmed because nutrients are not taken.
Cattle egrets with grazing mammals Grazers disturb insects; birds eat them; grazers are unaffected.
| Relationship | Effect | | ---------------- | ------------------------------------ | | Mutualism | (+ / +) both benefit | | Commensalism | (+ / 0) one benefits, one unaffected | | Parasitism | (+ / −) one benefits, one harmed | | Amensalism | (0 / −) one unaffected, one harmed |
Commensalism shows that:
It helps explain species distribution, adaptation, and community stability.
共栖(commensalism) 是指两种不同物种之间的一种关系:
通常用 (+ / 0) 表示。
它是共生(symbiosis)的一种类型。
词源来自拉丁语:
意思是 “搭桌吃饭” —— 一方得好处,另一方没有变化。
受益的一方可能得到:
而“宿主”一方不受影响。
鲸鱼身上的藤壶 藤壶获益,鲸鱼无明显影响。
鮣鱼跟随鲨鱼 搭便车、吃残渣;鲨鱼不受影响。
附生植物(兰花)长在树上 兰花得光照;树只是“被借用”。
牛背鹭跟随牛羊 鸟获食物;牛羊无损失。
共栖说明:
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invertebrates





Invertebrates are animals that do not have a backbone (spine). The word comes from:
In simple terms: invertebrates = animals without backbones
Invertebrates make up over 95% of all animal species on Earth. Most animals you see every day—like insects and worms—are invertebrates.
| Group | Examples | Key features | | --------------- | -------------------------- | --------------------------- | | Insects | ants, beetles, butterflies | 6 legs, often wings | | Arachnids | spiders, scorpions | 8 legs, no antennae | | Crustaceans | crabs, shrimp | hard shells, mostly aquatic | | Mollusks | snails, clams, octopus | soft bodies | | Annelids | earthworms, leeches | segmented bodies | | Echinoderms | starfish, sea urchins | spiny skin, marine | | Cnidarians | jellyfish, corals | stinging cells |
Because they lack bones, many invertebrates have other ways to stay protected:
Invertebrates live in every environment on Earth:
Invertebrates play essential roles in ecosystems:
| Feature | Invertebrates | Vertebrates | | -------- | ---------------- | -------------------- | | Backbone | ❌ No | ✅ Yes | | Skeleton | External or none | Internal | | Examples | insects, worms | fish, birds, mammals |
If you see “invertebrates” by itself, it usually refers to:
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invertebrates 指 无脊椎动物,也就是 没有脊椎骨(脊柱) 的动物。
简单说: invertebrates = 没有脊椎的动物
无脊椎动物占 地球动物种类的 95% 以上,是动物界中 数量最多、种类最丰富 的一大类。
| 类群 | 例子 | 特点 | | ---- | ----- | ---- | | 昆虫 | 蚂蚁、蝴蝶 | 六条腿 | | 蛛形类 | 蜘蛛、蝎子 | 八条腿 | | 甲壳类 | 螃蟹、虾 | 硬壳 | | 软体动物 | 蜗牛、章鱼 | 身体柔软 | | 环节动物 | 蚯蚓 | 身体分节 | | 棘皮动物 | 海星 | 海洋生物 | | 刺胞动物 | 水母 | 有刺细胞 |
由于没有骨骼,无脊椎动物常通过:
无脊椎动物生活在:
| 项目 | 无脊椎动物 | 脊椎动物 | | -- | ----- | ---- | | 脊柱 | 没有 | 有 | | 骨骼 | 外骨骼或无 | 内骨骼 | | 数量 | 极多 | 较少 |
如果只看到 invertebrates,通常表示:
If you want, paste the full sentence, food-web diagram, or test question (e.g., aquatic ecosystems, decomposition, or classification), and I’ll explain exactly how “invertebrates” is being tested in that context(中英对照、直击考点).
gulping




Gulping is the -ing form of the verb “to gulp.” It means swallowing quickly and in large amounts, often noisily or urgently.
In simple terms: gulping = swallowing fast, usually because of need or urgency
“He was gulping water after the run.”
This often suggests thirst, nervousness, or lack of time.
“The fish was gulping air at the surface.”
This usually indicates:
In ecological or biology texts, gulping often refers to:
👉 In exams, gulping = sign of environmental stress.
| Word | Meaning | | ----------- | ------------------------------------ | | gulping | Swallowing quickly, urgently | | sipping | Drinking slowly | | chewing | Breaking down food | | breathing | Gas exchange (gulping may assist it) |
“Gulping” can also be figurative:
“She gulped before speaking.”
This suggests nervousness or emotional tension.
If you see “gulping” by itself, it usually implies:




gulping 是动词 gulp(大口吞咽) 的现在分词形式,意思是 快速、大口地吞咽,通常带有 急迫感。
简单说: gulping = 大口、快速地吞
“他跑完步后在 大口喝水。”
常暗示:
“鱼在水面 吞气(gulping)。”
这通常说明:
在生物或环境科学中,gulping 常是:
👉 考试中看到 fish + gulping air,通常要想到 缺氧。
| 英文 | 中文 | | ----------- | ----------------- | | gulping | 大口吞咽 | | sipping | 小口喝 | | chewing | 咀嚼 | | breathing | 呼吸(gulping 是补充方式) |
“gulping” 也可表示情绪:
“她紧张地咽了一口气。”
如果只看到 gulping,通常表示:
If you want, paste the full sentence or exam question (e.g., fish behavior, oxygen levels, or water quality), and I’ll explain exactly what “gulping” indicates in that context(中英对照、直击考点).
salamander




A salamander is a type of amphibian—a cold-blooded vertebrate that typically lives partly in water and partly on land. Salamanders usually look like small lizards, but they are not reptiles.
In simple terms: salamander = a smooth-skinned amphibian that lives in moist places
Salamanders usually live in cool, damp environments, such as:
They avoid dry conditions because their skin loses water easily.
Most salamanders have a two-stage life cycle:
This process is called metamorphosis, similar to frogs but usually less dramatic.
👉 This makes them very sensitive to pollution and habitat change.
| Feature | Salamander | Lizard (reptile) | | --------- | ---------------- | ---------------- | | Skin | Smooth, moist | Dry, scaly | | Eggs | Soft, jelly-like | Leathery shells | | Breathing | Lungs/skin | Lungs only | | Habitat | Moist | Often dry |
Salamanders:
If you see “salamander” by itself, it usually means:




salamander 指 蝾螈,是一类 两栖动物,一生通常在 水域和陆地之间 活动。
简单说: salamander = 生活在潮湿环境中的两栖动物
👉 因此对 水质和环境变化非常敏感。
| 项目 | 蝾螈 | 蜥蜴 | | -- | ---- | ---- | | 皮肤 | 光滑湿润 | 干燥有鳞 | | 卵 | 胶质卵 | 有壳卵 | | 呼吸 | 肺/皮肤 | 仅肺 |
如果只看到 salamander,通常表示:
If you want, paste the full sentence, diagram, or test question (e.g., amphibians vs reptiles, indicator species, or life cycles), and I’ll explain exactly how “salamander” is being used in that context(中英对照、直击考点).
sculpin

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A sculpin is a small, bottom-dwelling fish found in cold freshwater streams and coastal marine waters, especially in the Northern Hemisphere. It belongs to a group of fishes known for their broad, flattened heads and excellent camouflage.
In simple terms: sculpin = a small fish that lives on the bottom and blends in with rocks
Sculpins live:
They prefer clean, well-oxygenated water, so their presence often indicates good water quality.
Sculpins:
If you see “sculpin” by itself, it usually refers to:


sculpin 指 杜父鱼,是一类 生活在水底的小型鱼类,常见于 寒冷、清澈的溪流 或 近海岩石区。
简单说: sculpin = 生活在水底、善于伪装的小鱼
它们通常出现在 水质良好、含氧量高 的地方。
如果只看到 sculpin,通常表示:
If you want, you can paste the full sentence, food-web diagram, or test question (e.g., stream ecosystems, indicator species, or predator–prey relationships), and I’ll explain exactly why sculpin is mentioned and what concept it illustrates(中英对照、直击考点).
landforms




Landforms are natural physical features of the Earth’s surface. They describe the shape and structure of the land, formed by geological processes over time.
In simple terms: landforms = the natural shapes of the land
Landforms exist at many sizes, from huge continents to small features:
Landforms are shaped by a combination of internal and external processes:
Internal (from inside Earth)
External (on the surface)
Key idea: Landforms are always changing, but usually very slowly.
Landforms influence:
If you see “landforms” by itself, it usually functions as:




landforms 指 地貌,也就是 地球表面自然形成的各种地形形态。
简单说: landforms = 地貌 / 地形
地貌种类很多,尺度也不同:
内力作用
外力作用
👉 地貌是 长期作用的结果。
地貌影响:
如果只看到 landforms,通常表示:
If you want, paste the full sentence, map, or test question (e.g., erosion vs deposition, Canadian landforms, or plate tectonics), and I’ll explain exactly how “landforms” is used in that context(中英对照、直击考点).
spruce




Spruce is a noun referring to a type of evergreen conifer tree. Spruce trees keep their needles year-round and produce cones instead of flowers.
In simple terms: spruce = a cone-bearing evergreen tree with sharp needles
Spruce trees are common in cold and cool climates, especially:
They tolerate cold winters and poor soils, making them dominant in northern forests.
Ecological roles
Human uses
| Tree | Key difference | | ---------- | --------------------------------- | | Spruce | Sharp needles; cones hang down | | Fir | Soft needles; cones stand upright | | Pine | Needles in bundles (2–5 together) |
If you see “spruce” by itself, it usually means:




spruce 指 云杉,是一种 常绿针叶树,通过 球果 而不是花来繁殖。
简单说: spruce = 云杉,一种常绿针叶树
生态作用
人类用途
| 树种 | 区别 | | -------------- | --------- | | 云杉(spruce) | 针叶尖、球果下垂 | | 冷杉(fir) | 针叶柔软、球果直立 | | 松树(pine) | 针叶成束 |
如果只看到 spruce,通常表示:
If you want, paste the full sentence, map, or exam question (e.g., boreal forests, conifers, or climate adaptation), and I’ll explain exactly why spruce is mentioned and what concept it illustrates(中英对照、直击考点).
boreal




Boreal is an adjective meaning related to the north or northern regions. In science and geography, it most commonly refers to cold, northern climates and ecosystems, especially the boreal forest.
In simple terms: boreal = northern and cold
In ecology, boreal usually describes the boreal forest (also called the taiga), a vast forest belt found across the Northern Hemisphere.
Key features:
Example:
“Canada has one of the world’s largest boreal forests.”
| Term | Meaning | | ---------- | ----------------------------------- | | boreal | Northern, cold-region ecosystems | | temperate | Moderate climate (not extreme cold) | | arctic | Extremely cold, treeless regions | | tundra | Cold, treeless land with permafrost |
👉 Boreal forests have trees; tundra does not.
Plants and animals in boreal regions are adapted to cold:
If you see “boreal” by itself, it usually:




boreal 是一个 形容词,意思是 北方的、寒带的,常用来描述 高纬度、寒冷地区。
简单说: boreal = 北方寒冷地区的
在生态学中,boreal 通常指 北方针叶林(泰加林)。
主要特点:
例句:
加拿大拥有广阔的 北方针叶林(boreal forest)。
| 英文 | 中文 | | ---------- | ------ | | boreal | 北方寒带 | | temperate | 温带 | | arctic | 极地 | | tundra | 苔原(无林) |
👉 北方针叶林 ≠ 苔原(苔原没有树)。
如果只看到 boreal,通常是:
If you want, paste the full sentence, map, or exam question (e.g., Canadian biomes or climate zones), and I’ll explain exactly how “boreal” is being used and what concept it tests(中英对照、直击考点).
piles




Piles is the plural noun of pile. It means heaps or stacks of things placed one on top of another. It can also be the plural of the verb to pile, meaning to gather or stack things together.
In simple terms: piles = heaps or stacks of things
As a noun, piles refers to groups of objects collected in one place.
Examples:
In science or geography texts, it often describes accumulated material.
As a verb:
Examples:
In engineering, piles can also mean long posts driven into the ground to support buildings (this is a technical meaning).
| Word | Meaning | | --------- | -------------------------- | | piles | loose heaps or stacks | | stacks | neat, orderly piles | | heaps | large, messy piles | | mounds | rounded piles (often soil) |
If you see “piles” by itself, it usually means:


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piles 是 pile(堆) 的复数形式,意思是 一堆一堆的东西,由许多物体 聚集、堆放在一起。
简单说: piles = 堆、成堆的东西
表示 堆积起来的物体或材料。
例子:
在地理或科学中,常指 自然堆积物。
pile 作动词表示 堆积、堆放:
| 英文 | 中文 | 区别 | | ------ | ---- | ---- | | piles | 堆 | 通用 | | stacks | 整齐堆叠 | 强调整齐 | | heaps | 大堆 | 强调多 | | mounds | 土堆 | 强调形状 |
如果只看到 piles,通常表示:
If you want, paste the full sentence or diagram (for example about sedimentation, erosion, or construction), and I’ll explain exactly what “piles” means in that specific context(中英对照、直击考点).
sedimentation




Sedimentation is a process in which solid particles (called sediment) settle out of a fluid (water or air) and accumulate at the bottom or on surfaces due to gravity.
In simple terms: sedimentation = particles sinking and settling
Sediment can include:
These particles are often carried by water or wind before settling.
Key idea: Slower movement → more sedimentation
| Term | Meaning | | ----------------- | ----------------------------------------- | | sedimentation | particles settling | | erosion | particles being worn away | | deposition | general term for material being laid down | | weathering | breaking down of rocks (no movement) |
👉 Sedimentation is a type of deposition.
If you see “sedimentation” by itself, it usually refers to:




sedimentation 指 沉积作用 / 沉淀作用,是指 悬浮在水或空气中的固体颗粒 因 重力作用 而 下沉并堆积 的过程。
简单说: sedimentation = 颗粒沉下来并堆积
沉积物包括:
👉 流速越慢,越容易沉积
地理与地质
生态系统
工程与生活
| 英文 | 中文 | | ------------- | ------ | | sedimentation | 沉积作用 | | erosion | 侵蚀 | | deposition | 堆积(广义) | | weathering | 风化 |
👉 沉积作用属于堆积的一种。
如果只看到 sedimentation,通常表示:
If you want, paste the full sentence, diagram, or exam question (e.g., erosion vs sedimentation, river systems, or water treatment), and I’ll explain exactly how sedimentation is being tested in that context(中英对照、直击考点).
staghorn




Staghorn is a descriptive adjective (and sometimes part of a noun) meaning shaped like the antlers (horns) of a stag (male deer)—that is, branching, forked, and spreading.
In simple terms: staghorn = shaped like deer antlers
The branching, antler-like form often provides advantages:
If it appears alone (just “staghorn”), it usually:

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staghorn 指 形状像雄鹿鹿角的,特点是 分叉、多枝、向外展开。
简单说: staghorn = 鹿角状的
鹿角状(分枝)结构可以:
如果单独出现 “staghorn”,通常是:
If you want, you can paste the full sentence, diagram, or plant list where staghorn appears (e.g., rainforest epiphytes or coral forms), and I’ll explain exactly what it refers to in that context(中英对照、直击考点).
spores




Spores are tiny reproductive units produced by certain organisms—such as fungi, ferns, mosses, algae, and some bacteria—that can grow into a new organism without fertilization.
In simple terms: spores = microscopic “seeds” that spread and grow into new life
| Feature | Spores | Seeds | | ------------- | -------------------- | ---------------- | | Size | Microscopic | Visible | | Fertilization | Not required | Required | | Food reserve | None or minimal | Stored food | | Producers | Fungi, ferns, mosses | Flowering plants |
👉 Spores are simpler than seeds but far more numerous.
Spores are commonly:
Examples:
Spores allow organisms to:
Fungal spores, for example, are essential to breaking down dead organic matter.
If you see “spores” by itself, it usually functions as:




spores 指 孢子,是某些生物(如 真菌、蕨类、苔藓、藻类 等)产生的 微小繁殖单位,不需要受精 就能发育成新个体。
简单说: spores = 微小的“繁殖颗粒”
| 项目 | 孢子 | 种子 | | ---- | ------ | ---- | | 大小 | 微小 | 较大 | | 是否受精 | 不需要 | 需要 | | 营养储备 | 几乎没有 | 有 | | 来源 | 真菌、蕨类等 | 开花植物 |
例子:
孢子让生物能够:
如果只看到 spores,通常表示:
If you want, paste the full sentence, life-cycle diagram, or exam question (e.g., ferns vs flowering plants, dispersal methods), and I’ll explain exactly how “spores” is used in that context(中英对照、直击考点).
windborne




Windborne (also written wind-borne) is an adjective meaning carried or transported by the wind.
In simple terms: windborne = moved through the air by wind
So windborne literally means “carried by wind.”
In ecology and biology, windborne often describes dispersal:
In earth science or health contexts, it can describe:
Example sentence:
“Many plants rely on windborne seeds for dispersal.”
Being windborne allows organisms or materials to:
This is a form of passive transport (no active movement by the organism).
| Word | Meaning | | ------------- | ------------------------ | | windborne | carried by wind | | airborne | carried in air (general) | | waterborne | carried by water | | animal-borne | carried by animals |
👉 Windborne specifically emphasizes wind as the transport force.
If you see “windborne” by itself, it usually:




windborne(也可写作 wind-borne)是一个 形容词,意思是 被风携带的 / 由风传播的。
简单说: windborne = 随风传播的
合起来就是:被风带着走的
在 生态和生物学 中,windborne 常指:
在 地理或环境科学 中:
例句:
许多植物依靠 随风传播的种子 扩散。
风传播可以:
这是一种 被动传播方式。
| 英文 | 中文 | 说明 | | ------------- | ---- | ----- | | windborne | 随风传播 | 强调“风” | | airborne | 空气传播 | 更广义 | | waterborne | 水传播 | 水作为媒介 | | animal-borne | 动物携带 | 动物传播 |
如果只看到 windborne,通常是:
If you want, paste the full sentence, diagram, or exam question (e.g., seed dispersal, pollination, or climate effects), and I’ll explain exactly how “windborne” functions in that context(中英对照、直击考点).
hitchhikers



Hitchhikers is the plural noun of hitchhiker. At its core, it means someone or something that travels by getting a free ride with others instead of moving on its own.
In simple terms: hitchhikers = travelers that ride along with others
In everyday language, hitchhikers are:
Example:
“The hitchhikers were trying to get to the next town.”
In science, hitchhikers often refers to organisms or seeds that spread by attaching themselves to animals or humans.
Examples:
Example:
“Burrs act as hitchhikers by sticking to animal fur.”
Biological hitchhiking is a form of passive dispersal:
| Term | Meaning | | ---------------- | ------------------------------------ | | hitchhikers | Travel by riding on others | | parasites | Live on/in hosts and harm them | | mutualists | Both organisms benefit | | dispersal agents | Anything that helps organisms spread |
👉 Hitchhikers are not necessarily harmful.
If you see “hitchhikers” by itself, it usually functions as:




hitchhikers 是 hitchhiker(搭便车者) 的复数形式。 指 不靠自己移动,而是“搭别人的顺风车”进行移动的人或生物。
简单说: hitchhikers = 搭便车的人或生物
例句:
那些搭便车的人想去下一个城市。
在科学中,hitchhikers 常指:
例子:
带钩的种子通过“搭便车”的方式传播。
生物“搭便车”是一种 被动扩散方式:
| 概念 | 区别 | | ----------- | ---------- | | hitchhikers | 搭载传播,不一定有害 | | 寄生 | 对宿主有害 | | 共生 | 双方受益 | | 传播媒介 | 帮助扩散的方式 |
如果只看到 hitchhikers,通常表示:
If you want, paste the 完整句子或课文段落(比如关于 种子传播、入侵物种或生态系统),我可以帮你 精确解释 hitchhikers 在该语境中的含义和考点(中英对照)。
microbial



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Microbial is an adjective that describes anything related to microbes (microorganisms)—organisms that are too small to be seen with the naked eye.
In simple terms: microbial = having to do with very tiny living organisms
Microbes include several major groups:
⚠️ Note: Viruses are often discussed with microbes, but they are not considered living organisms in the strict biological sense.
Because it’s an adjective, microbial modifies a noun:
Example sentence:
“Microbial activity plays a key role in nutrient cycling.”
Microbial processes are essential to life on Earth:
| Word | Meaning | | ------------- | -------------------------------------- | | microbial | related to microbes | | microscopic | extremely small (size only) | | bacterial | related only to bacteria | | pathogenic | disease-causing (not all microbes are) |
👉 microbial ≠ harmful — most microbes are beneficial or neutral.




microbial 是一个 形容词,表示 与微生物有关的。
简单说: microbial = 微生物的 / 与微生物有关的
微生物是 肉眼看不见的生物,包括:
⚠️ 病毒通常与微生物一起讨论,但 严格来说不属于生物。
作为形容词,microbial 常用于修饰名词:
例句:
“Microbial decomposition returns nutrients to the soil.” 微生物分解把养分重新送回土壤。
微生物对生态系统至关重要:
| 英文 | 中文 | 说明 | | ------------- | ---- | ----- | | microbial | 微生物的 | 范围最广 | | microscopic | 微小的 | 强调大小 | | bacterial | 细菌的 | 仅指细菌 | | pathogenic | 致病的 | 强调危害性 |
👉 不是所有微生物都会致病。
If you want, paste the 完整句子或课文段落(例如关于 分解者、碳循环或生态系统 的内容),我可以帮你 精确解释 microbial 在该语境中的作用和考点(中英对照)。
arid




Arid is an adjective that describes a place or climate that is extremely dry, with very little rainfall.
In simple terms: arid = very dry
A region is considered arid when:
Typical causes include:
| Term | Meaning | | --------- | ------------------------------------- | | arid | Extremely dry (deserts) | | semi-arid | Moderately dry (grasslands, steppes) | | humid | Moist, high rainfall | | tropical | Warm with frequent rain (often humid) |
Because water is scarce, organisms show special adaptations:
Plants
Animals
If you see “arid” by itself, it usually functions as:
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arid 是一个 形容词,表示 极度干旱的、降水非常少的。
简单说: arid = 非常干燥、干旱
一个地区被称为 arid(干旱),通常具备:
形成原因包括:
| 英文 | 中文 | | --------- | ------ | | arid | 干旱 | | semi-arid | 半干旱 | | humid | 潮湿 | | tropical | 热带(多雨) |
植物:
动物:
如果只看到 arid,通常表示:
If you want, paste the full sentence, map, or exam question (e.g., desert ecosystems, climate zones, or adaptations), and I’ll explain exactly how “arid” functions in that context(中英对照、直击考点).
seals




Seals is the plural noun of seal. Seals are marine mammals that live mainly in cold and temperate oceans and are adapted for life both in water and on land/ice.
In simple terms: seals = ocean mammals with flippers that swim well and rest on land or ice
| Feature | Seals (true seals) | Sea lions | | ---------------- | --------------------- | ------------------ | | External ears | No ear flaps | Yes ear flaps | | Rear flippers | Cannot rotate forward | Can rotate forward | | Movement on land | Awkward | More agile | | Swimming | Rear flippers | Front flippers |
Seals are important in marine food webs:
If you see “seals” by itself, it usually functions as:



seals 是 seal(海豹) 的复数形式。 海豹是 海洋哺乳动物,适应在 水中游泳,也会在 陆地或冰面 上休息。
简单说: seals = 会游泳、靠鳍肢活动的海洋哺乳动物
| 特点 | 海豹 | 海狮 | | ---- | ----- | ---- | | 外耳 | 无 | 有 | | 后鳍 | 不能向前翻 | 能向前翻 | | 陆地移动 | 笨拙 | 灵活 |
如果只看到 seals,通常表示:
If you want, paste the full sentence, diagram, or exam question (e.g., marine food webs or polar adaptations), and I’ll explain exactly why “seals” is mentioned and what concept it illustrates(中英对照、直击考点).
walruses




Walruses is the plural noun of walrus. Walruses are large marine mammals that live in Arctic and sub-Arctic regions, easily recognized by their long tusks, thick wrinkled skin, and whiskered snouts.
In simple terms: walruses = huge Arctic sea mammals with tusks
Walruses:
If you see “walruses” by itself, it usually functions as:
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walruses 是 walrus(海象) 的复数形式。 海象是一种生活在 北极及其附近海域 的 大型海洋哺乳动物,以 长獠牙和胡须 闻名。
简单说: walruses = 有长牙的北极大型海洋哺乳动物
如果只看到 walruses,通常表示:
If you want, paste the full sentence, diagram, or exam question (e.g., Arctic ecosystems, climate change, or marine adaptations), and I’ll explain exactly why walruses are mentioned and what concept they illustrate(中英对照、直击考点).
Antarctica

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Antarctica is the southernmost continent on Earth, centered on the South Pole. It is almost entirely covered by a thick ice sheet and is the coldest, driest, and windiest continent.
In simple terms: Antarctica = a frozen continent at the bottom of the world
Governed by the Antarctic Treaty System, which:
Reserves the continent for peaceful scientific research
If you see “Antarctica” by itself, it usually functions as:
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Antarctica 中文称 南极洲,是地球 最南端的大陆,以 南极点 为中心,几乎完全被 厚厚的冰层 覆盖。
简单说: 南极洲 = 地球最寒冷、最干燥的冰冻大陆
受 《南极条约体系》 管理:
仅限 和平用途与科学研究
如果只看到 Antarctica,通常表示:
If you want, paste the full sentence, map, or exam question (e.g., climate zones, polar adaptations, or global warming), and I’ll explain exactly why Antarctica is mentioned and what concept it tests(中英对照、直击考点).
scales



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Scales are small, flat, overlapping plates that cover the skin of certain animals—most commonly reptiles and fish. They form a protective outer layer.
In simple terms: scales = hard or tough skin plates that protect animals
Protection
Shield the body from predators, abrasion, and injury
Water control
Reptile scales reduce water loss in dry environments
Movement efficiency
Fish scales reduce drag in water
Snake belly scales help with gripping surfaces
Camouflage & signaling
Scale color and patterns help animals blend in or communicate
| Covering | Found on | Material | | ---------- | -------------- | --------------- | | Scales | Fish, reptiles | Keratin or bone | | Fur | Mammals | Hair | | Feathers | Birds | Keratin | | Skin | Amphibians | Moist skin |
Outside biology, scales can also mean:
But in science/ecology, it almost always means animal skin coverings.
If you see “scales” by itself, it usually functions as:




scales 指 覆盖在某些动物皮肤表面的鳞片,常见于 爬行动物和鱼类。
简单说: scales = 动物身上的鳞片
| 覆盖物 | 动物 | 特点 | | ------ | ------ | ----- | | 鳞片 | 鱼、爬行动物 | 坚硬 | | 毛发 | 哺乳动物 | 保温 | | 羽毛 | 鸟类 | 飞行、保温 | | 皮肤 | 两栖动物 | 湿润 |
在非生物语境中,scales 还可以指:
但在 科学课本 中,几乎一定指 鳞片。
如果只看到 scales,通常表示:
If you want, paste the full sentence, diagram, or test question (e.g., reptiles vs amphibians or desert adaptations), and I’ll explain exactly why “scales” is mentioned in that context(中英对照、直击考点).
sagebrush




Sagebrush is a woody shrub that grows mainly in dry regions of western North America. It is best known for its gray-green leaves, strong smell, and ability to survive with very little water.
In simple terms: sagebrush = a dry-land shrub common in North American deserts and grasslands
Sagebrush grows in:
This landscape is often called the sagebrush steppe.
Sagebrush survives harsh conditions through:
These are classic plant adaptations to drought.
Sagebrush is a keystone plant in its ecosystem:
The word sagebrush may refer to:
If it appears alone, it’s usually a vocabulary term or label.



sagebrush 指 蒿类灌木,是一种生长在 北美西部干旱或半干旱地区 的植物。
简单说: sagebrush = 北美干旱地区常见的蒿类灌木
蒿灌木的生存策略包括:
如果只看到 sagebrush,通常表示:
If you want, you can paste the full sentence, diagram, or exam question (e.g., about prairie vs desert ecosystems or plant adaptations), and I’ll explain exactly why sagebrush is mentioned and what concept it tests(中英对照、直击考点).
spines




Spines are sharp, stiff, pointed structures found on some plants (and animals). In plant biology, spines are modified leaves that have changed shape to become hard and pointed.
In simple terms: spines = sharp points on plants used for protection and survival
It’s important not to confuse similar terms:
| Term | What it is | | ---------- | --------------------------------------------------- | | Spines | Modified leaves (e.g., cactus spines) | | Thorns | Modified stems (e.g., roses) | | Prickles | Outgrowths of skin/epidermis (e.g., blackberry) |
👉 In cacti, the sharp points are spines, not thorns.
Spines help plants survive, especially in dry or harsh environments:
Defense against herbivores
Sharp spines discourage animals from eating the plant.
Reduce water loss
Spines replace broad leaves, reducing surface area and evaporation.
Temperature control
Dense spines can create shade and lower surface temperature.
Moisture collection
In fog or dew, spines can help collect water droplets.
If you see “spines” by itself, it usually functions as:




spines 指 植物或动物身上的尖刺状结构。 在植物学中,spines 是由叶子演变而来的结构。
简单说: spines = 植物的刺
| 英文 | 中文 | 来源 | | ---------- | -- | ----- | | spines | 刺 | 由叶子演变 | | thorns | 刺 | 由茎演变 | | prickles | 刺 | 表皮突起 |
👉 仙人掌的刺 = spines
刺是对恶劣环境的适应:
如果只看到 spines,通常表示:
If you want, paste the full sentence, diagram, or test question (e.g., about desert adaptations or plant defenses), and I’ll explain exactly how “spines” functions in that context(中英对照,直击考点).
Spiny cacti




Spiny cacti refers to cactus plants that are covered with spines (sharp, needle-like structures).
In simple terms: spiny cacti = desert plants with sharp spines instead of leaves
Spines help cacti survive in hot, dry environments:
Reduce water loss
Spines have far less surface area than leaves → less evaporation.
Protection from animals
Sharp spines discourage grazing by animals looking for water-rich plants.
Shade and cooling
Dense spines can cast small shadows, lowering surface temperature.
Collect moisture
In foggy or dewy conditions, spines can help trap water droplets that drip toward the plant.
Spines usually appear together with:
Together, these features make cacti highly drought-adapted plants.
If you see “spiny cacti” by itself, it usually functions as:
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spiny cacti 指 长满尖刺的仙人掌。
简单说: spiny cacti = 多刺的仙人掌
刺是对 干旱环境 的重要适应:
如果只看到 spiny cacti,通常表示:
If you want, paste the full sentence, diagram, or exam question (for example about desert adaptations or water conservation), and I’ll explain exactly why spiny cacti are mentioned and what concept they illustrate(中英对照、直击考点).
She can speak four foreign languages.
The candidate should be able to speak fluent English.
They can do it today.
He can run 100 meters in 10 seconds.
He can't see you now.
We might not be able to do that.
She can make it to the wedding.
She isn't able to do it today.
I'm afraid we are not able to fulfill your request.
Exercise 2.1 Complete these sentences about present ability using the words in the box. You will use some words more than once.
can be able not able able to can't be able to
She ___ speak four foreign languages.
The candidate should __ to speak fluent English.
They ___ do it today.
He's _____ run 100 meters in 10 seconds.
He ___ see you now.
We might not _____ to do that.
She ____make it to the wedding.
She isn't ____ to do it today.
I'm afraid we are _____ to fulfill your request.
réponse : 1.can/ 2.be able/ 3.can't/ 4.able to/ 5.can't/ 6.be able/ 7.can't/ 8.able to/ 9.nit able/
Silicon Valley’s views on AI made more sense to me after I learned the term “decisive strategic advantage.” It was first used by Nick Bostrom’s 2014 book Superintelligence, which defined it as a technology sufficient to achieve “complete world domination.” How might anyone gain a DSA? A superintelligence might develop cyber advantages that cripple the adversary’s command-and-control capabilities. Or the superintelligence could self-recursively improve such that the lab or state that controls it gains an insurmountable scientific advantage. Once an AI reaches a certain capability threshold, it might need only weeks or hours to evolve into a superintelligence. 3 And if an American lab builds it, it might help to lock in the dominance of another American century.
decisive strategic advantage comes from [[Superintelligence by Nick Bostrom]] 2014 (bought it 2017). AGI race portrayed here as a race to such an advantage for the USA.
Kritisches Referieren ist zugleich eigene Gedankenarbeit,ist zugleich ein Lernprozess, ist zugleich ein Schlei-fen der eigenen Sprache.
critical referencing is 3 things at the same time: own thinking work, a learning process, and a way to hone your own language.