水稻在干湿田间环境中全基因组基因表达可塑性的选择。

IF 4.5 1区 生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Molecular Ecology Pub Date : 2024-08-30 DOI:10.1111/mec.17522
Elena Hamann, Simon C Groen, Taryn S Dunivant, Irina Ćalić, Colleen Cochran, Rachel Konshok, Michael D Purugganan, Steven J Franks
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引用次数: 0

摘要

基因表达在应对环境变化时具有高度可塑性。然而,我们对表达可塑性是如何通过自然选择形成并在野生和驯化物种中进化的知之甚少。我们利用基因型选择分析方法,对在田间试验中不同环境条件下生长的 118 个水稻品种(基因型)的 7,500 多个叶片转录本的干旱诱导可塑性进行了表征。对于大多数逐渐可塑的转录本而言,基因表达可塑性是中性的,但具有离散表达模式的转录本在表达可塑性上表现出更强的选择性。可塑性是适应性的、同梯度的,还是不适应性的、逆梯度的,在不同品种组之间存在差异。在跨环境可塑性选择的转录本中,没有转录本表现出在环境中的反可塑性选择,这表明缺乏证据表明适应性可塑性的成本可能会限制其进化。表达可塑性的选择受可塑性程度、转录本长度和基因体甲基化的影响。我们观察到共表达模块的可塑性受到了正向选择,这些模块包含的转录本涉及光合作用、翻译和对非生物胁迫的响应。总之,这些结果表明,表达可塑性的选择模式与环境有关,很可能与品种群的环境条件相关,但适应性可塑性的进化可能不会受到环境内与环境间可塑性选择模式相反的限制。这些结果为基因表达可塑性的选择模式和生态限制提供了一个全基因组的视角,并从分子水平上为干旱的可塑性反应和进化反应之间的相互作用提供了见解。
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Selection on genome-wide gene expression plasticity of rice in wet and dry field environments.

Gene expression can be highly plastic in response to environmental variation. However, we know little about how expression plasticity is shaped by natural selection and evolves in wild and domesticated species. We used genotypic selection analysis to characterize selection on drought-induced plasticity of over 7,500 leaf transcripts of 118 rice accessions (genotypes) from different environmental conditions grown in a field experiment. Gene expression plasticity was neutral for most gradually plastic transcripts, but transcripts with discrete patterns of expression showed stronger selection on expression plasticity. Whether plasticity was adaptive and co-gradient or maladaptive and counter-gradient varied among varietal groups. No transcripts that experienced selection for plasticity across environments showed selection against plasticity within environments, indicating a lack of evidence for costs of adaptive plasticity that may constrain its evolution. Selection on expression plasticity was influenced by degree of plasticity, transcript length and gene body methylation. We observed positive selection on plasticity of co-expression modules containing transcripts involved in photosynthesis, translation and responsiveness to abiotic stress. Taken together, these results indicate that patterns of selection on expression plasticity were context-dependent and likely associated with environmental conditions of varietal groups, but that the evolution of adaptive plasticity would likely not be constrained by opposing patterns of selection on plasticity within compared to across environments. These results offer a genome-wide view of patterns of selection and ecological constraints on gene expression plasticity and provide insights into the interplay between plastic and evolutionary responses to drought at the molecular level.

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来源期刊
Molecular Ecology
Molecular Ecology 生物-进化生物学
CiteScore
8.40
自引率
10.20%
发文量
472
审稿时长
1 months
期刊介绍: Molecular Ecology publishes papers that utilize molecular genetic techniques to address consequential questions in ecology, evolution, behaviour and conservation. Studies may employ neutral markers for inference about ecological and evolutionary processes or examine ecologically important genes and their products directly. We discourage papers that are primarily descriptive and are relevant only to the taxon being studied. Papers reporting on molecular marker development, molecular diagnostics, barcoding, or DNA taxonomy, or technical methods should be re-directed to our sister journal, Molecular Ecology Resources. Likewise, papers with a strongly applied focus should be submitted to Evolutionary Applications. Research areas of interest to Molecular Ecology include: * population structure and phylogeography * reproductive strategies * relatedness and kin selection * sex allocation * population genetic theory * analytical methods development * conservation genetics * speciation genetics * microbial biodiversity * evolutionary dynamics of QTLs * ecological interactions * molecular adaptation and environmental genomics * impact of genetically modified organisms
期刊最新文献
Population Genetics and Invasion History of the European Starling Across Aotearoa New Zealand. An Early-Life Disruption of Gut Microbiota Has Opposing Effects on Parasite Resistance in Two Host Species. Genetic Monitoring of a Lethal Control Programme for Wild Canids With Complex Mating Strategies. Elevational Range Impacts Connectivity and Predicted Deme Sizes From Models of Habitat Suitability. Michael C. Whitlock-Recipient of the 2024 Molecular Ecology Prize.
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