Whole-Genome Resequencing of Experimental Populations Reveals Polygenic Basis of Egg-Size Variation in Drosophila melanogaster.
Whole-Genome Resequencing of Experimental Populations Reveals Polygenic Basis of Egg-Size Variation in Drosophila melanogaster.
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实验群体的全基因组重测序揭示了果蝇卵大小变异的多基因基础。
DOI：
10.1093/molbev/msv136
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发表时间：
2015-10
影响因子：
10.7
通讯作者：
Kreitman M
中科院分区：
文献类型：
--
作者：
Jha AR;Miles CM;Lippert NR;Brown CD;White KP;Kreitman M
种群全基因组重测序在解构复杂的多基因性状以阐明适应的分子和发育机制方面具有很大的前景。卵大小是昆虫、鸟类和其他类群的经典适应性性状，但其高度多基因结构阻碍了高分辨率遗传分析。我们在果蝇中使用重复实验进化和全基因组测序来识别多基因卵大小适应的一致特征。一个广义线性混合模型显示，在大约4,000个单核苷酸多态性（SNPs）的大小卵子体积选择的重复实验种群之间的可重复等位基因频率差异。数百个不同的基因组区域包含这些SNP的簇，并且具有比基因组背景更低的杂合性，这与作用于这些区域中的多态性的选择一致。这些SNPs也在果蝇卵巢中表达的基因中富集，并且这些基因中的许多在果蝇卵子发生中具有明确的功能。其他基因调节鸡蛋的发展，生长和细胞大小显示定向选择的证据，因为基因调节这些生物过程是丰富的高度分化的SNP。与候选基因的子集进行的遗传杂交表明，这些基因影响鸡蛋的大小，至少在大的遗传背景。这些发现证实了这种适应性性状的高度多基因结构，并表明许多新的候选基因参与调节鸡蛋的大小。
Complete genome resequencing of populations holds great promise in deconstructing complex polygenic traits to elucidate molecular and developmental mechanisms of adaptation. Egg size is a classic adaptive trait in insects, birds, and other taxa, but its highly polygenic architecture has prevented high-resolution genetic analysis. We used replicated experimental evolution in Drosophila melanogaster and whole-genome sequencing to identify consistent signatures of polygenic egg-size adaptation. A generalized linear-mixed model revealed reproducible allele frequency differences between replicated experimental populations selected for large and small egg volumes at approximately 4,000 single nucleotide polymorphisms (SNPs). Several hundred distinct genomic regions contain clusters of these SNPs and have lower heterozygosity than the genomic background, consistent with selection acting on polymorphisms in these regions. These SNPs are also enriched among genes expressed in Drosophila ovaries and many of these genes have well-defined functions in Drosophila oogenesis. Additional genes regulating egg development, growth, and cell size show evidence of directional selection as genes regulating these biological processes are enriched for highly differentiated SNPs. Genetic crosses performed with a subset of candidate genes demonstrated that these genes influence egg size, at least in the large genetic background. These findings confirm the highly polygenic architecture of this adaptive trait, and suggest the involvement of many novel candidate genes in regulating egg size.
DOI：
10.1111/j.1558-5646.2010.01206.x
发表时间：
2011-05
期刊：
Evolution; international journal of organic evolution
影响因子：
--
作者：
Lott SE;Ludwig MZ;Kreitman M
通讯作者：
Kreitman M