Genomic evidence for adaptation by gene duplication.
Genomic evidence for adaptation by gene duplication.
复制标题
DOI：
10.1101/gr.172098.114
复制
发表时间：
2014-08
期刊：
影响因子：
7
通讯作者：
Zhang J
中科院分区：
文献类型：
--
作者：
Qian W;Zhang J
基因复制被广泛认为有助于适应，但这一假设的明确证据只在少数情况下被发现。虽然基因复制可以通过加倍基因剂量或新功能化来增加相关生物体的适应性，但它也可能导致祖先功能简单地分裂为子基因，而子基因不需要促进适应。因此，基因复制适应假说的普遍有效性仍然不确定。事实上，一项基因组规模的实验发现，从酵母基因组中删除成对的重复基因和删除单个单基因的适应性效应相似，从而得出结论，重复很少导致适应。在这里，我们认为，上述比较是不公平的，因为一个已知的重复偏见之间的基因具有不同的健身贡献。为了纠正这个问题，我们比较同源基因的芽殖酵母酿酒酵母和裂殖酵母粟酒裂殖酵母。我们发现，同时删除一个重复的基因对在S。酿酒酵母比在S.粟酒裂殖酵母，揭示了复制后的适应。在健身效果的重复-单细胞差异是不可归因于一个潜在的增加基因剂量重复后，这表明适应是由于neofunctionalization，我们发现这是可以解释的收购二元蛋白质-蛋白质相互作用，而不是基因表达的变化。这些结果为基因复制在生物适应中的作用提供了基因组证据，对于理解进化创新的遗传机制非常重要。
Gene duplication is widely believed to facilitate adaptation, but unambiguous evidence for this hypothesis has been found in only a small number of cases. Although gene duplication may increase the fitness of the involved organisms by doubling gene dosage or neofunctionalization, it may also result in a simple division of ancestral functions into daughter genes, which need not promote adaptation. Hence, the general validity of the adaptation by gene duplication hypothesis remains uncertain. Indeed, a genome-scale experiment found similar fitness effects of deleting pairs of duplicate genes and deleting individual singleton genes from the yeast genome, leading to the conclusion that duplication rarely results in adaptation. Here we contend that the above comparison is unfair because of a known duplication bias among genes with different fitness contributions. To rectify this problem, we compare homologous genes from the budding yeast Saccharomyces cerevisiae and the fission yeast Schizosaccharomyces pombe. We discover that simultaneously deleting a duplicate gene pair in S. cerevisiae reduces fitness significantly more than deleting their singleton counterpart in S. pombe, revealing post-duplication adaptation. The duplicates–singleton difference in fitness effect is not attributable to a potential increase in gene dose after duplication, suggesting that the adaptation is owing to neofunctionalization, which we find to be explicable by acquisitions of binary protein–protein interactions rather than gene expression changes. These results provide genomic evidence for the role of gene duplication in organismal adaptation and are important for understanding the genetic mechanisms of evolutionary innovation.
登录
查看更多内容
影响因子：
64.5
作者：
Frost A;Elgort MG;Brandman O;Ives C;Collins SR;Miller-Vedam L;Weibezahn J;Hein MY;Poser I;Mann M;Hyman AA;Weissman JS
通讯作者：
Weissman JS
DOI：
10.1038/nrg2487
发表时间：
2009-01
期刊：
Nature reviews. Genetics
影响因子：
--
作者：
通讯作者：
--
影响因子：
5.8
作者：
Al-Shahrour, F;Díaz-Uriarte, R;Dopazo, J
通讯作者：
Dopazo, J
影响因子：
64.8
作者：
Gavin, AC;Bösche, M;Superti-Furga, G
通讯作者：
Superti-Furga, G
影响因子：
12.3
作者：
Han TX;Xu XY;Zhang MJ;Peng X;Du LL
通讯作者：
Du LL