Genome diversity and divergence in Drosophila mauritiana: multiple signatures of faster X evolution.
Genome diversity and divergence in Drosophila mauritiana: multiple signatures of faster X evolution.
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DOI：
10.1093/gbe/evu198
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发表时间：
2014-09-04
影响因子：
3.3
通讯作者：
Presgraves DC
中科院分区：
文献类型：
--
作者：
Garrigan D;Kingan SB;Geneva AJ;Vedanayagam JP;Presgraves DC
毛里求斯果蝇（Drosophila mauritiana）是一种印度洋岛屿特有物种，大约在24万年前从其两个姐妹物种Drosophila simulans和Drosophila sechellia分化而来。多种形式的不完全生殖隔离已经演变这些物种之间，包括性，配子，生态和内在的合子后障碍，与所有三个物种之间的杂交符合Halfman的规则：F1杂交雄性不育和F1杂交雌性是肥沃的。广泛的遗传资源和杂种雌性的生育能力使D.毛里求斯是物种形成遗传学的一个重要模式。D. mauritiana和它的两个兄弟姐妹已经表明，X染色体对杂种雄性不育性的贡献不成比例。但是为什么X染色体在这些物种和其他物种的杂种不育性进化中起着特殊的作用，仍然是一个悬而未决的问题。为了补充功能遗传学分析，我们研究了D. mauritiana，特别注意X和常染色体之间的差异。我们提出了一个从头基因组组装的D。mauritiana的基因组数据，以及来自10个个体的多态性和分歧的全基因组分析。我们的分析表明，相对于常染色体，X染色体减少了核苷酸多样性，但增加了核苷酸分歧;在其蛋白质编码基因上过度的周期性适应性进化;过度的最近，强选择性扫描;以及大量过量的卫星DNA。有趣的是，在D。mauritiana X染色体跨越一个包含两个性比减数分裂驱动元件和高浓度卫星DNA的区域。此外，在生殖和染色体生物学中起作用的基因在具有周期性适应性蛋白质进化历史的基因中富集。总之，这些全基因组分析表明，遗传冲突和X染色体上频繁的积极自然选择塑造了D。毛里求斯，完善我们对物种形成中大X效应的可能原因的理解。
Drosophila mauritiana is an Indian Ocean island endemic species that diverged from its two sister species, Drosophila simulans and Drosophila sechellia, approximately 240,000 years ago. Multiple forms of incomplete reproductive isolation have evolved among these species, including sexual, gametic, ecological, and intrinsic postzygotic barriers, with crosses among all three species conforming to Haldane’s rule: F1 hybrid males are sterile and F1 hybrid females are fertile. Extensive genetic resources and the fertility of hybrid females have made D. mauritiana, in particular, an important model for speciation genetics. Analyses between D. mauritiana and both of its siblings have shown that the X chromosome makes a disproportionate contribution to hybrid male sterility. But why the X plays a special role in the evolution of hybrid sterility in these, and other, species remains an unsolved problem. To complement functional genetic analyses, we have investigated the population genomics of D. mauritiana, giving special attention to differences between the X and the autosomes. We present a de novo genome assembly of D. mauritiana annotated with RNAseq data and a whole-genome analysis of polymorphism and divergence from ten individuals. Our analyses show that, relative to the autosomes, the X chromosome has reduced nucleotide diversity but elevated nucleotide divergence; an excess of recurrent adaptive evolution at its protein-coding genes; an excess of recent, strong selective sweeps; and a large excess of satellite DNA. Interestingly, one of two centimorgan-scale selective sweeps on the D. mauritiana X chromosome spans a region containing two sex-ratio meiotic drive elements and a high concentration of satellite DNA. Furthermore, genes with roles in reproduction and chromosome biology are enriched among genes that have histories of recurrent adaptive protein evolution. Together, these genome-wide analyses suggest that genetic conflict and frequent positive natural selection on the X chromosome have shaped the molecular evolutionary history of D. mauritiana, refining our understanding of the possible causes of the large X-effect in speciation.
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DOI：
10.1098/rstb.2000.0716
发表时间：
2000-11-29
影响因子：
6.3
作者：
Barton, NH
通讯作者：
Barton, NH
影响因子：
10.7
作者：
Derome, Nicolas;Baudry, Emmanuelle;Montchamp-Moreau, Catherine
通讯作者：
Montchamp-Moreau, Catherine
影响因子：
3.3
作者：
Campbell, Polly;Good, Jeffrey M.;Nachman, Michael W.
通讯作者：
Nachman, Michael W.
影响因子：
10.7
作者：
Bachtrog, D;Weiss, S;Schlötterer, C
通讯作者：
Schlötterer, C
种群基因组学：果蝇果蝇中多态性和差异的全基因组分析。
影响因子：
9.8
作者：
Begun, David J.;Holloway, Alisha K.;Stevens, Kristian;Hillier, LaDeana W.;Poh, Yu-Ping;Hahn, Matthew W.;Nista, Phillip M.;Jones, Corbin D.;Kern, Andrew D.;Dewey, Colin N.;Pachter, Lior;Myers, Eugene;Langley, Charles H.
通讯作者：
Langley, Charles H.