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果蝇表皮蛋白基因的分子进化。

Molecular evolution of Drosophila cuticular protein genes.

机构信息

Department of Cellular Biology, University of Georgia, Athens, Georgia, United States of America.

出版信息

PLoS One. 2009 Dec 17;4(12):e8345. doi: 10.1371/journal.pone.0008345.

Abstract

Several multigene families have been described that together encode scores of structural cuticular proteins in Drosophila, although the functional significance of this diversity remains to be explored. Here I investigate the evolutionary histories of several multigene families (CPR, Tweedle, CPLCG, and CPF/CPFL) that vary in age, size, and sequence complexity, using sequenced Drosophila genomes and mosquito outgroups. My objective is to describe the rates and mechanisms of 'cuticle-ome' divergence, in order to identify conserved and rapidly evolving elements. I also investigate potential examples of interlocus gene conversion and concerted evolution within these families during Drosophila evolution. The absolute rate of change in gene number (per million years) is an order of magnitude lower for cuticular protein families within Drosophila than it is among Drosophila and the two mosquito taxa, implying that major transitions in the cuticle proteome have occurred at higher taxonomic levels. Several hotspots of intergenic conversion and/or gene turnover were identified, e.g. some gene pairs have independently undergone intergenic conversion within different lineages. Some gene conversion hotspots were characterized by conversion tracts initiating near nucleotide repeats within coding regions, and similar repeats were found within concertedly evolving cuticular protein genes in Anopheles gambiae. Rates of amino-acid substitution were generally severalfold higher along the branch connecting the Sophophora and Drosophila species groups, and 13 genes have Ka/Ks significantly greater than one along this branch, indicating adaptive divergence. Insect cuticular proteins appear to be a source of adaptive evolution within genera and, at higher taxonomic levels, subject to periods of gene-family expansion and contraction followed by quiescence. However, this relative stasis is belied by hotspots of molecular evolution, particularly concerted evolution, during the diversification of Drosophila. The prominent association between interlocus gene conversion and repeats within the coding sequence of interacting genes suggests that the latter promote strand exchange.

摘要

几个多基因家族已被描述,这些家族共同编码了果蝇中的数十种结构角质蛋白,尽管这种多样性的功能意义仍有待探索。在这里,我使用已测序的果蝇基因组和蚊子外群研究了几个多基因家族(CPR、Tweedle、CPLCG 和 CPF/CPFL)的进化历史,这些家族在年龄、大小和序列复杂性方面存在差异。我的目标是描述“角质层组”的分化速率和机制,以识别保守和快速进化的元件。我还研究了在果蝇进化过程中这些家族中潜在的基因间基因转换和协同进化的例子。与果蝇和两种蚊子类群相比,果蝇内角质蛋白家族的基因数量(每百万年)的绝对变化率低一个数量级,这意味着角质蛋白组的主要转变发生在更高的分类水平上。鉴定出了几个基因间转换和/或基因更替的热点,例如,一些基因对在不同的谱系中独立地经历了基因间转换。一些基因转换热点的特征是转换片段在编码区的核苷酸重复附近起始,并且在冈比亚按蚊中协同进化的角质蛋白基因中也发现了类似的重复。氨基酸取代率通常在连接 Sophophora 和果蝇种组的分支上高出几个数量级,并且在该分支上有 13 个基因的 Ka/Ks 显著大于 1,表明适应性分化。昆虫角质蛋白似乎是属内适应性进化的来源,在更高的分类水平上,它们经历了基因家族扩张和收缩的时期,随后是静止期。然而,在果蝇的多样化过程中,分子进化的热点,特别是协同进化,掩盖了这种相对稳定。基因间基因转换与相互作用基因编码序列内重复之间的显著关联表明,后者促进了链交换。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4698/2793513/a010d7d8bf2f/pone.0008345.g001.jpg

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