Comparative Transcriptomics in Two Bivalve Species Offers Different Perspectives on the Evolution of Sex-Biased Genes.
Comparative Transcriptomics in Two Bivalve Species Offers Different Perspectives on the Evolution of Sex-Biased Genes.
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DOI：
10.1093/gbe/evy082
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发表时间：
2018-06-01
影响因子：
3.3
通讯作者：
Passamonti M
中科院分区：
文献类型：
--
作者：
Ghiselli F;Iannello M;Puccio G;Chang PL;Plazzi F;Nuzhdin SV;Passamonti M
比较基因组学已成为进化生物学的核心工具，更好地了解未充分研究的分类群是未来工作的基础。在这项研究中，我们的特点是男性和女性的成熟性腺的欧洲蛤Ruditapes decussatus的转录组相比，在马尼拉蛤Ruditapes philippinarum提供，第一次在双壳类，信息的转录动力学和序列进化的性别偏见的基因。在这两个物种中，我们发现了相对较低数量的性别偏向基因（1，284个，相当于两个物种之间直向同源基因的41.3%），可能是由于缺乏性二型性，并且转录偏向仅在33%的直向同源物中保持。dN/dS通常较低，表明纯化选择，其中在两个物种之间维持雌性偏向转录的基因显示出显著较高的dN/dS。参与胚胎发育、细胞增殖和维持基因组稳定性的基因显示出更快的序列进化。最后，我们报告缺乏明确的相关性，在这些物种的转录水平和进化速度，相反，研究报告的负相关性。我们讨论这种差异，并提出质疑的一些方法和理由，通常用于这种类型的比较研究。
Comparative genomics has become a central tool for evolutionary biology, and a better knowledge of understudied taxa represents the foundation for future work. In this study, we characterized the transcriptome of male and female mature gonads in the European clam Ruditapes decussatus, compared with that in the Manila clam Ruditapes philippinarum providing, for the first time in bivalves, information about transcription dynamics and sequence evolution of sex-biased genes. In both the species, we found a relatively low number of sex-biased genes (1,284, corresponding to 41.3% of the orthologous genes between the two species), probably due to the absence of sexual dimorphism, and the transcriptional bias is maintained in only 33% of the orthologs. The dN/dS is generally low, indicating purifying selection, with genes where the female-biased transcription is maintained between the two species showing a significantly higher dN/dS. Genes involved in embryo development, cell proliferation, and maintenance of genome stability show a faster sequence evolution. Finally, we report a lack of clear correlation between transcription level and evolutionary rate in these species, in contrast with studies that reported a negative correlation. We discuss such discrepancy and call into question some methodological approaches and rationales generally used in this type of comparative studies.
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