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研究揭示洞穴鱼代谢适应背后顺式调控变化的全基因组分析
作者:小柯机器人 发布时间:2022/5/15 14:47:36

美国Stowers医学研究所Nicolas Rohner团队揭示洞穴鱼代谢适应背后顺式调控变化的全基因组分析。该项研究成果于2022年5月12日在线发表在《自然—遗传学》杂志上。

研究人员使用了一个独特的脊椎动物模型(墨西哥脂鲤,Astyanax mexicanus,其不同的形态在营养丰富的地表水和营养匮乏的洞穴水中生存)来揭示代谢适应的基因调控网络。研究人员在Astyanax的肝脏组织中进行了全基因组的表观遗传分析,发现了许多确定的顺式调控元件(CRE)在地表和洞穴形态之间有遗传上的差异,并具有不同的染色质特征,而在独立衍生的洞穴种群之间保留了明显相似的调控特征。

hpdb基因中的一个这样的CRE在洞穴鱼中存在一个基因组缺失,它取消了IRF2抑制器的结合,并在报告试验中降低了增强子的活性。这种突变在多个独立洞穴种群中的选择支持其在洞穴适应中的重要性,并提供了关于色素丧失和适应食物匮乏的洞穴之间的进化权衡的新见解。

据介绍,顺式调控变化是适应性进化的关键驱动因素。然而,它们对生物体的代谢适应的贡献还没有得到很好的理解。

附:英文原文

Title: Genome-wide analysis of cis-regulatory changes underlying metabolic adaptation of cavefish

Author: Krishnan, Jaya, Seidel, Chris W., Zhang, Ning, Singh, Narendra Pratap, VanCampen, Jake, Peu, Robert, Xiong, Shaolei, Kenzior, Alexander, Li, Hua, Conaway, Joan W., Rohner, Nicolas

Issue&Volume: 2022-05-12

Abstract: Cis-regulatory changes are key drivers of adaptative evolution. However, their contribution to the metabolic adaptation of organisms is not well understood. Here, we used a unique vertebrate model, Astyanax mexicanus—different morphotypes of which survive in nutrient-rich surface and nutrient-deprived cave waters—to uncover gene regulatory networks underlying metabolic adaptation. We performed genome-wide epigenetic profiling in the liver tissues of Astyanax and found that many of the identified cis-regulatory elements (CREs) have genetically diverged and have differential chromatin features between surface and cave morphotypes, while retaining remarkably similar regulatory signatures between independently derived cave populations. One such CRE in the hpdb gene harbors a genomic deletion in cavefish that abolishes IRF2 repressor binding and derepresses enhancer activity in reporter assays. Selection of this mutation in multiple independent cave populations supports its importance in cave adaptation, and provides novel molecular insights into the evolutionary trade-off between loss of pigmentation and adaptation to food-deprived caves.

DOI: 10.1038/s41588-022-01049-4

Source: https://www.nature.com/articles/s41588-022-01049-4

期刊信息

Nature Genetics:《自然—遗传学》,创刊于1992年。隶属于施普林格·自然出版集团,最新IF:25.455
官方网址:https://www.nature.com/ng/
投稿链接:https://mts-ng.nature.com/cgi-bin/main.plex