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Genomic Basis of Adaptive Evolution: The Survival of Amur Ide (Leuciscus waleckii) in an Extremely Alkaline Environment

文献类型： 外文期刊

作者： Xu, Jian 1 ; Li, Jiong-Tang 1 ; Jiang, Yanliang 1 ; Peng, Wenzhu 1 ; Yao, Zongli 3 ; Chen, Baohua 1 ; Jiang, Likun 1 ; Fe 1 ;

作者机构： 1.Chinese Acad Fishery Sci, Beijing Key Lab Fishery Biotechnol, Ctr Appl Aquat Genom, Beijing, Peoples R China

2.Xiamen Univ, State Key Lab Marine Environm Sci, Coll Ocean & Earth Sci, Xiamen, Peoples R China

3.Chinese Acad Fisheries Sci, East China Sea Fisheries Res Inst, Engn Res Ctr Saline Alkaline Fisheries, Shanghai, Peoples R China

4.Chinese Acad Sci, Beijing Inst Genom, CAS Key Lab Genome Sci & Informat, Beijing, Peoples R China

5.Auburn Univ, Sch Fisheries Aquaculture & Aquat Sci, Fish Mol Genet & Biotechnol Lab, Aquat Genom Unit, Auburn, AL 36849 USA

6.West Virginia Univ, Div Anim & Nutr Sci, Morgantown, WV USA

7.Dalinor Natl Nat Reserve, Keshiketeng, Chifeng, Peoples R China

8.Xiamen Univ, Fujian Collaborat Innovat Ctr Exploitat & Utiliza, Xiamen, Peoples R China

关键词： alkaline; adaptation; genome; acid-base regulation; urea excretion; Leuciscus waleckii

期刊名称：MOLECULAR BIOLOGY AND EVOLUTION （ 影响因子：16.24； 五年影响因子：18.67 ）

ISSN： 0737-4038

年卷期： 2017 年 34 卷 1 期

页码：

收录情况： SCI

摘要： The Amur ide (Leuciscus waleckii) is a cyprinid fish that is widely distributed in Northeast Asia. The Lake Dali Nur population inhabits one of the most extreme aquatic environments on Earth, with an alkalinity up to 50mmol/L (pH 9.6), thus providing an exceptional model with which to characterize the mechanisms of genomic evolution underlying adaptation to extreme environments. Here, we developed the reference genome assembly for L. waleckii from Lake Dali Nur. Intriguingly, we identified unusual expanded long terminal repeats (LTRs) with higher nucleotide substitution rates than in many other teleosts, suggesting their more recent insertion into the L. waleckii genome. We also identified expansions in genes encoding egg coat proteins and natriuretic peptide receptors, possibly underlying the adaptation to extreme environmental stress. We further sequenced the genomes of 10 additional individuals from freshwater and 18 from Lake Dali Nur populations, and we detected a total of 7.6million SNPs from both populations. In a genome scan and comparison of these two populations, we identified a set of genomic regions under selective sweeps that harbor genes involved in ion homoeostasis, acid-base regulation, unfolded protein response, reactive oxygen species elimination, and urea excretion. Our findings provide comprehensive insight into the genomic mechanisms of teleost fish that underlie their adaptation to extreme alkaline environments.

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