Patterns of Geographical and Potential Adaptive Divergence in the Genome of the Common Carp (Cyprinus carpio)
文献类型： 外文期刊
作者： Xu, Jian 1 ; Jiang, Yanliang 1 ; Zhao, Zixia 1 ; Zhang, Hanyuan 1 ; Peng, Wenzhu 3 ; Feng, Jianxin 4 ; Dong, Chuanju 5 ;
作者机构： 1.Chinese Acad Fishery Sci, Key Lab Aquat Genom, Minist Agr, CAFS Key Lab Aquat Genom, Beijing, Peoples R China
2.Chinese Acad Fishery Sci, Beijing Key Lab Fishery Biotechnol, Beijing, Peoples R China
3.Xiamen Univ, State Key Lab Marine Environm Sci, Coll Ocean & Earth Sci, Xiamen, Fujian, Peoples R China
4.Henan Acad Fishery Sci, Zhengzhou, Henan, Peoples R China
5.Henan Normal Univ, Coll Fishery, Xinxiang, Henan, Peoples R China
6.Pilot Natl Lab Marine Sci & Technol, Lab Marine Biol & Biotechnol, Qingdao, Shandong, Peoples R China
关键词： common carp; population genomics; linkage disequilibrium; haplotype; selective sweep
期刊名称：FRONTIERS IN GENETICS （ 影响因子：4.599； 五年影响因子：4.888 ）
ISSN： 1664-8021
年卷期： 2019 年 10 卷
页码：
收录情况： SCI
摘要： The common carp, Cyprinus carpio, is a cyprinid fish species cultured in Europe and Asia. It accounts for >70% of freshwater aquaculture production worldwide. We conducted a population genomics analysis on C. carpio using high-throughput SNP genotyping of 2,198 individuals from 14 populations worldwide to determine the genetic architecture of common carp populations and the genetic bases for environmental adaptation. Structure analyses including phylogeny and principal component analysis were also conducted, showing distinct geographical patterns in European and Asian populations. The linkage disequilibrium block average lengths of the 14 populations ranged from 3.94 kb to 36.67 kb. Genes within selective sweep regions were identified by genome scanning among the different populations, including gdf6a, bmpr1b, and opsin5. Gene Ontology and KEGG enrichment analyses revealed potential trait-related loci and genes associated with body shape, scaling patterns, and skin color. This population genomics analysis may provide valuable clues for future genome-assisted breeding of C. carpio.
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