Whole-genome resequencing reveals recent signatures of selection in five populations of largemouth bass (Micropterus salmoides)
文献类型： 外文期刊
作者： Sun, Cheng-Fei 1 ; Zhang, Xin-Hui 2 ; Dong, Jun-Jian 1 ; You, Xin-Xin 2 ; Tian, Yuan-Yuan 1 ; Gao, Feng-Ying 1 ; Zhang, He-Tong 1 ; Shi, Qiong 2 ; Ye, Xing 1 ;
作者机构： 1.Chinese Acad Fishery Sci, Pearl River Fisheries Res Inst, Key Lab Trop & Subtrop Fishery Resources Applicat, Minist Agr & Rural Affairs, Guangzhou 510380, Guangdong, Peoples R China
2.BGI Acad Marine Sci, Shenzhen Key Lab Marine Genom, Guangdong Prov Key Lab Mol Breeding Marine Econ An, BGI Marine, Shenzhen 518081, Guangdong, Peoples R China
3.Univ Chinese Acad Sci, Coll Life Sci, Beijing 100049, Peoples R China
关键词： Largemouth bass; Whole-genome
期刊名称：ZOOLOGICAL RESEARCH （ 影响因子：4.9； 五年影响因子：4.6 ）
ISSN： 2095-8137
年卷期： 2023 年 44 卷 1 期
页码：
收录情况： SCI
摘要： Largemouth bass (Micropterus salmoides) is an economically important fish species in North America, Europe, and China. Various genetic improvement programs and domestication processes have modified its genome sequence through selective pressure, leaving nucleotide signals that can be detected at the genomic level. In this study, we sequenced 149 largemouth bass fish, including protospecies (imported from the US) and improved breeds (four domestic breeding populations from China). We detected genomic regions harboring certain genes associated with improved traits, which may be useful molecular markers for practical domestication, breeding, and selection. Subsequent analyses of genetic diversity and population structure revealed that the improved breeds have undergone more rigorous genetic changes. Through selective signal analysis, we identified hundreds of putative selective sweep regions in each largemouth bass line. Interestingly, we predicted 103 putative candidate genes potentially subjected to selection, including several associated with growth (psst1 and grb10), early development (klf9, sp4, and sp8), and immune traits (pkn2, sept2, bcl6, and ripk2). These candidate genes represent potential genomic landmarks that could be used to improve important traits of biological and commercial interest. In summary, this study provides a genome-wide map of genetic variations and selection footprints in largemouth bass, which may benefit genetic studies and accelerate genetic improvement of this economically important fish.
- 相关文献
作者其他论文 更多>>
-
Genome-Wide Identification, Sequence Alignment, and Transcription of Five Sex-Related Genes in Largemouth Bass (Micropterus Salmoides)
作者：Zhang, Xinhui;You, Xinxin;Liu, Huan;Liu, Xin;Shi, Qiong;Zhang, Xinhui;Ruan, Zhiqiang;Huang, Yu;You, Xinxin;Wang, Xinwen;Xu, Junmin;Shi, Qiong;Sun, Chengfei;Ye, Xing;Hu, Cancan;Wang, Xinwen;Xu, Junmin;Liu, Huan;Liu, Xin;Shi, Qiong
关键词：largemouth bass; sex-related gene; transcriptome sequencing; gonadal development; differentially expressed genes
-
Gonadal transcriptome sequencing reveals sexual dimorphism in expression profiling of sex-related genes in Asian arowana (Scleropages formosus)
作者：Zhao, Chenxi;Zhang, Xinhui;Shi, Qiong;Zhao, Chenxi;Bian, Chao;Zhang, Xinhui;Shi, Qiong;Bian, Chao;Shi, Qiong;Mu, Xidong
关键词：Asia arowana; gonad transcriptome; sex-biased; foxl2; dmrt gene family
-
TLR21 is involved in the NF-κB and IFN-β pathways in largemouth bass (Micropterus salmoides) and interacts with TRIF but not with the Myd88 adaptor
作者：Gao, Fengying;Dong, Junjian;Li, Jiaxin;Zhu, Zhilin;Zhang, Hetong;Sun, Chengfei;Ye, Xing;Gao, Fengying;Dong, Junjian;Li, Jiaxin;Zhu, Zhilin;Zhang, Hetong;Sun, Chengfei;Ye, Xing;Li, Jiaxin;Zhu, Zhilin
关键词：TLR21; Largemouth bass ( Micropterus salmoides ); Myd88; TRIF; NF-kappa B; IFN-beta
-
Development of a Highly Permissive Mandarin Fish (Siniperca chuatsi) Kidney Cell Line for Mandarin Fish Ranavirus Using a Single-Cell Cloning Method
作者：Zhang, Hetong;Dong, Junjian;Yan, Yunyun;Ye, Xing;Gao, Fengying;Sun, Chengfei;Zhang, Hetong;Dong, Junjian;Yan, Yunyun;Ye, Xing;Gao, Fengying;Sun, Chengfei;Yan, Yunyun;Liu, Shanshan;Ye, Xing;Gao, Fengying;Sun, Chengfei
关键词：mandarin fish ranavirus (MRV); permissive cell line; single-cell clone
-
High temperature exposure causes sexual dimorphism in immune responses against largemouth bass ranavirus (LMBV) in Micropterus salmoides
作者：Dong, Junjian;Zhang, Hetong;Wang, Ziyang;Sun, Chengfei;Gao, Fengying;Ye, Xing;Dong, Junjian;Zhang, Hetong;Wang, Ziyang;Sun, Chengfei;Gao, Fengying;Ye, Xing;Gao, Fengying;Ye, Xing
关键词：Largemouth bass; Micropterus salmoides; Largemouth bass ranavirus (LMBV); High temperature; Immunity; Sex -based differences
-
Genomic organization and gene evolution of two warm temperature acclimation proteins (Wap65s) of Micropterus salmoides and their responses to temperature and bacterial/viral infections
作者：Dong, Junjian;Sun, Chengfei;Tian, Yuanyuan;Zhang, Hetong;Liu, Zhigang;Gao, Fengying;Ye, Xing;Dong, Junjian;Sun, Chengfei;Tian, Yuanyuan;Zhang, Hetong;Liu, Zhigang;Gao, Fengying;Ye, Xing;Liu, Zhigang;Gao, Fengying;Ye, Xing;Gao, Fengying;Ye, Xing
关键词：Micropterus salmoides; Warm temperature acclimation related 65 kDa; proteins (Wap65s); Gene evolution; Immune challenge; Hemolysis symptoms
-
Response to four generations of selection for growth performance traits in mandarin fish (Siniperca chuatsi)
作者：Sun, Chengfei;Dong, Junjian;Li, Wuhui;Tian, Yuanyuan;Hu, Jie;Ye, Xing
关键词：Siniperca chuatsi; Genetic parameters; Selection response; Realized heritability; Coefficient of variation
