Genome-Wide Association Study Identifies Genomic Loci of Sex Determination and Gonadosomatic Index Traits in Large Yellow Croaker (Larimichthys crocea).

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      Publisher: Springer-Verlag New York Inc Country of Publication: United States NLM ID: 100892712 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1436-2236 (Electronic) Linking ISSN: 14362228 NLM ISO Abbreviation: Mar Biotechnol (NY) Subsets: MEDLINE
    • Publication Information:
      Original Publication: New York, NY : Springer-Verlag New York Inc., c1999-
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    • Abstract:
      Larimichthys crocea is one of the traditional marine culture fishes in China, widely distributed in South China Sea, East Sea, and southern Yellow Sea. Sex dimorphism is evident in this species that females present a substantial growth strength than males, suggesting breeding females could obtain more economic benefits in L. crocea aquaculture industry. With the continuous expansion of aquaculture industry, both identifying sex-associated genome region and understanding the genetic basis underlying gonad differentiation and development matter to not only sex control aquaculture but also breeding industry. Thus, genome-wide association analysis (GWAS) of sex determination was conducted with a random breeding population of 905 individuals (including 463 females and 442 males) by ddRAD sequencing. For sex determination, 21 significant single nucleotide polymorphisms (SNPs) in chromosome (Chr) 22 were identified. Surrounding these SNPs, we founded 14 candidate genes, including dmrt1, dmrt3, and piwil2, fam102a, and odf2. The sex-associated region was narrowed down further to 2.4 Mb on Chr22 through F st scanning and insertion-deletion (InDel) analysis. Besides, 3 SNPs in the supposed sex-determining region on Chr22 were identified as highly associated with gonad differentiation through GWAS on gonadosomatic index (GSI) in 350 males and 231 females. Because of the significant difference of GSI between females and males of L. crocea, GWAS on GSI of different genders was also conducted independently. Finally, we identified a SNP in Chr18 showing genome-wide significant association with male GSI (MGSI) and three genes axl, cyp2a10, and cyp2g1 involved in the gonadal development regulation process of aromatase. Overall, this study explored the genetic basis of sex determination mechanism and provided novel insights into gonad differentiation and development, offering solid genetic support for sex control breeding, marker-assisted selection, and marine resources conservation.
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    • Grant Information:
      2019N51010081 Industry-University-Research Collaboration Project in Fujian Province; 20720180123 & 20720160110 Fundamental Research Funds for Central Universities of the Central South University (CN); 2018N2005 Science and Technology Platform Construction of Fujian Province; 2019C002 Industry-University-Research Cooperation Project of Xiamen University and Ningde; LYC2017RS05, LYC2019RS02 and LYC2019RS03 Open Research Fund Project of State Key Laboratory of Large Yellow Croaker Breeding
    • Contributed Indexing:
      Keywords: Genome; Gonadosomatic index; Larimichthys crocea; Sex determination; Yellow croaker
    • Publication Date:
      Date Created: 20201116 Date Completed: 20210901 Latest Revision: 20210901
    • Publication Date:
      20240829
    • Accession Number:
      10.1007/s10126-020-10007-2
    • Accession Number:
      33196953