Genome-wide association study for the primary feather color trait in a native Chinese duck

文献类型： 外文期刊

第一作者： Sun, Yanfa

作者： Sun, Yanfa;Wu, Qiong;Zhang, Min;Wang, Yaru;Xue, Pengfei;Gan, Qiuyun;Shen, Yue;Chen, Feifan;Liu, Jiantao;Zhou, Chenxin;Lan, Shishi;Pan, Haozhe;Deng, Fan;Li, Yan;Sun, Yanfa;Wu, Qiong;Zhang, Min;Li, Yan;Sun, Yanfa;Wu, Qiong;Zhang, Min;Li, Yan;Lin, Rulong;Chen, Hongping;Yue, Wen;Jiang, Bingbing;Lu, Lizhi;Jiang, Xiaobing

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关键词： Longyan Shan-ma duck; primary feather color trait; GWAS; candidate gene; STARD9

期刊名称：FRONTIERS IN GENETICS （ 影响因子：3.7； 五年影响因子：4.3 ）

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年卷期： 2023 年 14 卷

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收录情况： SCI

摘要： Background: To reveal candidate genes and the molecular genetic mechanism underlying primary feather color trait in ducks, a genome-wide association study (GWAS) for the primary feather color trait was performed based on the genotyping-by-sequencing (GBS) technology for a native Chinese female duck, Longyan Shan-ma ducks.Methods: Blood genomic DNA from 314 female Longyan Shan-ma duck were genotyped using GBS technology. A GWAS for the primary feather color trait with genome variations was performed using an univariate linear mixed model based on all SNPs in autosomes.Results: Seven genome-wide significant single nucleotide polymorphisms (SNPs, Bonferroni-adjusted p-value < 8.03 x 10(-7)) within the introns of the genes STARD9, ZNF106, SLC7A5, and BANP genes were associated with the primary feather color trait. Twenty-two genome-wide suggestive SNPs (Bonferroni-adjusted p-value < 1.61 x 10(-5)) of 17 genes (besides ZNF106 and SLC7A5) were also identified. Seven SNPs were located at one 0.22 Mb region (38.65-38.87 Mb) on chromosome 5, and six SNPs were located at one 0.31 Mb region (19.53-19.84 Mb) on chromosome 11. The functions of STARD9, SLC7A5, BANP, LOC101798015, and IPMK were involved pigmentation and follicle development, especially, STARD9 upregulated expression in black feather (haplotype-CCCC) bulb tissue compared with in pockmarked feather (haplotype-TGTT) bulb tissue, implicating these genes as candidate genes for primary feather color trait.Conclusion: The preliminarily findings suggested candidate genes and regions, and the genetic basis of primary feather color trait in a female duck.

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