Genome-wide genetic structure and selection signatures for color in 10 traditional Chinese yellow-feathered chicken breeds

	Genome-wide genetic structure and selection signatures for color in 10 traditional Chinese yellow-feathered chicken breeds
	Huang, XH; Otecko, NO; Peng, MS; Weng, ZX; Li, WN; Chen, JB; Zhong, M; Zhong, FS; Jin, SH; Geng, ZY; Luo, W; He, DL; Ma, C; Han, JL; Ommeh, SC; Zhang, YP; Zhang, XQ; Du, BW
	2020
发表期刊	BMC GENOMICS
ISSN	1471-2164
卷号	21 期号:1
摘要	Background Yellow-feathered chickens (YFCs) have a long history in China. They are well-known for the nutritional and commercial importance attributable to their yellow color phenotype. Currently, there is a huge paucity in knowledge of the genetic determinants responsible for phenotypic and biochemical properties of these iconic chickens. This study aimed to uncover the genetic structure and the molecular underpinnings of the YFCs trademark coloration. Results The whole-genomes of 100 YFCs from 10 major traditional breeds and 10 Huaibei partridge chickens from China were re-sequenced. Comparative population genomics based on autosomal single nucleotide polymorphisms (SNPs) revealed three geographically based clusters among the YFCs. Compared to other Chinese indigenous chicken genomes incorporated from previous studies, a closer genetic proximity within YFC breeds than between YFC breeds and other chicken populations is evident. Through genome-wide scans for selective sweeps, we identified RALY heterogeneous nuclear ribonucleoprotein (RALY), leucine rich repeat containing G protein-coupled receptor 4 (LGR4), solute carrier family 23 member 2 (SLC23A2), and solute carrier family 2 member 14 (SLC2A14), besides the classical beta-carotene dioxygenase 2 (BCDO2), as major candidates pigment determining genes in the YFCs. Conclusion We provide the first comprehensive genomic data of the YFCs. Our analyses show phylogeographical patterns among the YFCs and potential candidate genes giving rise to the yellow color trait of the YFCs. This study lays the foundation for further research on the genome-phenotype cross-talks that define important poultry traits and for formulating genetic breeding and conservation strategies for the YFCs.
收录类别	sci
语种	英语
文献类型	期刊论文
条目标识符	http://ir.kiz.ac.cn/handle/152453/13407
专题	科研部门_分子进化与基因组多样性（张亚平）
推荐引用方式 GB/T 7714	Huang, XH,Otecko, NO,Peng, MS,et al. Genome-wide genetic structure and selection signatures for color in 10 traditional Chinese yellow-feathered chicken breeds[J]. BMC GENOMICS,2020,21(1).
APA	Huang, XH.,Otecko, NO.,Peng, MS.,Weng, ZX.,Li, WN.,...&Du, BW.(2020).Genome-wide genetic structure and selection signatures for color in 10 traditional Chinese yellow-feathered chicken breeds.BMC GENOMICS,21(1).
MLA	Huang, XH,et al."Genome-wide genetic structure and selection signatures for color in 10 traditional Chinese yellow-feathered chicken breeds".BMC GENOMICS 21.1(2020).

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