Population genomics identifies patterns of genetic diversity and selection in chicken View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2019-12

AUTHORS

Diyan Li, Yan Li, Miao Li, Tiandong Che, Shilin Tian, Binlong Chen, Xuming Zhou, Guolong Zhang, Uma Gaur, Majing Luo, Kai Tian, Mengnan He, Shen He, Zhongxian Xu, Long Jin, Qianzi Tang, Yifei Dai, Huailiang Xu, Yaodong Hu, Xiaoling Zhao, Huadong Yin, Yan Wang, Rongjia Zhou, Chaowu Yang, Huarui Du, Xiaosong Jiang, Qing Zhu, Mingzhou Li

ABSTRACT

BACKGROUND: There are hundreds of phenotypically distinguishable domestic chicken breeds or lines with highly specialized traits worldwide, which provide a unique opportunity to illustrate how selection shapes patterns of genetic variation. There are many local chicken breeds in China. RESULTS: Here, we provide a population genome landscape of genetic variations in 86 domestic chickens representing 10 phenotypically diverse breeds. Genome-wide analysis indicated that sex chromosomes have less genetic diversity and are under stronger selection than autosomes during domestication and local adaptation. We found an evidence of admixture between Tibetan chickens and other domestic population. We further identified strong signatures of selection affecting genomic regions that harbor genes underlying economic traits (typically related to feathers, skin color, growth, reproduction and aggressiveness) and local adaptation (to high altitude). By comparing the genomes of the Tibetan and lowland fowls, we identified genes associated with high-altitude adaptation in Tibetan chickens were mainly involved in energy metabolism, body size maintenance and available food sources. CONCLUSIONS: The work provides crucial insights into the distinct evolutionary scenarios occurring under artificial selection for agricultural production and under natural selection for success at high altitudes in chicken. Several genes were identified as candidates for chicken economic traits and other phenotypic traits. More... »

PAGES

263

References to SciGraph publications

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  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1186/s12864-019-5622-4

    DOI

    http://dx.doi.org/10.1186/s12864-019-5622-4

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1113179407

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/30940068


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