Integrating Genomic and Transcriptomic Data to Reveal Genetic Mechanisms Underlying Piao Chicken Rumpless Trait  

作　　者：Yun-Mei Wang Saber Khederzadeh Shi-Rong Li Newton Otieno Otecko David M.Irwin Mukesh Thakur Xiao-Die Ren Ming-Shan Wang Dong-Dong Wu Ya-Ping Zhang 

机构地区：[1]State Key Laboratory of Genetic Resources and Evolution,Kunming Institute of Zoology,Chinese Academy of Sciences,Kunming 650223,China [2]Kunming College of Life Science,University of the Chinese Academy of Sciences,Kunming 650223,China [3]Center for Neurobiology and Brain Restoration,Skolkovo Institute of Science and Technology,Moscow 143026,Russia [4]Department of Laboratory Medicine and Pathobiology,University of Toronto,Toronto M5S 1A8,Canada [5]Zoological Survey of India,Kolkata 700053,India

出　　处：《Genomics, Proteomics & Bioinformatics》2021年第5期787-799,共13页基因组蛋白质组与生物信息学报（英文版）

基　　金：supported by the National Natural Science Foundation of China(Grant Nos.31771415 and 31801054);the Bureau of Science and Technology of Yunnan Province,China(Grant No.2015FA026);the Youth Innovation Promotion Association,Chinese Academy of Sciences;the support of the CAS-TWAS President’s Fellowship Program for Doctoral Candidates。

摘　　要：Piao chicken,a rare Chinese native poultry breed,lacks primary tail structures,such as pygostyle,caudal vertebra,uropygial gland,and tail feathers.So far,the molecular mechanisms underlying tail absence in this breed remain unclear.In this study,we comprehensively employed comparative transcriptomic and genomic analyses to unravel potential genetic underpinnings of rumplessness in Piao chicken.Our results reveal many biological factors involved in tail development and several genomic regions under strong positive selection in this breed.These regions contain candidate genes associated with rumplessness,including Irx4,Il18,Hspb2,and Cryab.Retrieval of quantitative trait loci(QTL)and gene functions implies that rumplessness might be consciously or unconsciously selected along with the high-yield traits in Piao chicken.We hypothesize that strong selection pressures on regulatory elements might lead to changes in gene activity in mesenchymal stem cells of the tail bud.The ectopic activity could eventually result in tail truncation by impeding differentiation and proliferation of the stem cells.Our study provides fundamental insights into early initiation and genetic basis of the rumpless phenotype in Piao chicken.

关 键 词：Comparative transcriptomics Population genomics Rumplessness Vertebra development Artificial selection 

分 类 号：S831.2[农业科学—畜牧学]