Identification of candidate genes controlling fiber quality traits in upland cotton through integration of meta-QTL,significant SNP and transcriptomic data

查看全文 作　　者：XU [1]Shudi;PAN [1]Zhenyuan;YIN [2]Feifan;YANG [1,2]Qingyong;LIN [1,3]Zhongxu;WEN [3]Tianwang;ZHU [1,3]Longfu;ZHANG [4]Dawei;NIE [1]Xinhui

机构地区：[1]Key Laboratory of Oasis Ecology Agricultural of Xinjiang Production and Construction Coprs,Agricultural College,Shihezi University,Shihezi 832000,Xinjiang,China;[2]Hubei Key Laboratory of Agricultural Bioinformatics,College of Informatics,Huazhong Agricultural University,Wuhan 430070,Hubei,China;[3]National Key Laboratory of Crop Genetic Improvement,College of Plant Science and Technology,Huazhong Agricultural University,Wuhan 430070,Hubei,China;[4]Research Institute of Economic Crops,Xinjiang Academy of Agricultural Sciences,Urumqi 830091,China

出　　处：《Journal of Cotton Research》索引2020年第3卷第4期,共12页

基　　金：This work was supported by the National Natural Science Foundation of China(31760402);Public Welfare Research Projects in the Autonomous Region(KY2019002);Special Programs for New Varieties Cultivation of Shihezi University(YZZX201701). 摘　　要：Background:Meta-analysis of quantitative trait locus(QTL)is a computational technique to identify consensus QTL and refine QTL positions on the consensus map from multiple mapping studies.The combination of meta-QTL intervals,significant SNPs and transcriptome analysis has been widely used to identify candidate genes in various plants.Results:In our study,884 QTLs associated with cotton fiber quality traits from 12 studies were used for meta-QTL analysis based on reference genome TM-1,as a result,74 meta-QTLs were identified,including 19 meta-QTLs for fiber length;18 meta-QTLs for fiber strength;11 meta-QTLs for fiber uniformity;11 meta-QTLs for fiber elongation;and 15 meta-QTLs for micronaire.Combined with 8589 significant single nucleotide polymorphisms associated with fiber quality traits collected from 15 studies,297 candidate genes were identified in the meta-QTL intervals,20 of which showed high expression levels specifically in the developing fibers.According to the function annotations,some of the 20 key candidate genes are associated with the fiber development.Conclusions:This study provides not only stable QTLs used for marker-assisted selection,but also candidate genes to uncover the molecular mechanisms for cotton fiber development. 关键词：Fiber quality traits Meta-QTL Significant SNPs Candidate genes Transcriptomic data

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Identification of candidate genes controlling fiber quality traits in upland cotton through integration of meta-QTL,significant SNP and transcriptomic data

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