Genome-wide association study of micronaire using a natural population of representative upland cotton(Gossypium hirsutum L.)  

作　　者：SONG Jikun PEI Wenfeng MA Jianjiang YANG Shuxian JIA Bing BIAN Yingying XIN Yue WU Luyao ZANG Xinshan QU Yanying ZHANG Jinfa WU Man YU Jiwen 

机构地区：[1]State Key Laboratory of Cotton Biology,Ministry of Agriculture and Rural Affairs/Institute of Cotton Research,Chinese Academy of Agricultural Sciences,Anyang,455000,Henan,China [2]Engineering Research Centre of Cotton,Ministry of Education/College of Agriculture,Xinjiang Agricultural University,Urumqi,830052,Xinjiang,China [3]Department of Plant and Environmental Sciences,New Mexico State University,Las Cruces,880033,NM,USA

出　　处：《Journal of Cotton Research》2021年第2期114-125,共12页棉花研究（英文）

基　　金：The present study was funded by National Key Research and Development Program of China(grants nos.2018YFD0101402,2018YFD0100300 and 2016YFD0101400);the Natural Science Foundation of Xinjiang Uygur Autonomous Region of China(grant no.2020D01A135);Agricultural Science and Technology Innovation Program of Chinese Academy of Agricultural Sciences.

摘　　要：Background: Micronaire is a comprehensive index reflecting the fineness and maturity of cotton fiber.Micronaire is one of the important internal quality indicators of the cotton fiber and is closely related to the value of the cotton fiber.Understanding the genetic basis of micronaire is required for the genetic improvement of the trait.However,the genetic architecture of micronaire at the genomic level is unclear.The present genome-wide association study(GWAS)aimed to identify the genetic mechanism of the micronaire trait in 83 representa:tive upland cotton lines grown in multiple environments.Results GWAS of micronaire used 83 upland cotton accessions assayed by a Cotton 63 K Illumina Infinium single nucleotide polymorphism(SNP)array.A total of 11 quantitative trait loci(QTLs)for micronaire were detected on 10 chromosomes.These 11 QTLs included 27 identified genes with specific expression patterns.A novel QTL,qFM-A12–1,included 12 significant SNPs,and GhFLA9 was identified as a candidate gene based on haplotype block analysis and on strong and direct linkage disequilibrium between the significantly related SNPs and gene.GhFLA9 was expressed at a high level during secondary wall thickening at 20∼25 days post-anthesis.The expression level of GhFLA9 was significantly higher in the low micronaire line(Msco-12)than that in the high micronaire line(Chuangyou-9).Conclusions: This study provides a genetic reference for genetic improvement of cotton fiber micronaire and a foundation for verification of the functions of GhFLA9.

关 键 词：Upland cotton(Gossypium hirsutum L.) Fiber micronaire GWAS Candidate genes GhFLA9 

分 类 号：S562[农业科学—作物学]