title: Two genomic regions associated with fiber quality traits in Chinese upland cotton under apparent breeding selection.
abstract: Fiber quality is one of the most important agronomic traits of cotton, and understanding the genetic basis of its target traits will accelerate improvements to cotton fiber quality. In this study, a panel comprising 355 upland cotton accessions was used to perform genome-wide association studies (GWASs) of five fiber quality traits in four environments. A total of 16, 10 and 7 SNPs were associated with fiber length (FL), fiber strength (FS) and fiber uniformity (FU), respectively, based on the mixed linear model (MLM). Most importantly, two major genomic regions (MGR1 and MGR2) on chromosome Dt7 and four potential candidate genes for FL were identified. Analyzing the geographical distribution of favorable haplotypes (FHs) among these lines revealed that two favorable haplotype frequencies (FHFs) were higher in accessions from low-latitude regions than in accessions from high-latitude regions. However, the genetic diversity of lines from the low-latitude regions was lower than the diversity of lines from the high-latitude regions in China. Furthermore, the FHFs differed among cultivars developed during different breeding periods. These results indicate that FHs have undergone artificial selection during upland cotton breeding in recent decades in China and provide a foundation for the further improvement of fiber quality traits.
authors.affiliation: State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, 455000, Anyang, China.|College of Agronomy, Northwest A&F University, 712100 Yangling, China.
authors.forename: Junji
authors.initials: J
authors.lastname: Su
authors.affiliation: State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, 455000, Anyang, China.
authors.forename: Libei
authors.initials: L
authors.lastname: Li
authors.affiliation: State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, 455000, Anyang, China.
authors.forename: Chaoyou
authors.initials: C
authors.lastname: Pang
authors.affiliation: State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, 455000, Anyang, China.
authors.forename: Hengling
authors.initials: H
authors.lastname: Wei
authors.affiliation: State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, 455000, Anyang, China.
authors.forename: Caixiang
authors.initials: C
authors.lastname: Wang
authors.affiliation: State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, 455000, Anyang, China.
authors.forename: Meizhen
authors.initials: M
authors.lastname: Song
authors.affiliation: State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, 455000, Anyang, China.
authors.forename: Hantao
authors.initials: H
authors.lastname: Wang
authors.affiliation: State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, 455000, Anyang, China.
authors.forename: Shuqi
authors.initials: S
authors.lastname: Zhao
authors.affiliation: State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, 455000, Anyang, China.
authors.forename: Chi
authors.initials: C
authors.lastname: Zhang
authors.affiliation: State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, 455000, Anyang, China.
authors.forename: Guangzhi
authors.initials: G
authors.lastname: Mao
authors.affiliation: Bioinformatics Division, Biomarker Technologies Corporation, 101300 Beijing, China.
authors.forename: Long
authors.initials: L
authors.lastname: Huang
authors.affiliation: College of Agronomy, Northwest A&F University, 712100 Yangling, China.
authors.forename: Chengshe
authors.initials: C
authors.lastname: Wang
authors.affiliation: State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, 455000, Anyang, China.
authors.forename: Shuli
authors.initials: S
authors.lastname: Fan
authors.affiliation: State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, 455000, Anyang, China.|College of Agronomy, Northwest A&F University, 712100 Yangling, China.
authors.forename: Shuxun
authors.initials: S
authors.lastname: Yu
mesh_terms: D001947:Breeding; D002681:China; D032461:Chromosomes, Plant / Q000235:genetics; D032561:Cotton Fiber; D017753:Ecosystem; D005828:Genetics, Population; D018745:Genome, Plant; D055106:Genome-Wide Association Study; D005843:Geography; D003368:Gossypium / Q000235:genetics*; D006239:Haplotypes / Q000235:genetics; D015810:Linkage Disequilibrium / Q000235:genetics; D010641:Phenotype; D020641:Polymorphism, Single Nucleotide / Q000235:genetics; D040641:Quantitative Trait Loci / Q000235:genetics; D019655:Quantitative Trait, Heritable