Four favorable alleles of 9 major loci ( R ² ≥ 3) were strongly selected during the breeding stages, and the candidate genes of the four strongly selected alleles were predicated according to the gene function annotation and tissue expression data. One hundred and forty SSR markers significantly associated with ten fiber yield-related traits were identified, among which, 29 markers showed an increasing trend contribution to cotton yield-related traits from BS1 to BS4, and 26 markers showed decreased trend effect. In this study, 503 upland cotton varieties covering the four breeding stages (BS1–BS4, 1911–2011) in China were used for association mapping and domestication analysis. Unravelling the genetic basis of cotton fiber yield-related traits contributes to genetic improvement of cotton. Results from this research will facilitate further understanding the complex mechanisms of yield, fiber, and seed traits of cotton.Ĭotton fiber yield is a complex trait, which can be influenced by multiple agronomic traits. Two-locus epistatic interactions were also observed. Single marker regression analyses indicated STV79-108, on the long arm of chromosome 12 had significant association with lint percentage (RĢ 20.0%). QTL explaining 68.3 (population with FM966) to 87.1% (population with 181) of the phenotypic variation for lint percentage and 62.8% (population with 181) for lint index were detected in the vicinity of BN元482-138 on chromosome 26. , with line 181, fuzzless-linted and with FM966, a fuzzy-linted cultivar, were used. Two F2 populations from crosses of MD17, a fuzzless-lintless line containing three fuzzless loci, N This research detected QTL or molecular markers associated with yield, fiber, and seed traits within multiple fuzz and fiber loci genetic backgrounds.
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