Identification of Novel Marker–Trait Associations for Lint Yield Contributing Traits in Upland Cotton (Gossypium hirsutum L.) Using SSRs

Abstract

Improving the yield of lint is the main objective for most of the cotton crop improvement programs throughout the world as it meets the demand of fiber for textile industries. In the current study, 96 genotypes of Gossypium hirsutum were used to find novel simple sequence repeat marker-based associations for lint yield contributing traits by linkage disequilibrium. Extensive phenotyping of 96 genotypes for various agronomic traits was done for two consecutive years (2018 and 2019) in early, normal, and late sown environments. Out of 168 SSR markers screened over the 96 genotypes, a total of 97 polymorphic markers containing 293 alleles were used for analysis. Three different models, i.e., mixed linear model (MLM), compressed mixed linear model (CMLM), and multiple locus mixed linear model (MLMM), were used to detect the significant marker–trait associations for six different environments separately. A total of 38 significant marker–trait associations that were common to at least two environments were considered as promising associations and detailed annotation of the significant markers has been carried out. Twenty-two marker–trait associations were found to be novel in the current study. These results will be very useful for crop improvement programs using marker-assisted cotton breeding.

Genetic analysis of yield traits in Egyptian cotton crosses (Gossypium barbdense L.) under normal conditions

“…Similar patterns of correlation were reported in previous studies by [3,4,15,22,23,90,[92][93][94][95]. Boll weight showed a negative correlation with NB in all three environments [96]. Likewise, significant, and positive association between BW and NSB is highly beneficial since increase in boll weight will increase the number of seeds per boll, which in turn will result in increased surface area, enhancing the maximum lint percentage.…”

Estimating the combining ability and genetic parameters for growth habit, yield, and fiber quality traits in some Egyptian cotton crosses

“…A similar correlation pattern has been reported in previous studies [ 79 – 84 ]. FFN showed a negative correlation with FF [ 7 , 16 , 20 , 24 , 80 ]. Similarly, the significant and positive correlation between No.…”

Genome-wide association study of fiber yield-related traits uncovers the novel genomic regions and candidate genes in Indian upland cotton (Gossypium hirsutum L.)

“…Population size has a great impact on association mapping studies, and it has been reported that a relatively large population size ensures sufficient genetic variation, thereby influencing the detection of significant QTLs ( Su et al., 2016 ; Huang et al., 2017 ). Population sizes ranging from 95 to 800 have been previously studied in upland cotton in association studies ( Gapare et al., 2017 ; Sun Z. et al., 2017 ; Dong et al., 2019 ; Kumar et al., 2021 ). Although our population size of 117 released varieties from different agro-climatic zones was not sufficiently large, they are suitable for mapping analysis because they stabilize after many years of genetic recombination ( Nordborg et al., 2002 ).…”