Abstract
It is of great importance to identify quantitative trait loci (QTL) controlling fiber quality traits and yield components for future marker-assisted selection (MAS) and candidate gene function identifications. In this study, two kinds of traits in 231 F6:8 recombinant inbred lines (RILs), derived from an intraspecific cross between Xinluzao24, a cultivar with elite fiber quality, and Lumianyan28, a cultivar with wide adaptability and high yield potential, were measured in nine environments. This RIL population was genotyped by 122 SSR and 4729 SNP markers, which were also used to construct the genetic map. The map covered 2477.99 cM of hirsutum genome, with an average marker interval of 0.51 cM between adjacent markers. As a result, a total of 134 QTLs for fiber quality traits and 122 QTLs for yield components were detected, with 2.18–24.45 and 1.68–28.27% proportions of the phenotypic variance explained by each QTL, respectively. Among these QTLs, 57 were detected in at least two environments, named stable QTLs. A total of 209 and 139 quantitative trait nucleotides (QTNs) were associated with fiber quality traits and yield components by four multilocus genome-wide association studies methods, respectively. Among these QTNs, 74 were detected by at least two algorithms or in two environments. The candidate genes harbored by 57 stable QTLs were compared with the ones associated with QTN, and 35 common candidate genes were found. Among these common candidate genes, four were possibly “pleiotropic.” This study provided important information for MAS and candidate gene functional studies.
Highlights
Cotton is an important cash crop that provides major natural fiber supply for textile industry and human daily life
An recombinant inbred lines (RILs) population of 231 lines was developed from a cross between two homozygous upland cotton cultivars, Lumianyan28 (LMY28), a commercial transgenic cultivar with high yield potential and wide adaptability developed by the Cotton Research Center of Shandong Academy of Agricultural Sciences as a maternal line, and Xinluzao24 (XLZ24), a high fiber quality upland cotton cultivar with long-staple developed by XinJiang KangDi company as a paternal line
The descriptive statistical analysis showed that all traits in the RIL population performed transgressive segregations, with approximately normal distribution in all the nine environments (Table 1)
Summary
Cotton is an important cash crop that provides major natural fiber supply for textile industry and human daily life. G. hirsutum (2n = 4x = 52, genome size: 2.5 Gb) (Li et al, 2014, 2015; Wendel and Grover, 2015; Zhang et al, 2015), called upland cotton, has a high yield potential, whereas fair fiber quality attributes (Cai et al, 2014), making it most widely cultivated and utilized worldwide, approximately accounting for 95% of global cotton fiber production (Chen et al, 2007). Along with the progress of technologies in textile industry and improvement of human living standard, the demand for cotton fiber supply increases in quantity and is required in a diverse combination of various qualities such as high strength, natural color, various lengths, and fineness. The rapid development of applied genome research provides an effective tool for improving plant breeding efficiency, a typical example of which is the marker-assisted selection (MAS) and genome selection through the molecular markers closely linked to target genes or quantitative trait loci (QTLs)
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