基于关联分析的新陆早棉花品种农艺和纤维品质性状优异等位基因挖掘

doi:10.3864/j.issn.0578-1752.2015.15.001

Abstract

Abstract: 【Objective】Discovery molecular markers associated with agronomic and quality fiber traits in Xinluzao cotton varieties and identification of allelic variation related to these traits and typical materials carrying elite alleles will lay a foundation of mocular design breeding for Xinluzao cotton varieties. 【Method】Seventy-five pairs of SSRs with high polymorphism and uniform distribution on 26 chromosomes were used to scan polymorphism in fifty-one Xinluzao cotton varieties, programming language R was applied to make boxplot for phenotypic traits in different environments, molecular marker data and 15 phenotypic traits were ananlyzed by the method of MLM（mixed linear model）in TASSEL software package on the basis of population structure and linkage disequilibrium analysis, the loci of elite allelic variation and typical materials carrying elite alleles were identified based on phenotypic effect values. 【Result】Fifty-one Xinluzao cotton varieties were divided into four subgroups by analysis of population genetic structure. The BLUP（Best linear unbiased prediction）analysis on fifteen phenotypic traits showed that five traits (first fruit section height, first fruit section pitch number, lint percentage, fiber upper half mean length, short fiber) were very stable and ten traits (plant height, fruit section pitch number, leaf branch number, effective boll number, seed weight lint weight, micronaire value, fiber strength, fiber uniformity, fiber elongation) had stable changing trends in four environments. Through association analysis, a total of one hundred and seventeen allelic variation loci associated with agronomic traits (P＜0.05) were detected, the allelic variation loci with the maximum explanation rate for nine agronomic traits were BNL3650b (plant height, R²=11.78. First fruit section height, R²=20.80. First fruit section pitch number, R²=11.54), NAU3995c (fruit section pitch number, R²=14.86), BNL119b (leaf branch number, R²=9.7), NAU3995d (effective boll number, R²=14.98), BNL3255a (seed weight, R²=11.11), NAU1071a (lint weight, R²=10.15) and BNL663a (lint percentage, R²=12.42), repectively. A total of fifty-five allelic variation loci associated with fiber quality traits (P＜0.05) were detected, the allelic variation loci with the maximum explanation rate for six fiber quality traits were NAU1103b (fiber upper half mean length, R²=6.4), NAU1071a (Fiber strength, R²=7.57), BNL3140b (micronaire value, R²=12.06), BNL3650b (fiber uniformity, R²=13.47), BNL1421a (short fiber，R²=13.04) and BNL2960b (fiber elongation, R²=11.67). A total of thirty-nine loci (P＜0.01) significantly associated with agronomic (twenty-nine loci) and fiber quality (ten loci) traits were detected by association analysis, ranging from 6.45% to 20.8% for explanation rate of phenotypic variation; while, the average was 11.14%, and forty-seven loci related to more than two traits were detected. Seventeen typical materials with elite alleles were identified by phenotypic effect analysis. In this study, twenty-seven QTL reported in previous researches were detected, in which seven QTLs includingBNL3650 (FU), BNL3033 (MV), NAU3254 (FE), GH132 (LP), TMB1618 (FS), BNL1421 (FS,FU), and BNL119 (FE) associated with the same traits compared with the other reported results.【Conclusion】The original fifty-one Xinluzao cotton varieties have simple population genetic structure and low level of linkage disequilibrium, and the changing trend of phenotypic traits in two environmrnt was stable. The association analysis based on SSR revealed some elite alleles that related to agronomic and fiber quality traits and typical materials.

Key words: Xinluzao cotton varieties, agronomic traits, fiber quality, population structure, association analysis, allelic variation

NIE Xin-hui, YOU Chun-yuan, BAO Jian, LI Xiao-fang, HUI Hui, LIU Hong-liang, QIN Jiang-hong, LIN Zhong-xu. Exploration of Elite Alleles of Agronomic and Fiber Quality Traits in Xinluzao Cotton Varieties by Association Analysis[J].Scientia Agricultura Sinica, 2015, 48(15): 2891-2910.

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