中国农业科学 ›› 2015, Vol. 48 ›› Issue (15): 2891-2910.doi: 10.3864/j.issn.0578-1752.2015.15.001

• 作物遗传育种·种质资源·分子遗传学 •    下一篇

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

聂新辉1,2,尤春源2,鲍健2,李晓方3,惠慧2,刘洪亮2,秦江鸿2,林忠旭1   

  1. 1华中农业大学植物科学技术学院作物遗传改良国家重点实验室,武汉 430070
    2石河子农业科学研究院棉花研究所,新疆石河子 832000
    3长江大学,湖北荆州 434025
  • 收稿日期:2015-03-24 出版日期:2015-08-01 发布日期:2015-08-01
  • 通讯作者: 林忠旭,E-mail:linzhongxu@mail.hzau.edu.cn
  • 作者简介:聂新辉,E-mail:xjnxh2004130@126.com
  • 基金资助:
    国家公益性行业(农业)科研专项(201303008)、国家“十二五”兵团重点领域科技攻关项目(2011BA001)

Exploration of Elite Alleles of Agronomic and Fiber Quality Traits in Xinluzao Cotton Varieties by Association Analysis

NIE Xin-hui1,2, YOU Chun-yuan2, BAO Jian2, LI Xiao-fang3, HUI Hui2, LIU Hong-liang2, QIN Jiang-hong2, LIN Zhong-xu1   

  1. 1National Key Laboratory of Crop Genetic Improvement, College of Plant Science & Technology of Huazhong Agricultural University, Wuhan 430070
    2 Cotton Institute, Shihezi Academy of Agricultural Sciences, Shihezi 832000, Xinjiang
    3Yangtze University, Jingzhou 434025, Hubei
  • Received:2015-03-24 Online:2015-08-01 Published:2015-08-01

摘要: 【目的】寻找与新陆早棉花品种农艺和纤维品质性状相关联的分子标记,鉴别与这些性状相关的优异等位变异及携带优异等位变异基因的典型载体材料,为新陆早棉花品种分子设计育种奠定基础。【方法】利用筛选出分布于26条染色体且多态性高的75对SSR标记对51份新陆早棉花品种进行多态性扫描;采用R语言编程软件对多环境的表型性状绘制boxplot图;在对供试材料进行群体结构和连锁不平衡分析的基础上,利用TASSEL软件中MLM(mixed linear model)方法进行分子标记与15个性状的关联分析;依据计算的表型效应值,鉴别和统计优异等位变异的位点及典型材料。【结果】通过群体遗传结构分析将51份新陆早棉花品种划分为4个亚群结构。针对15个表现型性状的BLUP(best linear unbiased prediction)结果进行统计和分析,鉴别出极显著和显著相关的性状。分析结果显示,在4种环境条件下,棉花5个性状(果枝始节高、果枝始节数、衣分、纤维上半部长度和短纤维率)变化趋势稳定,10个性状(株高、果枝数、叶枝数、有效铃数、单铃籽棉重、单铃皮棉重、马克隆值、比强度、纤维整齐度和纤维伸长率)较稳定。通过关联分析,获得与农艺性状相关的等位变异位点117个(P<0.05),其中对9个农艺性状贡献率(R2)最大的等位变异位点分别为:BNL3650b(株高,R2=11.78;果枝始节高,R2=20.80;果枝始节数,R2=11.54)、NAU3995c(果枝数,R2=14.86)、BNL119b(叶枝数,R2=9.7)、NAU3995d(有效铃数,R2=14.98)、BNL3255a (单铃籽棉重,R2=11.11)、NAU1071a(单铃皮棉重,R2=10.15)和BNL663a(衣分,R2=12.42)。与纤维品质相关的等位变异位点55个(P<0.05),其中分别对6个纤维品质性状贡献率最大的等位变异位点为:NAU1103b(纤维上半部长度,R2=6.4)、NAU1071a(纤维比强度,R2=7.57)、BNL3140b(马克隆值,R2=12.06)、BNL3650b(纤维整齐度,R2=13.47)、BNL1421a(短纤维率,R2=13.04)和BNL2960b(纤维伸长率,R2=11.67)。共检测到39个与农艺(29个)和纤维品质(10个)性状相关的位点(P<0.01),对表型变异解释率范围为6.45%—20.8%,平均值为11.14%,同时检测到与2个以上性状相关联的位点47个。携带优异等位变异基因的典型材料共计17份。通过与已经报道的棉花农艺和纤维品质性状相关的QTL(quantitative trait loci)比较,检测的27个QTL在前人研究中已经报道,其中BNL3650(纤维整齐度)、BNL3033(马克隆值)、NAU3254(纤维伸长率)、GH132(衣分)、TMB1618(比强度)、BNL1421(比强度和纤维整齐度)和BNL119(纤维伸长率)7个QTL具有相同的关联性状。【结论】51份原种新陆早棉花品种的群体遗传结构简单,连锁不平衡水平低,表型性状在2种环境条件下变化趋势较稳定。基于SSR的关联分析,发掘了一些与农艺和纤维品质相关的优异等位变异基因及典型材料。

关键词: 新陆早棉花品种, 农艺性状, 纤维品质, 群体结构, 关联分析, 等位变异

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