中国野生大豆群体农艺加工性状与SSR关联分析和特异材料的遗传构成

一年生野生大豆(Glycine soja Sieb. et Zucc.)具 有多种优异性状可为栽培种改良所利用, 所以解析 其遗传基础, 发掘优异等位基因及其载体是大豆种 质资源研究的一个重要方向。关联分析为此提供了 工具。关联分析(association analysis), 又称连锁不平 衡 作 图 (LD mapping)或 关 联 作 图 (association mapping), 以群体结构非固定的自然群体为研究对象, 以长期重组后保留下来的基因(位点)间连锁不平衡 (linkage disequilibrium, LD)为基础, 对群体表型数 据和标记基因型数据采用统计方法检测性状可遗传 变异和标记多态性之间的关联。关联分析是发现、 定位基因/QTL, 及对其进行功能分析的重要工具[1], 曾广泛应用于人类遗传学研究[2]。关联分析在群体 水平上探测历史和进化的重组, 作为传统的连锁分 析的一种补充, 具有以下优点: (1)所用的是自然群 体在长期进化中所积累的重组信息, 具有较高的解 析率, 可进行数量性状的全基因组定位。(2)可同时 考察一个基因座的多个等位变异, 实现对自然群体 一个基因座上所有等位变异的解析, 而连锁定位利 用的群体, 每一基因座最多只可涉及双亲的 2 个等 位变异。(3)不需专门构建作图群体, 省时省力, 并 有较大的群体可供利用[3]。当然关联分析检测到的 只是与性状关联的标记, 要将所获得标记落实到连 锁群上的具体位置, 必须与连锁作图相结合。
URL: /kcms/detail/11.1809.S.20130219.1019.001.html
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作物学报
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from linkage mapping procedure. (2)There existed only a few association loci in wild population coincided with those in landrace and released cultivar populations, indicating the difference of genetic structure among the three kinds of populations. (3) A set of elite alleles of detected loci and their carrier materials were screened out. Alleles for loci associated with several traits had different phenotypic effects in different traits, e.g. GMES5532a-A332 had positive phenotypic effect for both 100-seed weight and seedling death rate under submergence, while GMES5532a-A344 had negative effect on 100-seed weight but positive effect on seedling death rate under submergence. (4)There showed great difference of the genetic structure among the tested materials with extreme phenotypic value. The extreme accessions possessed the alleles with bigger effects, such as N23349 containing four alleles with bigger positive effects having its 100-seed weight as high as 9.08 g, while N23387 containing four alleles with bigger negative effects having its 100-seed weight only 0.75 g. The above results implied that association mapping could offer further genetic information complementary to linkage mapping, especially the information of multiple alleles of QTL on whole genome could be used in cross design for pyramiding elite alleles and marker-assisted selection in breeding for soybean. Keywords: Wild soybean (Glycine soja Sieb. et Zucc.); Simple-sequence repeat (SSR); Association analysis; Elite allele
作物学报 ACTA AGRONOMICA SINICA 2013, 39(5): 775−788 ISSN 0496-3490; CODEN TSHPA9
/zwxb/ E-mail: xbzw@
DOI: 10.3724/SP.J.1006.2013.00775
Abstract: Association analysis is potential in genetic dissection of germplasm accessions and breeding materials for designing crosses and improving selection efficiencies. The present study was aimed at finding elite QTLs/alleles as well as their carriers through genetic dissection of agronomic-processing traits in Chinese annual wild soybean (Glycine soja Sieb. et Zucc.) population for improvement and broadening the genetic background of modern soybean cultivars. The genotypic data of 204 simple-sequence repeat (SSR) markers on 174 wild accessions sampled from and evenly distributed in all the wild soybean eco-regions in China were used and analyzed for association with six agronomic and processing traits under TASSEL GLM (general linear model) program based on the population structure analysis. The QTLs significantly associated with the traits were analyzed further for their allele effects. The results showed: (1) Fifty-one SSR loci (times) associated with the six agronomic-processing traits were identified in the wild population. There were a few markers/loci associated with two or more traits simultaneously, which might be the genetic bases of correlation among the traits. Sixteen of fifty-one associated loci (times) were in agreement with mapped QTLs
本研究由国家重点基础研究发展计划(973 计划)项目(2009CB1184, 2010CB1259, 2011CB1093), 国家自然科学基金资助项目(31071442), 教育部高等学校创新引智计划项目(B08025), 江苏省优势学科建设工程专项和国家重点实验室自主课题资助。 * 通讯作者(Corresponding author): 盖钧镒, E-mail: sri@, Tel: 025-84395405 第一作者联系方式: E-mail: fanhu428@ Received(收稿日期): 2012-06-12; Accepted(接受日期): 2012-12-15; Published online(网络出版日期): 2013-02-19.
Association Analysis between Agronomic-Processing Traits and SSR Markers and Genetic Dissection of Specific Accessions in Chinese Wild Soybean Population
FAN Hu, WEN Zi-Xiang, WANG Chun-E, WANG Fang, XING Guang-Nan, ZHAO Tuan-Jie, and GAI Jun-Yi*
Soybean Research Institute of Nanjing Agricultural University / Key Laboratory for Soybean Biology, Genetics and Breeding, Ministry of Agriculture / National Center for Soybean Improvement / National Key Laboratory for Crop Genetics and Germplasm Enhancement, Nanjing 210095, China
中国野生大豆群体农艺加工性状与 SSR 关联分析和特异材料的 遗传构成
范 虎 文自翔 王春娥 王 芳 邢光南 赵团结 盖钧镒*
南京农业大学大豆研究所 / 农业部大豆生物学与遗传育种重点实验室 / 国家大豆改良中心 / 作物遗传与种质创新国家重点实验室, 江苏南京 210095
摘 要: 选用 204 对 SSR 标记对全国野生大豆群体(174 份代表性样本)的基因组扫描, 采用 TASSEL 软件的 GLM (general linear model)方法对百粒重、开花期、成熟期、干豆腐得率、干豆乳得率和耐淹性性状值关联分析, 解析与 性状关联位点的优异等位变异, 鉴别出一批与农艺、加工性状关联的优异等位变异及携带优异等位变异的载体材料; 进一步分析极值表型材料的遗传构成。结果表明: (1)累计 51 个位点(次)与性状关联, 有些标记同时与 2 个或多个性 状相关联, 可能是性状相关的遗传基础; 关联位点中累计 16 位点(次)与连锁分析定位的 QTL 一致; (2)与地方品种群 体和育成品种群体的关联位点比较, 发现野生群体关联位点只有少数与之相同, 群体间育种性状的遗传结构有明显 差异。(3)与多性状关联的位点其等位变异对不同性状的效应方向可相同可不同, 如 GMES5532a-A332 对百粒重和耐 淹性的相对死苗率都是增效效应, 而 GMES5532a-A344 对百粒重是减效效应, 对相对死苗率是增效效应; (4)极值表 型材料间的遗传构成有很大差异。表型值大的材料携带较多增效效应大的位点等位变异, 例如 N23349 的百粒重是 9.08 g, 含有 4 个增效效应较大的位点等位变异; 表型值小的材料携带较多减效效应大的位点等位变异, 如 N23387 的百粒重是 0.75 g, 含有 4 个减效效应较大的位点等位变异。关联作图得到的信息可以弥补连锁定位信息的不足, 尤 其是全基因组位点上复等位变异的信息为育种提供了亲本选配和后代等位条带辅助选择的依据。 关键词: 野生大豆(Glycine soja Sieb. et Zucc.); SSR; 关联分析; 优异等位变异