Construction of high-density genetic map and QTL mapping of yield-related and two quality traits in soybean RILs population by RAD-sequencing.
Construction of high-density genetic map and QTL mapping of yield-related and two quality traits in soybean RILs population by RAD-sequencing.
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DOI：
10.1186/s12864-017-3854-8
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发表时间：
2017-06-19
期刊：
影响因子：
4.4
通讯作者：
Nian H
中科院分区：
文献类型：
--
作者：
Liu N;Li M;Hu X;Ma Q;Mu Y;Tan Z;Xia Q;Zhang G;Nian H
大豆育种的首要目标之一是培育出产量增加与品质性状改善相结合的品系。高密度标记QTL定位可以作为一种有效的策略来识别新的基因组信息，以促进作物改良。本研究采用限制性内切酶相关DNA测序(RAD-SEQ)方法对重组自交系(RIL)群体(中黄24×华夏3号)进行了基因分型。构建了高密度大豆遗传图谱，并利用该图谱定位了影响6个产量相关性状和2个品质性状的多个QTL。共检测到47472个单核苷酸多态(SNPs)，整合到2639个重组bin单元中，相邻标记之间的平均距离为1.00 cM。在两年的研究中，在16条染色体上发现了47个与产量有关的QTL和13个与籽粒品质有关的QTL。其中18个QTL稳定，在两个分析中均被检测到。首次检测到26个QTL，其中一个位于56kb区域的QTL(QNN19a)解释了32.56%的表型变异，其中10个是新的、稳定的QTL。此外，还在4条不同染色体上定位了8个QTL火锅，用于检测相关性状。通过RAD测序，在新的高密度仓位连锁图谱的基础上，定位了一些新的QTL和重要的产量和品质性状QTL簇。三个预测基因被选为可能对大豆产量和品质有直接或间接影响的候选基因。我们的发现将有助于理解共定位性状的共同遗传控制机制，并为进一步分析大豆品种以预测同时调节大豆产量和品质奠定基础。本文的在线版本(doi：10.1186/s12864-0173854-8)包含补充材料，授权用户可以使用。
One of the overarching goals of soybean breeding is to develop lines that combine increased yield with improved quality characteristics. High-density-marker QTL mapping can serve as an effective strategy to identify novel genomic information to facilitate crop improvement. In this study, we genotyped a recombinant inbred line (RIL) population (Zhonghuang 24 × Huaxia 3) using a restriction-site associated DNA sequencing (RAD-seq) approach. A high-density soybean genetic map was constructed and used to identify several QTLs that were shown to influence six yield-related and two quality traits. A total of 47,472 single-nucleotide polymorphisms (SNPs) were detected for the RILs that were integrated into 2639 recombination bin units, with an average distance of 1.00 cM between adjacent markers. Forty seven QTLs for yield-related traits and 13 QTLs for grain quality traits were found to be distributed on 16 chromosomes in the 2 year studies. Among them, 18 QTLs were stable, and were identified in both analyses. Twenty six QTLs were identified for the first time, with a single QTL (qNN19a) in a 56 kb region explaining 32.56% of phenotypic variation, and an additional 10 of these were novel, stable QTLs. Moreover, 8 QTL hotpots on four different chromosomes were identified for the correlated traits. With RAD-sequencing, some novel QTLs and important QTL clusters for both yield-related and quality traits were identified based on a new, high-density bin linkage map. Three predicted genes were selected as candidates that likely have a direct or indirect influence on both yield and quality in soybean. Our findings will be helpful for understanding common genetic control mechanisms of co-localized traits and to select cultivars for further analysis to predictably modulate soybean yield and quality simultaneously. The online version of this article (doi:10.1186/s12864-017-3854-8) contains supplementary material, which is available to authorized users.