Genotyping-by-sequencing based intra-specific genetic map refines a ''QTL-hotspot" region for drought tolerance in chickpea.
Genotyping-by-sequencing based intra-specific genetic map refines a ''QTL-hotspot" region for drought tolerance in chickpea.
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DOI：
10.1007/s00438-014-0932-3
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发表时间：
2015-04
期刊：
影响因子：
--
通讯作者：
Varshney RK
中科院分区：
文献类型：
--
作者：
Jaganathan D;Thudi M;Kale S;Azam S;Roorkiwal M;Gaur PM;Kishor PB;Nguyen H;Sutton T;Varshney RK
为了提高鹰嘴豆重组自交系(RIL)群体ICC4958×ICC1882中04连锁群(CaLG04)上多个抗旱相关性状的QTL-热点区域的标记密度，采用了测序基因分型的方法。总共产生了ICC4958的6.24亿GB数据、ICC1882的5.65亿GB数据和RILS的59.03亿GB数据，共鉴定了828个新的单核苷酸多态(SNPs)，用于遗传作图。与这些新标记一起，开发了一个高密度的种内遗传图谱，该图谱由1,007个标记座位组成，跨越727.29 cM的距离。利用扩展的遗传图谱进行QTL分析，结合一到七个季节收集的20个性状的精确表型数据，在“QTL热点”区域发现了49个SNP标记。这些努力已经将“QTL-热点”区域细化到1400 cM。共检测到164个主效QTL，其中包括24个新的QTL。此外，将整合在QTL热点区域的49个SNP转化为切割扩增多态序列(CAPS)和衍生CAPS(DCAPS)标记，可用于分子标记辅助育种。本文的在线版本(doi：10.1007/s00438-0140932-3)包含补充材料，授权用户可以使用。
To enhance the marker density in the “QTL-hotspot” region, harboring several QTLs for drought tolerance-related traits identified on linkage group 04 (CaLG04) in chickpea recombinant inbred line (RIL) mapping population ICC 4958 × ICC 1882, a genotyping-by-sequencing approach was adopted. In total, 6.24 Gb data from ICC 4958, 5.65 Gb data from ICC 1882 and 59.03 Gb data from RILs were generated, which identified 828 novel single-nucleotide polymorphisms (SNPs) for genetic mapping. Together with these new markers, a high-density intra-specific genetic map was developed that comprised 1,007 marker loci spanning a distance of 727.29 cM. QTL analysis using the extended genetic map along with precise phenotyping data for 20 traits collected over one to seven seasons identified 49 SNP markers in the “QTL-hotspot” region. These efforts have refined the “QTL-hotspot” region to 14 cM. In total, 164 main-effect QTLs including 24 novel QTLs were identified. In addition, 49 SNPs integrated in the “QTL-hotspot” region were converted into cleaved amplified polymorphic sequence (CAPS) and derived CAPS (dCAPS) markers which can be used in marker-assisted breeding. The online version of this article (doi:10.1007/s00438-014-0932-3) contains supplementary material, which is available to authorized users.
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