Meta-analysis of soybean amino acid QTLs and candidate gene mining
Meta-analysis of soybean amino acid QTLs and candidate gene mining
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大豆氨基酸QTL的Meta分析及候选基因挖掘
DOI：
10.1016/s2095-3119(17)61783-0
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发表时间：
2018-05-01
影响因子：
4.8
通讯作者：
Qi Zhao-ming
中科院分区：
文献类型：
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作者：
Gong Qian-chun;Yu Hong-xiao;Qi Zhao-ming
氨基酸的组成和含量影响大豆的蛋白质含量和营养价值，对大豆品质也有重要影响。在整合和校正了140个与大豆蛋白质（http：//www.soybase.org/）氨基酸含量相关的QTL后，进一步分析了138个QTL，确定了高置信度的QTL区域。Meta分析首先使用BioMercator ver. 2.1软件分析，共得到33个共有QTL。一致QTL的置信区间（CI）范围为0.07至19.85 Mb。其次，采用概览法对各QTL的CI进行优化，共定位了57个“真实的”QTL。从Phytozome获得共有QTL区域中的候选基因，并使用基因本体（GO）、京都基因和基因组百科全书（KEGG）、Swissprot和基因注释数据库进行注释。最后，利用Blast软件筛选出16个控制5种氨基酸含量的候选基因。这些结果为大豆氨基酸相关QTL的精细定位和分子标记辅助选择奠定了基础。
The composition and quantity of amino acids influence the protein content and nutritional value of soybeans and also have an important impact upon soybean quality. After integrating and proofreading 140 original QTLs associated with amino acid contentfrom soybase (http://www.soybase.org/), 138 QTLs were further analyzed to determine high-confidence QTL regions. Meta-analysis was first carried out using the BioMercator ver. 2.1 software, yielding 33 consensus QTLs. The consensus QTL confidence intervals (CIs) ranged from 0.07 to 19.85 Mb. Next, the overview method was used to optimize the CIs, and 57 "real" QTLs were mapped. Candidate genes in the consensus QTL regions were obtained from Phytozome and were annotated using the Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), Swissprot, and gene annotation databases. Finally, 16 unpublished candidate genes controlling the content of five types of amino acids were identified with Blast. These results laid the foundation for fine mapping of soybean amino acid-related QTLs and marker-assisted selection.