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| Identification of novel soybean oil content-related genes using QTLbased collinearity analysis from the collective soybean genome |
| XU Ming-yue1*, LIU Zhang-xiong2*, QIN Hong-tao1, QI Hui-dong1, WANG Zhong-yu1, MAO Xin-rui1, XIN Da-wei1, HU Zhen-bang1, WU Xiao-xia1, JIANG Hong-wei1, QI Zhao-ming1, CHEN Qing-shan1 |
1 Key Laboratory of Soybean Biology, Ministry of Education/College of Agriculture, Northeast Agricultural University, Harbin 150030, P.R.China
2 National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI)/Key Laboratory of Germplasm Utilization, Ministry of Agriculture/Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, P.R.China |
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摘要
Abstract Soybean is a global principal source of edible plant oil. As more soybean oil-related quantitative trait loci (QTLs) have been located in the collective genome, it is urgent to establish a classification system for these distributed QTLs. A collinear platform may be useful to characterize and identify relationships among QTLs as well as aid in novel gene discovery. In this study, the collinearity MCScanX algorithm and collective soybean genomic information were used to construct collinearity blocks, to which soybean oil-related QTLs were mapped. The results demonstrated that 666 collinearity blocks were detected in the soybean genome across 20 chromosomes, and 521 collinearity relationships existed in 231 of the 242 effective soybean oil-related QTLs. This included 214 inclusion relationships and 307 intersecting relationships. Among them, the collinearity among QTLs that are related to soybean oil content was shown on a maximum of seven chromosomes and minimum of one chromosome, with the majority of QTLs having collinearity on two chromosomes. Using overlapping hotspot regions in the soybean oil QTLs with collinearity, we mined for novel oil content-related genes. Overall, we identified 23 putatively functional genes associated with oil content in soybean and annotated them using a number of annotation databases. Our findings provide a valuable framework for elucidating evolutionary relationships between soybean oil-related QTLs and lay a foundation for functional marker-assisted breeding relating to soybean oil content.
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Received: 22 August 2017
Accepted:
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| Fund: This study was financially supported by the National Key R&D Program of China (2016YFD0100500, 2016YFD0100300, 2016YFD0100201-21), the National Natural Science Foundation of China (31701449, 31471516, 31401465, 31400074, 31501332), the Natural Science Foundation of Heilongjiang Province, China (QC2017013), the Young Innovative Talent Training Plan of Undergraduate Colleges and Universities in Heilongjiang Province, China (UNPYSCT-2016144), the Special Financial Aid to Post-doctor Research Fellow in Heilongjiang, China (To Qi Zhaoming), the Heilongjiang Funds for Distinguished Young Scientists, China (JC2016004), the Outstanding Academic Leaders Projects of Harbin, China (2015RQXXJ018), the China Post Doctoral Project (2015M581419), the Dongnongxuezhe Project, China (to Chen Qingshan), and the Young Talent Project of Northeast Agricultural University, China (to Qi Zhaoming, 518062). |
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Corresponding Authors:
Correspondence CHEN Qing-shan, Tel/Fax: +86-451-55191945, E-mail: qshchen@126.com; QI Zhao-ming, E-mail: qizhaoming1860@126.com
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| About author: XU Ming-yue, E-mail: aaumingyue@qq.com; LIU Zhang-xiong, E-mail: liuzhangxiong@caas.cn; * These authors contributed equally to this study. |
Cite this article:
XU Ming-yue, LIU Zhang-xiong, QIN Hong-tao, QI Hui-dong, WANG Zhong-yu, MAO Xin-rui, XIN Dawei, HU Zhen-bang, WU Xiao-xia, JIANG Hong-wei, QI Zhao-ming, CHEN Qing-shan.
2018.
Identification of novel soybean oil content-related genes using QTLbased collinearity analysis from the collective soybean genome. Journal of Integrative Agriculture, 17(08): 1727-1735.
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