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Journal of Integrative Agriculture  2020, Vol. 19 Issue (8): 1974-1983    DOI: 10.1016/S2095-3119(19)62783-8
Special Issue: 油料作物合辑Oil Crops
Crop Science Advanced Online Publication | Current Issue | Archive | Adv Search |
Unraveling waterlogging tolerance-related traits with QTL analysis in reciprocal intervarietal introgression lines using genotyping by sequencing in rapeseed (Brassica napus L.)
DING Xiao-yu*, XU Jin-song*, HUANG He, QIAO Xing, SHEN Ming-zhen, CHENG Yong, ZHANG Xue-kun
Key Laboratory of Oil Crop Biology and Genetic Improvement, Ministry of Agriculture and Rural Affairs/Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, Wuhan 430070, P.R.China
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Soil waterlogging is a major environmental stress that suppresses the growth and productivity of rapeseed (Brassica napus L.).  Natural genetic variations in waterlogging tolerance (WT) were observed but no QTL mapping has been done for WT related traits in rapeseed. In this study, QTL associated with three WT related traits including relative root length (RRL), relative hypocotyl length (RHL) and relative fresh weight (RFW) were dissected using a set of reciprocal introgression lines (ILs) derived from the cross GH01×ZS9, which showed significant difference in WT.  Genotyping-by-sequencing (GBS) of the populations were performed, totally 1 468 and 1 450 binned SNPs were identified for GIL (GH01 as the recurrent parent) and ZIL (ZS9 as the recurrent parent) population, respectively.  A total of 66 distinct QTLs for WT at the seedling establishment stage including 31 for RRL, 17 for RHL and 18 for RFW were detected.  Among the 66 QTLs, 20 (29.4%) QTLs were detected in both genetic backgrounds and then they were integrated into six QTL clusters, which can be targeted in rapeseed breeding for improvement of WT through marker-assisted selection (MAS).  Based on the physical positions of SNPs and the functional annotation of the Arabidopsis thaliana genome, 56 genes within the six QTL cluster regions were selected as preliminary candidate genes, then the resequencing and transcriptome information about parents were applied to narrow the extent of candidate genes.  Twelve genes were determined as candidates for the six QTL clusters, some of them involved in RNA/protein degradation, most of them involved in oxidation-reduction process.  These findings provided genetic resources, candidate genes to address the urgent demand of improving WT in rapeseed breeding.
Keywords:  em>Brassica napus        candidate genes       marker-assisted selection        quantitative trait loci mapping        waterlogging tolerance  
Received: 10 April 2019   Accepted:
Fund: This research was funded by the National Key Research and Development Program of China (2017YFD0101700) and the National Natural Science Foundation of China (31301361 and 31171589).
Corresponding Authors:  Correspondence XU Jin-song, E-mail:    
About author:  * These authors contributed equally to this study.

Cite this article: 

DING Xiao-yu, XU Jin-song, HUANG He, QIAO Xing, SHEN Ming-zhen, CHENG Yong, ZHANG Xue-kun. 2020. Unraveling waterlogging tolerance-related traits with QTL analysis in reciprocal intervarietal introgression lines using genotyping by sequencing in rapeseed (Brassica napus L.). Journal of Integrative Agriculture, 19(8): 1974-1983.

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