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Front. Plant Sci. | doi: 10.3389/fpls.2018.00375

Genome-Wide Association Study of Cadmium Accumulation at the Seedling Stage in Rapeseed (Brassica napus L.)

 Chen Lunlin1, 2, Wan Heping1, Guo Jianbin1, Sun Chengming1, Wen Jing1,  Bin Yi1,  Chaozhi Ma1,  Jinxing Tu1, Song Laiqiang2, Fu Tingdong1 and  Jinxiong Shen1*
  • 1College of Plant Science and Technology, Huazhong Agricultural University, China
  • 2Crops Research Institute, Jiangxi Academy of Agricultural Sciences (CAAS), China

Cadmium (Cd) is a potentially toxic heavy metal. Rapeseed (Brassica napus L.) is cultivated as a vegetable and for oil production. It may also be a Cd hyperaccumulator, but there is little information on this trait in rapeseed. We evaluated Cd accumulation in different rapeseed accessions and conducted a genome-wide association study (GWAS) to identify Cd accumulation-related quantitative trait loci (QTL). A total of 419 B. napus cultivars and inbred lines were genotyped with a Brassica 60K Illumina Infinium SNP array. Wide genotypic variations in Cd concentration and translocation were found. Twenty-five QTL integrated with 98 single-nucleotide polymorphisms (SNPs) distributed across 15 chromosomes were associated with Cd accumulation traits. They explained 3.49–7.57% of the phenotypic variation observed. Thirty-two candidate genes were identified in these genomic regions and they were 0.33–497.97 kb away from the SNPs. We compared the loci of the significant SNPs we found with those in the Arabidopsis thaliana genome. We found orthologs to those genes in Brassica including NRAMP6, IRT1, CAD1, PCS2, and others. 4 candidate genes were verified by qRT-PCR whitch increasing the express level in roots significantly after exposed to Cd. Our results may facilitate the study of genetic Cd accumulation control and the cloning of candidate Cd accumulation genes for breeding low-Cd or hyperaccumulator rapeseed cultivars.

Keywords: Brassica napus, cadmium (Cd), genome-wide association study (GWAS), Genotypic variations, quantitative trait loci (QTL).

Received: 20 Aug 2017; Accepted: 06 Mar 2018.

Edited by:

Maoteng Li, Huazhong University of Science and Technology, China

Reviewed by:

Harsh Raman, New South Wales Department of Primary Industries, Australia
Kun Lu, Southwest University, China  

Copyright: © 2018 Lunlin, Heping, Jianbin, Chengming, Jing, Yi, Ma, Tu, Laiqiang, Tingdong and Shen. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

* Correspondence: Prof. Jinxiong Shen, Huazhong Agricultural University, College of Plant Science and Technology, Wuhan, 430070, China,