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DNA Res. 2014 Aug;21(4):355-67. doi: 10.1093/dnares/dsu002. Epub 2014 Feb 7.

Genome-wide association study dissects the genetic architecture of seed weight and seed quality in rapeseed (Brassica napus L.).

Author information

  • 1Oil Crop Research Institute, Chinese Academy of Agricultural Sciences, Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, No. 2 Xudong Second Road, Hubei Province, Wuhan 430062, China.
  • 2Department of Biology, University of York, York, UK.
  • 3John Innes Centre, Norwich Research Park, Norwich NR4 7UH, UK.
  • 4Oil Crop Research Institute, Chinese Academy of Agricultural Sciences, Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, No. 2 Xudong Second Road, Hubei Province, Wuhan 430062, China wuxm@oilcrops.cn.

Abstract

Association mapping can quickly and efficiently dissect complex agronomic traits. Rapeseed is one of the most economically important polyploid oil crops, although its genome sequence is not yet published. In this study, a recently developed 60K Brassica Infinium(®) SNP array was used to analyse an association panel with 472 accessions. The single-nucleotide polymorphisms (SNPs) of the array were in silico mapped using 'pseudomolecules' representative of the genome of rapeseed to establish their hypothetical order and to perform association mapping of seed weight and seed quality. As a result, two significant associations on A8 and C3 of Brassica napus were detected for erucic acid content, and the peak SNPs were found to be only 233 and 128 kb away from the key genes BnaA.FAE1 and BnaC.FAE1. BnaA.FAE1 was also identified to be significantly associated with the oil content. Orthologues of Arabidopsis thaliana HAG1 were identified close to four clusters of SNPs associated with glucosinolate content on A9, C2, C7 and C9. For seed weight, we detected two association signals on A7 and A9, which were consistent with previous studies of quantitative trait loci mapping. The results indicate that our association mapping approach is suitable for fine mapping of the complex traits in rapeseed.

© The Author 2014. Published by Oxford University Press on behalf of Kazusa DNA Research Institute.

KEYWORDS:

Brassica napus; SNP; association mapping; seed quality; seed weight

PMID:
24510440
[PubMed - in process]
PMCID:
PMC4131830
Free PMC Article
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