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Genome-Wide Association Study Dissects the Genetic Architecture of Seed Weight and Seed Quality in Rapeseed (Brassica napus L.)
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 a...
Autores principales: | , , , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2014
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4131830/ https://www.ncbi.nlm.nih.gov/pubmed/24510440 http://dx.doi.org/10.1093/dnares/dsu002 |
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author | Li, Feng Chen, Biyun Xu, Kun Wu, Jinfeng Song, Weilin Bancroft, Ian Harper, Andrea L. Trick, Martin Liu, Shengyi Gao, Guizhen Wang, Nian Yan, Guixin Qiao, Jiangwei Li, Jun Li, Hao Xiao, Xin Zhang, Tianyao Wu, Xiaoming |
author_facet | Li, Feng Chen, Biyun Xu, Kun Wu, Jinfeng Song, Weilin Bancroft, Ian Harper, Andrea L. Trick, Martin Liu, Shengyi Gao, Guizhen Wang, Nian Yan, Guixin Qiao, Jiangwei Li, Jun Li, Hao Xiao, Xin Zhang, Tianyao Wu, Xiaoming |
author_sort | Li, Feng |
collection | PubMed |
description | 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. |
format | Online Article Text |
id | pubmed-4131830 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2014 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-41318302014-08-18 Genome-Wide Association Study Dissects the Genetic Architecture of Seed Weight and Seed Quality in Rapeseed (Brassica napus L.) Li, Feng Chen, Biyun Xu, Kun Wu, Jinfeng Song, Weilin Bancroft, Ian Harper, Andrea L. Trick, Martin Liu, Shengyi Gao, Guizhen Wang, Nian Yan, Guixin Qiao, Jiangwei Li, Jun Li, Hao Xiao, Xin Zhang, Tianyao Wu, Xiaoming DNA Res Full Papers 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. Oxford University Press 2014-08 2014-02-07 /pmc/articles/PMC4131830/ /pubmed/24510440 http://dx.doi.org/10.1093/dnares/dsu002 Text en © The Author 2014. Published by Oxford University Press on behalf of Kazusa DNA Research Institute. http://creativecommons.org/licenses/by-nc/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com |
spellingShingle | Full Papers Li, Feng Chen, Biyun Xu, Kun Wu, Jinfeng Song, Weilin Bancroft, Ian Harper, Andrea L. Trick, Martin Liu, Shengyi Gao, Guizhen Wang, Nian Yan, Guixin Qiao, Jiangwei Li, Jun Li, Hao Xiao, Xin Zhang, Tianyao Wu, Xiaoming Genome-Wide Association Study Dissects the Genetic Architecture of Seed Weight and Seed Quality in Rapeseed (Brassica napus L.) |
title | Genome-Wide Association Study Dissects the Genetic Architecture of Seed Weight and Seed Quality in Rapeseed (Brassica napus L.) |
title_full | Genome-Wide Association Study Dissects the Genetic Architecture of Seed Weight and Seed Quality in Rapeseed (Brassica napus L.) |
title_fullStr | Genome-Wide Association Study Dissects the Genetic Architecture of Seed Weight and Seed Quality in Rapeseed (Brassica napus L.) |
title_full_unstemmed | Genome-Wide Association Study Dissects the Genetic Architecture of Seed Weight and Seed Quality in Rapeseed (Brassica napus L.) |
title_short | Genome-Wide Association Study Dissects the Genetic Architecture of Seed Weight and Seed Quality in Rapeseed (Brassica napus L.) |
title_sort | genome-wide association study dissects the genetic architecture of seed weight and seed quality in rapeseed (brassica napus l.) |
topic | Full Papers |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4131830/ https://www.ncbi.nlm.nih.gov/pubmed/24510440 http://dx.doi.org/10.1093/dnares/dsu002 |
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