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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...

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Autores principales: 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
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2014
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.
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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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