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Genome-wide association study of 29 morphological traits in Aegilops tauschii

Aegilops tauschii is the D-genome progenitor of hexaploid wheat (Triticum aestivum). It is considered to be an important source of genetic variation for wheat breeding, and its genome is an invaluable reference for wheat genomics. We conducted a genome-wide association study using 7,185 single nucle...

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Autores principales: Liu, Yaxi, Wang, Lang, Mao, Shuangshuang, Liu, Kun, Lu, Yanli, Wang, Jirui, Wei, Yuming, Zheng, Youliang
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group 2015
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4622089/
https://www.ncbi.nlm.nih.gov/pubmed/26503608
http://dx.doi.org/10.1038/srep15562
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author Liu, Yaxi
Wang, Lang
Mao, Shuangshuang
Liu, Kun
Lu, Yanli
Wang, Jirui
Wei, Yuming
Zheng, Youliang
author_facet Liu, Yaxi
Wang, Lang
Mao, Shuangshuang
Liu, Kun
Lu, Yanli
Wang, Jirui
Wei, Yuming
Zheng, Youliang
author_sort Liu, Yaxi
collection PubMed
description Aegilops tauschii is the D-genome progenitor of hexaploid wheat (Triticum aestivum). It is considered to be an important source of genetic variation for wheat breeding, and its genome is an invaluable reference for wheat genomics. We conducted a genome-wide association study using 7,185 single nucleotide polymorphism (SNP) markers across 322 diverse accessions of Ae. tauschii that were systematically phenotyped for 29 morphological traits in order to identify marker-trait associations and candidate genes, assess genetic diversity, and classify the accessions based on phenotypic data and genotypic comparison. Using the general linear model and mixed linear model, we identified a total of 18 SNPs significantly associated with 10 morphological traits. Systematic search of the flanking sequences of trait-associated SNPs in public databases identified several genes that may be linked to variations in phenotypes. Cluster analysis using phenotypic data grouped accessions into four clusters, while accessions in the same cluster were not from the same Ae. tauschii subspecies or from the same area of origin. This work establishes a fundamental research platform for association studies in Ae. tauschii and also provides useful information for understanding the genetic mechanism of agronomic traits in wheat.
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spelling pubmed-46220892015-10-29 Genome-wide association study of 29 morphological traits in Aegilops tauschii Liu, Yaxi Wang, Lang Mao, Shuangshuang Liu, Kun Lu, Yanli Wang, Jirui Wei, Yuming Zheng, Youliang Sci Rep Article Aegilops tauschii is the D-genome progenitor of hexaploid wheat (Triticum aestivum). It is considered to be an important source of genetic variation for wheat breeding, and its genome is an invaluable reference for wheat genomics. We conducted a genome-wide association study using 7,185 single nucleotide polymorphism (SNP) markers across 322 diverse accessions of Ae. tauschii that were systematically phenotyped for 29 morphological traits in order to identify marker-trait associations and candidate genes, assess genetic diversity, and classify the accessions based on phenotypic data and genotypic comparison. Using the general linear model and mixed linear model, we identified a total of 18 SNPs significantly associated with 10 morphological traits. Systematic search of the flanking sequences of trait-associated SNPs in public databases identified several genes that may be linked to variations in phenotypes. Cluster analysis using phenotypic data grouped accessions into four clusters, while accessions in the same cluster were not from the same Ae. tauschii subspecies or from the same area of origin. This work establishes a fundamental research platform for association studies in Ae. tauschii and also provides useful information for understanding the genetic mechanism of agronomic traits in wheat. Nature Publishing Group 2015-10-27 /pmc/articles/PMC4622089/ /pubmed/26503608 http://dx.doi.org/10.1038/srep15562 Text en Copyright © 2015, Macmillan Publishers Limited http://creativecommons.org/licenses/by/4.0/ This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/
spellingShingle Article
Liu, Yaxi
Wang, Lang
Mao, Shuangshuang
Liu, Kun
Lu, Yanli
Wang, Jirui
Wei, Yuming
Zheng, Youliang
Genome-wide association study of 29 morphological traits in Aegilops tauschii
title Genome-wide association study of 29 morphological traits in Aegilops tauschii
title_full Genome-wide association study of 29 morphological traits in Aegilops tauschii
title_fullStr Genome-wide association study of 29 morphological traits in Aegilops tauschii
title_full_unstemmed Genome-wide association study of 29 morphological traits in Aegilops tauschii
title_short Genome-wide association study of 29 morphological traits in Aegilops tauschii
title_sort genome-wide association study of 29 morphological traits in aegilops tauschii
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4622089/
https://www.ncbi.nlm.nih.gov/pubmed/26503608
http://dx.doi.org/10.1038/srep15562
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