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Multi-Locus GWAS of Quality Traits in Bread Wheat: Mining More Candidate Genes and Possible Regulatory Network

In wheat breeding, improved quality traits, including grain quality and dough rheological properties, have long been a critical goal. To understand the genetic basis of key quality traits of wheat, two single-locus and five multi-locus GWAS models were performed for six grain quality traits and thre...

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Autores principales: Yang, Yang, Chai, Yongmao, Zhang, Xuan, Lu, Shan, Zhao, Zhangchen, Wei, Di, Chen, Liang, Hu, Yin-Gang
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7411135/
https://www.ncbi.nlm.nih.gov/pubmed/32849679
http://dx.doi.org/10.3389/fpls.2020.01091
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author Yang, Yang
Chai, Yongmao
Zhang, Xuan
Lu, Shan
Zhao, Zhangchen
Wei, Di
Chen, Liang
Hu, Yin-Gang
author_facet Yang, Yang
Chai, Yongmao
Zhang, Xuan
Lu, Shan
Zhao, Zhangchen
Wei, Di
Chen, Liang
Hu, Yin-Gang
author_sort Yang, Yang
collection PubMed
description In wheat breeding, improved quality traits, including grain quality and dough rheological properties, have long been a critical goal. To understand the genetic basis of key quality traits of wheat, two single-locus and five multi-locus GWAS models were performed for six grain quality traits and three dough rheological properties based on 19, 254 SNPs in 267 bread wheat accessions. As a result, 299 quantitative trait nucleotides (QTNs) within 105 regions were identified to be associated with these quality traits in four environments. Of which, 40 core QTN regions were stably detected in at least three environments, 19 of which were novel. Compared with the previous studies, these novel QTN regions explained smaller phenotypic variation, which verified the advantages of the multi-locus GWAS models in detecting important small effect QTNs associated with complex traits. After characterization of the function and expression in-depth, 67 core candidate genes involved in protein/sugar synthesis, histone modification and the regulation of transcription factor were observed to be associated with the formation of grain quality, which showed that multi-level regulations influenced wheat grain quality. Finally, a preliminary network of gene regulation that may affect wheat quality formation was inferred. This study verified the power and reliability of multi-locus GWAS methods in wheat quality trait research, and increased the understanding of wheat quality formation mechanisms. The detected QTN regions and candidate genes in this study could be further used for gene cloning and marker-assisted selection in high-quality breeding of bread wheat.
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spelling pubmed-74111352020-08-25 Multi-Locus GWAS of Quality Traits in Bread Wheat: Mining More Candidate Genes and Possible Regulatory Network Yang, Yang Chai, Yongmao Zhang, Xuan Lu, Shan Zhao, Zhangchen Wei, Di Chen, Liang Hu, Yin-Gang Front Plant Sci Plant Science In wheat breeding, improved quality traits, including grain quality and dough rheological properties, have long been a critical goal. To understand the genetic basis of key quality traits of wheat, two single-locus and five multi-locus GWAS models were performed for six grain quality traits and three dough rheological properties based on 19, 254 SNPs in 267 bread wheat accessions. As a result, 299 quantitative trait nucleotides (QTNs) within 105 regions were identified to be associated with these quality traits in four environments. Of which, 40 core QTN regions were stably detected in at least three environments, 19 of which were novel. Compared with the previous studies, these novel QTN regions explained smaller phenotypic variation, which verified the advantages of the multi-locus GWAS models in detecting important small effect QTNs associated with complex traits. After characterization of the function and expression in-depth, 67 core candidate genes involved in protein/sugar synthesis, histone modification and the regulation of transcription factor were observed to be associated with the formation of grain quality, which showed that multi-level regulations influenced wheat grain quality. Finally, a preliminary network of gene regulation that may affect wheat quality formation was inferred. This study verified the power and reliability of multi-locus GWAS methods in wheat quality trait research, and increased the understanding of wheat quality formation mechanisms. The detected QTN regions and candidate genes in this study could be further used for gene cloning and marker-assisted selection in high-quality breeding of bread wheat. Frontiers Media S.A. 2020-07-31 /pmc/articles/PMC7411135/ /pubmed/32849679 http://dx.doi.org/10.3389/fpls.2020.01091 Text en Copyright © 2020 Yang, Chai, Zhang, Lu, Zhao, Wei, Chen and Hu http://creativecommons.org/licenses/by/4.0/ 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(s) 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.
spellingShingle Plant Science
Yang, Yang
Chai, Yongmao
Zhang, Xuan
Lu, Shan
Zhao, Zhangchen
Wei, Di
Chen, Liang
Hu, Yin-Gang
Multi-Locus GWAS of Quality Traits in Bread Wheat: Mining More Candidate Genes and Possible Regulatory Network
title Multi-Locus GWAS of Quality Traits in Bread Wheat: Mining More Candidate Genes and Possible Regulatory Network
title_full Multi-Locus GWAS of Quality Traits in Bread Wheat: Mining More Candidate Genes and Possible Regulatory Network
title_fullStr Multi-Locus GWAS of Quality Traits in Bread Wheat: Mining More Candidate Genes and Possible Regulatory Network
title_full_unstemmed Multi-Locus GWAS of Quality Traits in Bread Wheat: Mining More Candidate Genes and Possible Regulatory Network
title_short Multi-Locus GWAS of Quality Traits in Bread Wheat: Mining More Candidate Genes and Possible Regulatory Network
title_sort multi-locus gwas of quality traits in bread wheat: mining more candidate genes and possible regulatory network
topic Plant Science
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7411135/
https://www.ncbi.nlm.nih.gov/pubmed/32849679
http://dx.doi.org/10.3389/fpls.2020.01091
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