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Genome-Wide Association Study on Root System Architecture and Identification of Candidate Genes in Wheat (Triticum aestivum L.)

The root tissues play important roles in water and nutrient acquisition, environmental adaptation, and plant development. In this study, a diversity panel of 388 wheat accessions was collected to investigate nine root system architecture (RSA) traits at the three-leaf stage under two growing environ...

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Autores principales: Ma, Jianhui, Zhao, Dongyang, Tang, Xiaoxiao, Yuan, Meng, Zhang, Daijing, Xu, Mengyuan, Duan, Yingze, Ren, Haiyue, Zeng, Qingdong, Wu, Jianhui, Han, Dejun, Li, Tian, Jiang, Lina
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8836572/
https://www.ncbi.nlm.nih.gov/pubmed/35163763
http://dx.doi.org/10.3390/ijms23031843
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author Ma, Jianhui
Zhao, Dongyang
Tang, Xiaoxiao
Yuan, Meng
Zhang, Daijing
Xu, Mengyuan
Duan, Yingze
Ren, Haiyue
Zeng, Qingdong
Wu, Jianhui
Han, Dejun
Li, Tian
Jiang, Lina
author_facet Ma, Jianhui
Zhao, Dongyang
Tang, Xiaoxiao
Yuan, Meng
Zhang, Daijing
Xu, Mengyuan
Duan, Yingze
Ren, Haiyue
Zeng, Qingdong
Wu, Jianhui
Han, Dejun
Li, Tian
Jiang, Lina
author_sort Ma, Jianhui
collection PubMed
description The root tissues play important roles in water and nutrient acquisition, environmental adaptation, and plant development. In this study, a diversity panel of 388 wheat accessions was collected to investigate nine root system architecture (RSA) traits at the three-leaf stage under two growing environments: outdoor pot culture (OPC) and indoor pot culture (IPC). Phenotypic analysis revealed that root development was faster under OPC than that under IPC and a significant correlation was observed between the nine RSA traits. The 660K single-nucleotide polymorphism (SNP) chip was used for a genome-wide association study (GWAS). Significant SNPs with a threshold of −log(10) (p-value) ≥ 4 were considered. Thus, 36 quantitative trait loci (QTLs), including 13 QTL clusters that were associated with more than one trait, were detected, and 31 QTLs were first identified. The QTL clusters on chromosomes 3D and 5B were associated with four and five RSA traits, respectively. Two candidate genes, TraesCS2A01G516200 and TraesCS7B01G036900, were found to be associated with more than one RSA trait using haplotype analysis, and preferentially expressed in the root tissues. These favourable alleles for RSA traits identified in this study may be useful to optimise the root system in wheat.
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spelling pubmed-88365722022-02-12 Genome-Wide Association Study on Root System Architecture and Identification of Candidate Genes in Wheat (Triticum aestivum L.) Ma, Jianhui Zhao, Dongyang Tang, Xiaoxiao Yuan, Meng Zhang, Daijing Xu, Mengyuan Duan, Yingze Ren, Haiyue Zeng, Qingdong Wu, Jianhui Han, Dejun Li, Tian Jiang, Lina Int J Mol Sci Article The root tissues play important roles in water and nutrient acquisition, environmental adaptation, and plant development. In this study, a diversity panel of 388 wheat accessions was collected to investigate nine root system architecture (RSA) traits at the three-leaf stage under two growing environments: outdoor pot culture (OPC) and indoor pot culture (IPC). Phenotypic analysis revealed that root development was faster under OPC than that under IPC and a significant correlation was observed between the nine RSA traits. The 660K single-nucleotide polymorphism (SNP) chip was used for a genome-wide association study (GWAS). Significant SNPs with a threshold of −log(10) (p-value) ≥ 4 were considered. Thus, 36 quantitative trait loci (QTLs), including 13 QTL clusters that were associated with more than one trait, were detected, and 31 QTLs were first identified. The QTL clusters on chromosomes 3D and 5B were associated with four and five RSA traits, respectively. Two candidate genes, TraesCS2A01G516200 and TraesCS7B01G036900, were found to be associated with more than one RSA trait using haplotype analysis, and preferentially expressed in the root tissues. These favourable alleles for RSA traits identified in this study may be useful to optimise the root system in wheat. MDPI 2022-02-06 /pmc/articles/PMC8836572/ /pubmed/35163763 http://dx.doi.org/10.3390/ijms23031843 Text en © 2022 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Ma, Jianhui
Zhao, Dongyang
Tang, Xiaoxiao
Yuan, Meng
Zhang, Daijing
Xu, Mengyuan
Duan, Yingze
Ren, Haiyue
Zeng, Qingdong
Wu, Jianhui
Han, Dejun
Li, Tian
Jiang, Lina
Genome-Wide Association Study on Root System Architecture and Identification of Candidate Genes in Wheat (Triticum aestivum L.)
title Genome-Wide Association Study on Root System Architecture and Identification of Candidate Genes in Wheat (Triticum aestivum L.)
title_full Genome-Wide Association Study on Root System Architecture and Identification of Candidate Genes in Wheat (Triticum aestivum L.)
title_fullStr Genome-Wide Association Study on Root System Architecture and Identification of Candidate Genes in Wheat (Triticum aestivum L.)
title_full_unstemmed Genome-Wide Association Study on Root System Architecture and Identification of Candidate Genes in Wheat (Triticum aestivum L.)
title_short Genome-Wide Association Study on Root System Architecture and Identification of Candidate Genes in Wheat (Triticum aestivum L.)
title_sort genome-wide association study on root system architecture and identification of candidate genes in wheat (triticum aestivum l.)
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8836572/
https://www.ncbi.nlm.nih.gov/pubmed/35163763
http://dx.doi.org/10.3390/ijms23031843
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