Cargando…

Unravelling the Genetic Architecture of Rust Resistance in the Common Bean (Phaseolus vulgaris L.) by Combining QTL-Seq and GWAS Analysis

The common bean (Phaseolus vulgaris L.) is the most important legume crop directly used for human consumption worldwide. Bean rust, caused by Uromyces appendiculatus, is a devastating disease and usually causes severe loss of seed yield and pod quality. Deployment of resistant cultivars is the best...

Descripción completa

Detalles Bibliográficos
Autores principales: Wu, Xinyi, Wang, Baogen, Xin, Yan, Wang, Ying, Tian, Shuo, Wang, Jian, Wu, Xiaohua, Lu, Zhongfu, Qi, Xinjiang, Xu, Liming, Li, Guojing
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9002482/
https://www.ncbi.nlm.nih.gov/pubmed/35406934
http://dx.doi.org/10.3390/plants11070953
_version_ 1784685900668600320
author Wu, Xinyi
Wang, Baogen
Xin, Yan
Wang, Ying
Tian, Shuo
Wang, Jian
Wu, Xiaohua
Lu, Zhongfu
Qi, Xinjiang
Xu, Liming
Li, Guojing
author_facet Wu, Xinyi
Wang, Baogen
Xin, Yan
Wang, Ying
Tian, Shuo
Wang, Jian
Wu, Xiaohua
Lu, Zhongfu
Qi, Xinjiang
Xu, Liming
Li, Guojing
author_sort Wu, Xinyi
collection PubMed
description The common bean (Phaseolus vulgaris L.) is the most important legume crop directly used for human consumption worldwide. Bean rust, caused by Uromyces appendiculatus, is a devastating disease and usually causes severe loss of seed yield and pod quality. Deployment of resistant cultivars is the best strategy to combat this disease. However, despite being the largest snap bean-producing country, the genetic basis research of rust resistance has largely lagged in China. In this study, an RIL population and a diversity panel were evaluated for rust resistance against a purified rust isolate Cua-LS using a detached leaf assay. Deploying a QTL-Seq analysis in the RIL population, a 1.81 Mb interval on chromosome 4, a 2.73 Mb interval on chromosome 5 and a 1.26 Mb interval on chromosome 6 were identified as major QTLs for rust resistance, designated as Qur-1, Qur-2 and Qur-3, respectively. Through a GWAS diversity panel, 64 significant SNPs associated with rust resistance were detected, distributed in all 11 chromosomes and explaining 19–49% of the phenotypic variation. Synteny analysis showed that Qur-2 was validated in GWAS, but the rust QTL/SNPs detected in our study were different from the known genes, except Ur-11. A total of 114 candidate genes, including the typical NBS-LRR genes, protein kinase superfamily proteins and ABC transporter family proteins, were identified and proposed as the likely candidates. The identified 17 resistant accessions will enrich the resistant germplasm resources, and the detected QTLs/SNPs will facilitate the molecular breeding of rust resistance in the common bean.
format Online
Article
Text
id pubmed-9002482
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher MDPI
record_format MEDLINE/PubMed
spelling pubmed-90024822022-04-13 Unravelling the Genetic Architecture of Rust Resistance in the Common Bean (Phaseolus vulgaris L.) by Combining QTL-Seq and GWAS Analysis Wu, Xinyi Wang, Baogen Xin, Yan Wang, Ying Tian, Shuo Wang, Jian Wu, Xiaohua Lu, Zhongfu Qi, Xinjiang Xu, Liming Li, Guojing Plants (Basel) Article The common bean (Phaseolus vulgaris L.) is the most important legume crop directly used for human consumption worldwide. Bean rust, caused by Uromyces appendiculatus, is a devastating disease and usually causes severe loss of seed yield and pod quality. Deployment of resistant cultivars is the best strategy to combat this disease. However, despite being the largest snap bean-producing country, the genetic basis research of rust resistance has largely lagged in China. In this study, an RIL population and a diversity panel were evaluated for rust resistance against a purified rust isolate Cua-LS using a detached leaf assay. Deploying a QTL-Seq analysis in the RIL population, a 1.81 Mb interval on chromosome 4, a 2.73 Mb interval on chromosome 5 and a 1.26 Mb interval on chromosome 6 were identified as major QTLs for rust resistance, designated as Qur-1, Qur-2 and Qur-3, respectively. Through a GWAS diversity panel, 64 significant SNPs associated with rust resistance were detected, distributed in all 11 chromosomes and explaining 19–49% of the phenotypic variation. Synteny analysis showed that Qur-2 was validated in GWAS, but the rust QTL/SNPs detected in our study were different from the known genes, except Ur-11. A total of 114 candidate genes, including the typical NBS-LRR genes, protein kinase superfamily proteins and ABC transporter family proteins, were identified and proposed as the likely candidates. The identified 17 resistant accessions will enrich the resistant germplasm resources, and the detected QTLs/SNPs will facilitate the molecular breeding of rust resistance in the common bean. MDPI 2022-03-31 /pmc/articles/PMC9002482/ /pubmed/35406934 http://dx.doi.org/10.3390/plants11070953 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
Wu, Xinyi
Wang, Baogen
Xin, Yan
Wang, Ying
Tian, Shuo
Wang, Jian
Wu, Xiaohua
Lu, Zhongfu
Qi, Xinjiang
Xu, Liming
Li, Guojing
Unravelling the Genetic Architecture of Rust Resistance in the Common Bean (Phaseolus vulgaris L.) by Combining QTL-Seq and GWAS Analysis
title Unravelling the Genetic Architecture of Rust Resistance in the Common Bean (Phaseolus vulgaris L.) by Combining QTL-Seq and GWAS Analysis
title_full Unravelling the Genetic Architecture of Rust Resistance in the Common Bean (Phaseolus vulgaris L.) by Combining QTL-Seq and GWAS Analysis
title_fullStr Unravelling the Genetic Architecture of Rust Resistance in the Common Bean (Phaseolus vulgaris L.) by Combining QTL-Seq and GWAS Analysis
title_full_unstemmed Unravelling the Genetic Architecture of Rust Resistance in the Common Bean (Phaseolus vulgaris L.) by Combining QTL-Seq and GWAS Analysis
title_short Unravelling the Genetic Architecture of Rust Resistance in the Common Bean (Phaseolus vulgaris L.) by Combining QTL-Seq and GWAS Analysis
title_sort unravelling the genetic architecture of rust resistance in the common bean (phaseolus vulgaris l.) by combining qtl-seq and gwas analysis
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9002482/
https://www.ncbi.nlm.nih.gov/pubmed/35406934
http://dx.doi.org/10.3390/plants11070953
work_keys_str_mv AT wuxinyi unravellingthegeneticarchitectureofrustresistanceinthecommonbeanphaseolusvulgarislbycombiningqtlseqandgwasanalysis
AT wangbaogen unravellingthegeneticarchitectureofrustresistanceinthecommonbeanphaseolusvulgarislbycombiningqtlseqandgwasanalysis
AT xinyan unravellingthegeneticarchitectureofrustresistanceinthecommonbeanphaseolusvulgarislbycombiningqtlseqandgwasanalysis
AT wangying unravellingthegeneticarchitectureofrustresistanceinthecommonbeanphaseolusvulgarislbycombiningqtlseqandgwasanalysis
AT tianshuo unravellingthegeneticarchitectureofrustresistanceinthecommonbeanphaseolusvulgarislbycombiningqtlseqandgwasanalysis
AT wangjian unravellingthegeneticarchitectureofrustresistanceinthecommonbeanphaseolusvulgarislbycombiningqtlseqandgwasanalysis
AT wuxiaohua unravellingthegeneticarchitectureofrustresistanceinthecommonbeanphaseolusvulgarislbycombiningqtlseqandgwasanalysis
AT luzhongfu unravellingthegeneticarchitectureofrustresistanceinthecommonbeanphaseolusvulgarislbycombiningqtlseqandgwasanalysis
AT qixinjiang unravellingthegeneticarchitectureofrustresistanceinthecommonbeanphaseolusvulgarislbycombiningqtlseqandgwasanalysis
AT xuliming unravellingthegeneticarchitectureofrustresistanceinthecommonbeanphaseolusvulgarislbycombiningqtlseqandgwasanalysis
AT liguojing unravellingthegeneticarchitectureofrustresistanceinthecommonbeanphaseolusvulgarislbycombiningqtlseqandgwasanalysis