Genome‐wide association analysis of drought resistance based on seed germination vigor and germination rate at the bud stage in common bean

Abstract

Common bean (Phaseolus vulgaris L.) is an important food legume. However, drought influences its entire growth and development process and can cause yield losses. The influence of drought stress is the most severe in the bud stage. The major objective of our study was to identify a series of loci involved in drought stress response in the bud stage using association analysis. In this study, 361 common bean germplasms were used to investigate germination vigour (GV) and germination rate (GR) under distilled water and drought stress conditions.The common beans showed large variations in GV and GR, with GV ranging from 6.67% to 100% and 0 to 73.33% and GR ranging from 66.67% to 100% and 0 to 100% in distilled water and under drought stress, respectively. A genome-wide association study (GWAS) of 361 accessions was conducted using 3724159 single nucleotide polymorphisms (SNPs) and revealed 2 and 11 candidate SNPs associated with relative germination rate (RGR) and relative germination vigour (RGV), respectively. Three loci were collocated with loci previously reported as being related to drought tolerance. A total of 180 candidate genes were identified, many of which were related to ion transport and oxidation-reduction reactions. A major haplotype for RGV was identified on chromosome 6. These results provide new insight into the This article is protected by copyright. All rights reserved.3 genetic basis of drought tolerance in common bean at the bud stage and provide candidate SNPs and genes that can be used to accelerate the drought tolerance improvement of common bean.

Integration of GWAS and RNA-Seq Analysis to Identify SNPs and Candidate Genes Associated with Alkali Stress Tolerance at the Germination Stage in Mung Bean

“…Therefore, seed germination is extremely important among the stages of the growth cycle of a crop. The germination rate (GR) and germination index (GI), which can intuitionally reflect the germination capacity, have been widely used to evaluate the stress tolerance of the germplasms of different crops in the germination stage and identify candidate genes using a GWAS [ 4 , 26 , 31 , 50 , 51 , 52 , 53 ]. Mung bean is sensitive to salinity–alkalinity during germination [ 31 , 53 ].…”

Phenotyping methods and phenological stages to quantify the root system of common bean

“…With the advances in science and technology, analysis methods based on image quantification have been used to phenotype the root system of different crops (Blaser et al, 2020), and plants are usually evaluated in the phenological stages that are considered. Most assessments are carried out at the most critical stage for crop growth and development, such as full flowering or grain filling (Wu et al, 2021).…”

Fenotipagem de genótipos de feijão (Phaseolus vulgaris L.) e mecanismos de tolerância ao déficit hídrico na fase de germinação

“…O feijão comum é uma das mais importantes leguminosas diretamente consumidas no mundo e é considerado um alimento base na dieta de países em desenvolvimento, principalmente da América Latina e África (Gonçalves., 2015;Polania et al, 2016). Grande parte da área cultivada de feijão comum no mundo se faz em sistema de sequeiro e está sujeita a episódios de seca, que consiste em um dos fatores abióticos mais prejudiciais a sua produtividade (Wu et al, 2021). Seca, altas temperaturas e baixa disponibilidade de nutrientes no solo, são condições abióticas que criam um ambiente desfavorável capaz de provocar perdas de até 80% no feijão sob cultivo de sequeiro (Castiano et al, 2023).…”

“…No entanto, são escassas as informações acerca dos mecanismos bioquímicos e fisiológicos relacionados a tolerância a deficiência hídrica durante as fases de germinação e crescimento de plântulas. Ademais, no feijoeiro, poucos são os locos genéticos e QTLs atualmente relacionados a germinação das sementes sob deficiência hídrica (Wu et al, 2021). afirmam que seleções em fases curtas como estas (germinação e crescimento inicial de plântulas), podem ser feitas em condições de laboratório com grande vantagem em relação ao tempo de resposta.…”