Genome-Wide Identification of Powdery Mildew Resistance in Common Bean (Phaseolus vulgaris L.)

Abstract

Genome-wide association studies (GWAS) have been utilized to detect genetic variations related to several agronomic traits and disease resistance in common bean. However, its application in the powdery mildew (PM) disease to identify candidate genes and their location in the common bean genome has not been fully addressed. Single-nucleotide polymorphism (SNP) genotyping with a BeadChip containing 5398 SNPs was used to detect genetic variations related to PM disease resistance in a panel of 211 genotypes grown under two field conditions for two consecutive years. Significant SNPs identified on chromosomes Pv04 and Pv10 were repeatable, ensuring the phenotypic data’s reliability and the causal relationship. A cluster of resistance genes was revealed on the Pv04 of the common bean genome, coiled-coil-nucleotide-binding site–leucine-rich repeat (CC-NBS-LRR, CNL), and Toll/interleukin-1 receptor-nucleotide-binding site–leucine-rich repeat type (TIR-NBS-LRR, TNL)-like resistance genes were identified. Furthermore, two resistance genes, Phavu_010G1320001g and Phavu_010G136800g, were also identified on Pv10. Further sequence analysis showed that these genes were homologs to the disease-resistance protein (RLM1A-like) and the putative disease-resistance protein (At4g11170.1) in Arabidopsis. Significant SNPs related to two LRR receptor-like kinases (RLK) were only identified on Pv11 in 2018. Many genes encoding the auxin-responsive protein, TIFY10A protein, growth-regulating factor five-like, ubiquitin-like protein, and cell wall RBR3-like protein related to PM disease resistance were identified nearby significant SNPs. These results suggested that the resistance to PM pathogen involves a network of many genes constitutively co-expressed.

Genome-wide characterization of the common bean kinome: catalog and insights into expression patterns and genetic organization

“…The evolution of plants is likely associated with the expansion of subfamilies of this group, with special regard to the perception of pathogen signals and the subsequent triggering of immune responses. In fact, studies have shown an association between molecular markers, genes encoding RLK-LRR proteins and disease resistance (Binagwa et al, 2021; Vaz Bisneta & Gonçalves-Vidigal, 2020). The second most representative group among the kinases was the CAMK.…”

War and Peas: Molecular Bases of Resistance to Powdery Mildew in Pea (Pisum sativum L.) and Other Legumes

“…The successes achieved with peas, coupled with advances in molecular biology and the development of “omics” technologies, stimulate the search for mlo -based immunity in other legumes, from well-established models such as the barrel medic to valuable crops such as soybeans to so-called “orphan” crops such as mung beans or chickpeas [ 21 , 131 , 146 , 147 , 148 , 149 ]. A promising approach is a whole-genome screening for all the sequences homologous to MLO with subsequent targeted knockout using CRISPR-Cas, or a search for induced mutants with TILLING [ 150 ].…”

“…Later, two more representatives of the Milletoid clade, the pigeon pea ( Cajanus cajan ) and common bean ( Phaseolus vulgaris ) [ 146 , 161 ], have been screened for MLO -like sequences. A total of 18 ( C. cajan ) and 20 ( P. vulgaris ) MLO family members have been identified, and for each species, two genes have been predicted to participate in powdery-mildew resistance.…”

Genetic Augmentation of Legume Crops Using Genomic Resources and Genotyping Platforms for Nutritional Food Security

“…GWAS plays an important role in the identification of candidate gene(s)/QTLs for complex traits. GWAS approaches have been used for detecting small and minor genetic variations associated with several biotic and abiotic stresses, as well as agronomic traits of crops [ 66 , 67 ]. GWAS requires genome-wide markers and scans the entire genome for detection of QTLs.…”

“…GWAS requires genome-wide markers and scans the entire genome for detection of QTLs. GWAS has been used for the identification of candidate genes, for powdery mildew disease resistance in common bean, on chromosomes Pv04 and Pv10 [ 66 ]. Similarly, QTL for angular leaf spot resistance ( ALS11.1 ) has been identified in common bean using GWAS, and, subsequently, the angular leaf spot resistance common bean varieties have been developed.…”