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.
Highlights
Common bean (Phaseolus vulgaris L.) is a notable legume species among the pulse crops that play a major role in addressing global food security, environmental challenges, and health diets (Calles, 2016)
184 accession seeds were acquired from the common bean germplasm repository at International Center for Tropical Agriculture (CIAT)1, and the remaining 27 were derived from Tanzania Agricultural Research Institute (TARI)2 Selian center where they were originally collected from Ethiopia (12), Kenya (10), Tanzania (3), and Rwanda (2)
We used the Genome-wide association studies (GWAS) approach to identify Single-nucleotide polymorphism (SNP) associated with powdery mildew (PM) disease resistance
Summary
Common bean (Phaseolus vulgaris L.) is a notable legume species among the pulse crops that play a major role in addressing global food security, environmental challenges, and health diets (Calles, 2016). PM disease in common bean is caused by the Erysiphe polygoni DC pathogen responsible for extensive damage and significant yield losses, up to 69% loss prior to flowering under the environment of warm temperatures (20–24◦C) and high humidity, as well as shade environment (Rezende et al, 1999; Schwartz et al, 2005). Because it is an airborne disease, accurate identification and appropriate responses are critical to effectively preventing the spread of PM and minimizing the significant yield losses and the quality of edible seeds. The entire leaves and plants are covered by white cottony mycelia (Pernezney and Stall, 2005), which inhibit the photosynthetic process (Yamashita, 2019) and decrease the rate of photosynthetic carbon dioxide assimilation (Magyarosy et al, 1976)
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