Genome‐wide association study of resistance to anthracnose and angular leaf spot in Brazilian Mesoamerican and Andean common bean cultivars

Abstract

Anthracnose (ANT) and angular leaf spot (ALS) are devastating diseases of common bean (Phaseolus vulgaris L.) worldwide, and identification of new sources of ANT and ALS resistance is a major priority in breeding programs. The ANT and ALS reaction of 57 Andean and 58 Mesoamerican accessions from five Brazilian states were evaluated. Three Mesoamerican and eight Andean accessions were resistant to races 9, 65, 73, 2047, and 3481 of the ANT pathogen, while four Mesoamerican and 14 Andean accessions were resistant to four of the ANT pathogen races. Furthermore, 13 Mesoamerican and 30 Andean accessions were resistant to races 31‐23 and 63‐39 of the ALS pathogen. To understand the genetic basis of ANT and ALS resistance, a genome‐wide association study (GWAS) was conducted using the 115 accessions, revealing new sources of resistance in Andean and Mesoamerican accessions. The single nucleotide polymorphism (SNP) markers associated with races 9 and 73 of ANT was positioned on chromosome Pv04; resistance to race 65 on chromosomes Pv01, Pv04, and Pv08; and resistance to races 2047 and 3481 on chromosomes Pv10 and Pv05, respectively. Furthermore, SNPs associated with race 31‐23 of Pseudocercospora griseola (Sacc.) Crous & U. Braun were mapped on chromosomes Pv02 and Pv04, whereas for race 63‐39, SNPs were mapped on chromosomes Pv03, Pv06, and Pv08. The SNP markers and candidate genes found associated with the resistance should be validated in segregating populations, which could further be used for marker‐assisted selection. As a result, breeding programs might be able to develop resistant bean cultivars to ANT and ALS.

Genome-wide association mapping reveals race-specific SNP markers associated with anthracnose resistance in carioca common beans

“…We found 14 R genes and 2 encoding genes for protein kinases in the same region and within an interval of less than 0.6 Mbp ( Fig 4 ). In addition to the candidate genes, a total of 14 markers have been associated with resistance loci in the same range as other studies, both by linkage mapping and GWAS [ 20 , 51 , 52 , 61 , 101 ]. In the same region, the Co-3 locus was identified by several authors, as well as its allelic series Co-3 2 , Co-3 3 , Co-3 4 , and Co-3 [ 28 , 37 , 40 , 102 , 103 ].…”

“…For that reason, cultivars with resistance to multiple races and the respective genes associated with this resistance need to be investigated and identified, enabling their use in common bean breeding programs. About 25 loci with multiple alleles of resistance to ANT, from both Andean and Mesoamerican origin, have already been identified [20][21][22]. The loci with the greatest and dominant effect are designated "Co".…”

Genome-Wide Association Study Reveals Genomic Regions Associated with Fusarium Wilt Resistance in Common Bean

“…The BARCBean6K_3 BeadChip has successfully contributed to the study of several traits in beans [ 39 , 40 , 41 , 42 , 43 , 44 ]. This technology has also been used in the identification of genomic regions associated with disease resistance, such as common mosaic virus [ 45 ], anthracnose [ 41 ], root rot [ 46 ], rust [ 42 ], angular leaf spot [ 47 ], and to fusarium wilt [ 25 ].…”

Combining disease resistance and postharvest quality traits by early marker-assisted backcrossing in carioca beans

“…Additional analyses have revealed that some of these loci are organized in closely linked race-specific gene clusters, which is especially evident on Pv01, Pv02, Pv04, Pv07, Pv08 and Pv11 (Campa et al, 2009(Campa et al, , 2014Chen et al, 2017;Davide and Souza, 2009;Gonçalves-Vidigal et al, 2011Meziadi et al, 2016;Oblessuc et al, 2014;Rodríguez-Suárez et al, 2007;Zuiderveen et al, 2016). Disease resistance genes and QTL are clustered in the genome, and the immune response can be demonstrated in genetic and associative mapping (Neupane et al, 2018;Perseguini et al, 2016;Valentini et al, 2017;Vidigal-Filho et al, 2020).…”

“…Quantitative resistance loci (QRLs) has also been reported and genomic regions associated with important races such as the 3, 4, 9, 38, 55, 65, 73, 87, 503, 2047 and3481 (Banoo et al, 2020;Oblessuc et al, 2014;Perseguini et al, 2016;Vidigal-Filho et al, 2020). Indeed, these Co loci may be part of disease resistance clusters and QRL on all bean chromosomes (from Pv01 to Pv11, Banoo et al, 2020;Campa et al, 2014;Ferreira et al, 2013;Geffroy et al, 2008;Gonçalves-Vidigal et al, 2011;Gonçalves-Vidigal et al, 2012;Gonçalves-Vidigal et al, 2013;Mungalu et al, 2020;Murube et al, 2019;Oblessuc et al, 2014;Perseguini et al, 2016;Richard et al, 2014;Rodríguez-Suárez et al, 2007;Sousa et al, 2014;Vaz Bisneta and Gonçalves-Vidigal, 2020;Vidigal-Filho et al, 2020;Zuiderveen et al, 2016).…”