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ARS Home » Pacific West Area » Pullman, Washington » Grain Legume Genetics Physiology Research » Research » Publications at this Location » Publication #407649
Research Project: Enhanced Agronomic Performance and Disease Resistance in Edible Legumes

Location: Grain Legume Genetics Physiology Research

Title: The alleles bc-ud and bc-ur (previously bc-4 gene), representing coding mutations within Vps4 AAA+ ATPase ESCRT protein, interact with other genes to condition resistance to BCMV and BCMNV in common bean

Author
item SOLER-GARZON, ALVAREZ - Washington State University
item MCCLEAN, PHIL - North Dakota State University
item Miklas, Phillip - Phil

Submitted to: The Plant Genome
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 11/17/2023
Publication Date: 12/23/2023
Citation: Soler-Garzon, A., McClean, P., Miklas, P.N. 2023. The alleles bc-ud and bc-ur (previously bc-4 gene), representing coding mutations within Vps4 AAA+ ATPase ESCRT protein, interact with other genes to condition resistance to BCMV and BCMNV in common bean. The Plant Genome. 17(1). Article e20421. https://doi.org/10.1002/tpg2.20421.
DOI: https://doi.org/10.1002/tpg2.20421

Interpretive Summary: Bean common mosaic virus (BCMV) and Bean common mosaic necrosis virus (BCMNV) are the most problematic viruses infecting common bean worldwide. It is a global pathogen problem because the virus is seed-borne. There is zero tolerance for the virus in seed production in the western U.S. The best control is via deployment of resistance genes in the common bean host. We identified the causal mutations in a Vps4 protein candidate gene which underlie the bc-ud and bc-ur resistance alleles which interact with other resistance genes to combat BCMV and BCMNV. Markers developed to track the alleles have been used in genetic studies to reveal changes to the host-pathogen model. These new findings and tools enhance our ability to develop more resilient bean varieties through marker-assisted selection to reduce the impact of BCMV and BCMNV worldwide.

Technical Abstract: Bean common mosaic virus (BCMV) and Bean common mosaic necrosis virus (BCMNV) have a damaging impact on global common bean (Phaseolus vulgaris L.) cultivation, causing potential yield losses of over 80%. The primary strategy for controlling these viruses is through host plant resistance. This research aimed to identify and validate structural variations for bc-ud gene as revealed by long-read sequencing, develop an efficient DNA marker for useful variants to assist selection of bc-ud in snap and dry beans, and examine the interactions between the bc-ud allele and other BCMV resistance genes. A Vps4 AAA+ ATPase ESCRT gene (Phvul.005G125100) was identified as the best candidate gene for bc-ud, based on 100% co-segregation across 264 common bean accessions, of the resistance allele with an InDel marker IND_05_36225873 developed for an 84 bp repetitive insertion variant within the gene. A different SNP variant within the same candidate gene was associated with the bc-4 gene. F2 allelism tests confirmed bc-ud and bc-4 were alleles, so bc-4 was renamed bc-ur to fit gene nomenclature guidelines. The 84 bp repetitive insertion, was labeled with the IND_05_36225873 indel marker, for the bc-ud allele. The marker effectively detects the bc-ud allele, with validation across diverse panels and, demonstrating its reliability. The interactions of bc-ud and bc-ur with other resistance genes, such as bc-1 and bc-2, validated the effectness of host groups with different resistance gene combinations to to combat specific BCMV/BCMNV pathogroups. These findings enhance our ability to develop more resilient bean varieties through marker-assisted selection (MAS), reducing the impact of BCMV and BCMNV.