Journal Article

NAC Candidate Gene Marker for bgm-1 and Interaction With QTL for Resistance to Bean Golden Yellow Mosaic Virus in Common Bean

Beebe, Stephen, Rosas, Juan Carlos, Miklas, Phillip N., McClean, Phillip, Beaver, James, Lee, Rian, Soler-Garzón, Alvaro, Song, Qijian, Oladzad, Atena, Lobaton, Juan David, Macea, Eliana, Raatz, Bodo

2021

Overview

Genetic resistance is the primary means for control of Bean golden yellow mosaic virus (BGYMV) in common bean ( Phaseolus vulgaris L. ). Breeding for resistance is difficult because of sporadic and uneven infection across field nurseries. We sought to facilitate breeding for BGYMV resistance by improving marker-assisted selection (MAS) for the recessive bgm-1 gene and identifying and developing MAS for quantitative trait loci (QTL) conditioning resistance. Genetic linkage mapping in two recombinant inbred line populations and genome-wide association study (GWAS) in a large breeding population and two diversity panels revealed a candidate gene for bgm-1 and three QTL BGY4.1, BGY7.1, and BGY8.1 on independent chromosomes. A mutation (5 bp deletion) in a NAC (No Apical Meristem) domain transcriptional regulator superfamily protein gene Phvul.003G027100 on chromosome Pv03 corresponded with the recessive bgm-1 resistance allele. The five bp deletion in exon 2 starting at 20 bp (Pv03: 2,601,582) is expected to cause a stop codon at codon 23 (Pv03: 2,601,625), disrupting further translation of the gene. A T m -shift assay marker named PvNAC1 was developed to track bgm-1 . PvNAC1 corresponded with bgm-1 across ∼1,000 lines which trace bgm-1 back to a single landrace “Garrapato” from Mexico. BGY8.1 has no effect on its own but exhibited a major effect when combined with bgm-1 . BGY4.1 and BGY7.1 acted additively, and they enhanced the level of resistance when combined with bgm-1 . T m -shift assay markers were generated for MAS of the QTL, but their effectiveness requires further validation.

• Publisher: Frontiers Media SA,Frontiers Media S.A
• Subject: alleles / apical meristems / Bean golden yellow mosaic virus / Beans / Chromosome deletion / Chromosomes / Deletion / Disease resistance / exons / frameshift mutation / geminivirus / Gene deletion / Gene mapping / Genes / genetic resistance / Genome-wide association studies / genome-wide association study / Genomes / Germplasm / inbred lines / Inbreeding / landraces / Marker-assisted selection / Meristems / Mexico / mutation / Phaseolus vulgaris / Plant breeding / Plant Science / Population studies / Quantitative trait loci / quantitative traits / Stop codon / transcription factors