Genetic diversity of Guatemalan climbing bean collections

Piñón, María Gabriela Tobar; Moghaddam, Samira Mafi; Lee, Rian K; Mérida, Julio César Villatoro; DeYoung, David J.; Reyes, Byron; Maredia, Mywish K.; Osorno, Juan M.; McClean, Phillip E.

doi:10.1007/s10722-020-01013-3

Cited by 9 publications

(11 citation statements)

References 165 publications

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“…12 Gene model PvLabOv.06G020400 was found to be identical to the 5-593 protein sequence. This result reiterates the close relationship between the Guatemala and Mesoamerica common bean races ( Tobar Pinon et al, 2021 ).…”

Section: Resultssupporting

confidence: 78%

The Common Bean V Gene Encodes Flavonoid 3′5′ Hydroxylase: A Major Mutational Target for Flavonoid Diversity in Angiosperms

et al. 2022

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The classic V (violet, purple) gene of common bean (Phaseolus vulgaris) functions in a complex genetic network that controls seed coat and flower color and flavonoid content. V was cloned to understand its role in the network and the evolution of its orthologs in the Viridiplantae. V mapped genetically to a narrow interval on chromosome Pv06. A candidate gene was selected based on flavonoid analysis and confirmed by recombinational mapping. Protein and domain modeling determined V encodes flavonoid 3′5′ hydroxylase (F3′5′H), a P450 enzyme required for the expression of dihydromyricetin-derived flavonoids in the flavonoid pathway. Eight recessive haplotypes, defined by mutations of key functional domains required for P450 activities, evolved independently in the two bean gene pools from a common ancestral gene. V homologs were identified in Viridiplantae orders by functional domain searches. A phylogenetic analysis determined F3′5′H first appeared in the Streptophyta and is present in only 41% of Angiosperm reference genomes. The evolutionarily related flavonoid pathway gene flavonoid 3′ hydroxylase (F3′H) is found nearly universally in all Angiosperms. F3′H may be conserved because of its role in abiotic stress, while F3′5′H evolved as a major target gene for the evolution of flower and seed coat color in plants.

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Section: Resultssupporting

confidence: 78%

The Common Bean V Gene Encodes Flavonoid 3′5′ Hydroxylase: A Major Mutational Target for Flavonoid Diversity in Angiosperms

et al. 2022

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“…DNA was extracted from each DDP member following the protocol described previously ( Tobar-Piñón et al, 2021 ). Each DNA sample was sequenced at Hudson/Alpha Institute of Biotechnology (Huntsville, AL, United States) using Illumina technology to an average depth of 8X.…”

Section: Methodsmentioning

confidence: 99%

Genome-Wide Association Mapping of bc-1 and bc-u Reveals Candidate Genes and New Adjustments to the Host-Pathogen Interaction for Resistance to Bean Common Mosaic Necrosis Virus in Common Bean

2021

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Bean common mosaic necrosis virus (BCMNV) is a major disease in common bean (Phaseolus vulgaris L.). Host plant resistance is the primary disease control. We sought to identify candidate genes to better understand the host-pathogen interaction and develop tools for marker-assisted selection (MAS). A genome-wide association study (GWAS) approach using 182 lines from a race Durango Diversity Panel (DDP) challenged by BCMNV isolates NL-8 [Pathogroup (PG)-III] and NL-3 (PG-VI), and genotyped with 1.26 million single-nucleotide polymorphisms (SNPs), revealed significant peak regions on chromosomes Pv03 and Pv05, which correspond to bc-1 and bc-u resistance gene loci, respectively. Three candidate genes were identified for NL-3 and NL-8 resistance. Side-by-side receptor-like protein kinases (RLKs), Phvul.003G038700 and Phvul.003G038800 were candidate genes for bc-1. These RLKs were orthologous to linked RLKs associated with virus resistance in soybean (Glycine max). A basic Leucine Zipper (bZIP) transcription factor protein is the candidate gene for bc-u. bZIP protein gene Phvul.005G124100 carries a unique non-synonymous mutation at codon 14 in the first exon (Pv05: 36,114,516 bases), resulting in a premature termination codon that causes a nonfunctional protein. SNP markers for bc-1 and bc-u and new markers for I and bc-3 genes were used to genotype the resistance genes underpinning BCMNV phenotypes in the DDP, host group (HG) differentials, and segregating F3 families. Results revealed major adjustments to the current host-pathogen interaction model: (i) there is only one resistance allele bc-1 for the Bc-1 locus, and differential expression of the allele is based on presence vs. absence of bc-u; (ii) bc-1 exhibits dominance and incomplete dominance; (iii) bc-1 alone confers resistance to NL-8; (iv) bc-u was absent from HGs 2, 4, 5, and 7 necessitating a new gene symbol bc-ud to reflect this change; (v) bc-ud alone delays susceptible symptoms, and when combined with bc-1 enhanced resistance to NL-3; and (vi) bc-ud is on Pv05, not Pv03 as previously thought. These candidate genes, markers, and adjustments to the host-pathogen interaction will facilitate breeding for resistance to BCMNV and related Bean common mosaic virus (BCMV) in common bean.

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“…However, climbing beans have only found little attention of breeding programs; some known research centers such as CIAT (Colombia), Nicaragua, RAB (Rwanda), and ICTA in Guatemala (Tobar Piñón et al, 2021) have dedicated breeding programs. Yet new varieties have been developed and released.…”

Section: Introductionmentioning

confidence: 99%

Climbing bean breeding for disease resistance and grain quality traits

Portilla

Mayor-Durán²,

Buendia

et al. 2021

Legume Science

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Common bean (Phaseolus vulgaris) is grown in two growth types, bush and climbing beans. The latter are preferred in several regions in East and Southern African as well as in Latin America (dominant in Rwanda and Colombia), due to higher yields and resilience compared with bush type. Common bean productivity is reduced by several pests and diseases between them. Bean common mosaic virus (BCMV), which is the most common and destructive poty-virus affecting bean production worldwide, and anthracnose, caused by the fungus Colletotrichum lindemuthianum, can cause yield losses as high as 95% in susceptible cultivars. Further important traits in common bean are high micro mineral contents to alleviate malnutrition and grain quality traits such as the canning quality of bean varieties, which is important for farmers to access the processing market. In this study, new climbing bean populations were generated (coded ENF/CGA) to combine high seed iron (SdFe) and multiple diseases resistance. Double and triple crosses between parents with virus and anthracnose resistance, high SdFe, and good agronomic traits were employed. In trials in Darien and Popayan, lines were identified that combine BCMNV/BCMV and anthracnose resistance with seed yields above 4000 kg/ha. Phenotypic evaluations validated the usefulness of SNP markers tagging the genes bc-3 and I for BCMN and Co-3 for anthracnose as a selection tool for field resistance. These results show the genetic potential of the lines that are now being tested in target regions to be delivered to smallholder farmers.anthracnose, BCMV, common bean (Phaseolus vulgaris), grain quality traits, marker-assisted selection | INTRODUCTIONCommon bean (Phaseolus vulgaris L.) is the most important grain legume for direct human consumption (Broughton et al., 2003;Câmara et al., 2013), a staple crop in many tropical regions in East and Southern African as well as in Latin America. It is grown especially by poor smallholder farmers and a valuable component of their diets due to its high nutritional value, rich in protein, micro minerals (iron and zinc), and vitamins (folate) (Messina, 1999). The global production of dry beans has reached 32 million tons per year (FAO, 2017).

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Genetic diversity of Guatemalan climbing bean collections

Cited by 9 publications

References 165 publications

The Common Bean V Gene Encodes Flavonoid 3′5′ Hydroxylase: A Major Mutational Target for Flavonoid Diversity in Angiosperms

The Common Bean V Gene Encodes Flavonoid 3′5′ Hydroxylase: A Major Mutational Target for Flavonoid Diversity in Angiosperms

Genome-Wide Association Mapping of bc-1 and bc-u Reveals Candidate Genes and New Adjustments to the Host-Pathogen Interaction for Resistance to Bean Common Mosaic Necrosis Virus in Common Bean

Climbing bean breeding for disease resistance and grain quality traits

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