---
identifier: mixed.gwas.Raggi_Caproni_2019
  
synopsis: "GWAS study of flowering time control in a panel of homozygous 192 common bean accessions derived from landraces."

scientific_name: Phaseolus vulgaris

taxid: 3885

scientific_name_abbrev: phavu

genotype: 
  - Landraces from single-seed descent

description: "The aim of this study was to investigate the genetic control of days to flowering using a whole genome association approach on a panel of 192 highly homozygous common bean genotypes purposely developed from landraces using single-seed descent. The phenotypic characterization was carried out at two experimental sites throughout two growing seasons, using a randomized partially replicated experimental design. The same plant material was genotyped using double digest restriction-site-associated DNA sequencing, producing, after a strict quality control, a dataset of about 50k SNPs after filtering against: loci with >10% missing values; individuals with >10% missing loci; markers with MAF<5%; and heterozygosity>=2%. The GWAS revealed significant and meaningful associations between days to flowering and several SNP markers; seven genes are proposed as the best candidates to explain the detected associations."

publication_doi: 10.3389/fpls.2019.00962

publication_title: "Genome-Wide Association Study Reveals Candidate Genes for Flowering Time Variation in Common Bean (Phaseolus vulgaris L.)"

contributors: "Raggi, Lorenzo; Caproni, Leonardo; Carboni, Andrea; Negri, Valeria"

data_curators: Sam Hokin

public_access_level: public

license: Open

citation: "Raggi, L., Caproni, L., Carboni, A. & Negri, V. Genome-Wide Association Study Reveals Candidate Genes for Flowering Time Variation in Common Bean (Phaseolus vulgaris L.). Front. Plant Sci. 10, 962 (2019)"

genotyping_platform: Raggi_Caproni_2019

genotyping_method: "Double digest restriction-site-associated DNA sequencing, producing, after a strict quality control, a dataset of about 50k SNPs after filtering against: loci with >10% missing values; individuals with >10% missing loci; markers with MAF<5%; and heterozygosity>=2%."