Molecular polymorphism related to flowering trait variation in a Phaseolus vulgaris L. collection

Plant Sci. 2014 Feb:215-216:180-9. doi: 10.1016/j.plantsci.2013.11.001. Epub 2013 Nov 12.

Abstract

The aim of this study was to investigate the flowering variation and the molecular polymorphism in key regulatory genes that control flowering in a Phaseolus vulgaris L. collection of 94 accessions from Europe and the Americas. The analysis of variance revealed that the difference in days-to-flowering between accessions was significant, with European accessions characterized by flowering precocity. Population structure analysis corroborated previous data on the genetic distinction between the Andean and Mesoamerican gene pools. A low level of admixture was detected. Genomic sequences of 15 gene fragments were obtained. About 7.0 kb per accession were sequenced and a total of 48 nucleotide substitutions identified. A Mixed Linear Model analysis, including population structure and kinship, was used to identify marker-trait associations. Haplotype tagging single nucleotide polymorphisms (htSNPs) associated with the studied traits were detected: in PvVRN1 and PvPHYB with days-to-flowering, in PvMYB29 with number of flower buds per inflorescence and in PvTFL1z and PvFCA with inflorescence length. The two genes associated with days-to-flowering control belong to the photoperiod and vernalization pathways. In particular, the PvVRN1 gene appears to play an important role in regulating the adaptation process of common bean.

Keywords: AM; Association Mapping; BLASTn; Basic local alignment search tool nucleotide; Candidate genes; FDR; Flowering time; MLM; Marker-trait association; Mixed Linear Model; Phaseolus vulgaris L.; VRN1 gene; days; days-to-flowering; dd; dof; dtf; duration of flowering; false discovery rate; fbi; fbs; flower bud size; flower buds per inflorescence; growth habit; gwh; haplotype tagging SNP; htSNP; inflorescence length; inl; lat; latitude of origin; nms; nodes on the main stem.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Americas
  • DNA, Plant
  • Europe
  • Flowers / growth & development*
  • Flowers / metabolism
  • Gene Expression Regulation, Plant
  • Genes, Plant*
  • Genotype*
  • Haplotypes
  • Inflorescence
  • MADS Domain Proteins / genetics*
  • MADS Domain Proteins / metabolism
  • Phaseolus / genetics*
  • Phaseolus / growth & development
  • Phaseolus / metabolism
  • Phenotype*
  • Photoperiod
  • Plant Proteins / genetics
  • Plant Proteins / metabolism
  • Polymorphism, Single Nucleotide*

Substances

  • DNA, Plant
  • MADS Domain Proteins
  • Plant Proteins