Beans SNP Markers


  • Blair 2012 utilized a 768 feature, Illumina GoldenGate assay for common bean (Phaseolus vulgaris L.) developed from conserved legume gene sequences and to use the new technology for the evaluation of parental polymorphisms in a mini-core set of common bean accessions also the analysis of genetic diversity in the crop. Table.
  • Cortés 2011 reported the development of 94 SNPs and tested them across well-chosen common bean (Phaseolus vulgaris L.) germplasm. SNPs were validated and used for the accessment diversity at 84 gene-based and 10 non-genic loci using KASPar technology in a panel of 70 genotypes including parents of mapping populations. Table.
  • Hyten 2010 reported 3,487 SNPs using a multi-tier reduced representation library. In total 2,795 SNPs were reported to have sufficient flanking genomic sequence, so that can be used for SNP assay development. These SNPs were also validated using Sanger sequencing to and 86% of total SNPs were found to be true SNPs. Table.
  • Galeano 2009 reported 56 EST-based amplicons designed for SNP containing contigs reported by Ramirez and group, their primer sequences and melting (Tm) and annealing (Ta) temperatures and whether polymorphism (P) by SSCP was detected in the DOR364 × G19833 mapping population as well as the best hit to the Uniref protein database. Table.
  • To develop a SNP assay based on a type of hetero-duplex mismatch cleavage called EcoTILLING for molecular marker development in the common bean Galeano 2009 designed total of 37 primers pairs for 72 EST contigs that exhibited single SNPs between the Andean (G19833) and Mesoamerican (Negro Jamapa) genotypes.
  • Gaitán-Solís 2008 assessed the frequency of SNPs in 47 fragments of common bean DNA, using SBE as the evaluation methodology and conducted a sequence analysis of 10 genotypes of cultivated and wild beans belonging to the Mesoamerican and Andean genetic pools of P. vulgaris. For the 10 genotypes evaluated, a total of 20,964 bp of sequence were analyzed in each genotype and compared, resulting in the discovery of 239 SNPs and 133 InDels.
  • SNPs between the Andean and the Mesoamerican genotypes were identified by comparing the Andean leaf ESTs against all other ESTs from all other tissue libraries of the Mesoamerican genotype. In total 559 SNPs corresponded to 199 contigs were identified of which, 140 were high quality SNPs. Ramírez 2005, Table.

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