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BMC Genomics

, 11:436

First Online: 16 July 2010Received: 18 February 2010Accepted: 16 July 2010


BackgroundCommon bean Phaseolus vulgaris L. is the most important legume for direct human consumption and the goal of this study was to integrate a recently constructed physical map for the species with a microsatellite based genetic map using a BAC library from the genotype G19833 and the recombinant inbred line population DOR364 × G19833.

ResultsWe searched for simple sequence repeats SSRs in the 89,017 BAC-end sequences BES from the physical map and genetically mapped any polymorphic BES-SSRs onto the genetic map. Among the BES it was possible to identify 623 contig-linked SSRs, most of which were highly AT-rich. A subgroup of 230 di-nucleotide and tri-nucleotide based SSR primer pairs from these BACs was tested on the mapping parents with 176 single copy loci and 114 found to be polymorphic markers. Of these, 99 were successfully integrated into the genetic map. The 99 linkages between the genetic and physical maps corresponded to an equal number of contigs containing a total of 5,055 BAC clones.

ConclusionsClass II microsatellites were more common in the BES than longer class I microsatellites. Both types of markers proved to be valuable for linking BAC clones to the genetic map and were successfully placed across all 11 linkage groups. The integration of common bean physical and genetic maps is an important part of comparative genome analysis and a prelude to positional cloning of agronomically important genes for this crop.

AbbreviationsBACBacterial Artificial Chromosome

BES-SSRsmicrosatellite markers from BAC-ends

FISHFluorescence In Situ Hybridization

PCRPolymerase Chain Reaction

RILRecombinant Inbred Lines

SSRmicrosatellite locus


Electronic supplementary materialThe online version of this article doi:10.1186-1471-2164-11-436 contains supplementary material, which is available to authorized users.

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Autor: Juana M Córdoba - Carolina Chavarro - Jessica A Schlueter - Scott A Jackson - Matthew W Blair


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