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Isolation and Characterization of Nucleotide-Binding Site Resistance Gene Homologues in Common Bean (Phaseolus vulgaris)

February 2013 , Volume 103 , Number  2
Pages  156 - 168

Luz N. Garzón, Oscar A. Oliveros, Benjamin Rosen, Gustavo A. Ligarreto, Douglas R. Cook, and Matthew W. Blair

First, second, fourth, and sixth authors: Facultad de Agronomía, Universidad de Colombia, Bogota, Cra. 30 45-03 Bloque 500, oficina 423; and third and fifth authors: Department of Plant Pathology, University of California–Davis, One Shields Ave., Davis 95616.

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Accepted for publication 12 October 2012.

Common bean production is constrained by many fungal, viral, and bacterial pathogens. Thus, the identification of resistance (R) genes is an important focal point of common bean research. The main goal of our study was to identify resistance gene homologues (RGH) in the crop, using degenerate primers designed from conserved sequences in the nucleotide-binding site (NBS) domains of R-genes from the model legume Medicago truncatula. Total DNA of the Andean common bean genotype G19833 was used for amplification of over 500 primer combinations. Sequencing of amplicons showed that 403 cloned fragments had uninterrupted open reading frames and were considered representative of functional RGH genes. The sequences were grouped at two levels of nucleotide identity (90 and 80%) and representative sequences of each group were used for phylogenetic analyses. The RGH sequence diversity of common bean was divided into TIR and non-TIR families, each with different clusters. The TIR sequences grouped into 14 clades while non-TIR sequences grouped into seven clades. Pairwise comparisons showed purifying selection, although some sequences may have been the result of diversifying selection. Knowledge about RGH genes in common bean can allow the design of molecular markers for pyramiding of resistance genes against various pathogens.

© 2013 The American Phytopathological Society