close
Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2017 Feb 9;7(2):557-569.
doi: 10.1534/g3.116.036061.

Fine Mapping of Ur-3, a Historically Important Rust Resistance Locus in Common Bean

Oscar P Hurtado-Gonzales  1 , Giseli Valentini  2 , Thiago A S Gilio  2 , Alexandre M Martins  3 , Qijian Song  1 , Marcial A Pastor-Corrales  4
Affiliations

Fine Mapping of Ur-3, a Historically Important Rust Resistance Locus in Common Bean

Oscar P Hurtado-Gonzales et al. G3 (Bethesda). .

Abstract

Bean rust, caused by Uromyces appendiculatus, is a devastating disease of common bean (Phaseolus vulgaris) in the Americas and Africa. The historically important Ur-3 gene confers resistance to many races of the highly variable bean rust pathogen that overcome other rust resistance genes. Existing molecular markers tagging Ur-3 for use in marker-assisted selection produce false results. Here, we describe the fine mapping of the Ur-3 locus for the development of highly accurate markers linked to Ur-3 An F2 population from the cross Pinto 114 (susceptible) × Aurora (resistant with Ur-3) was evaluated for its reaction to four different races of U. appendiculatus A bulked segregant analysis using the SNP chip BARCBEAN6K_3 placed the approximate location of Ur-3 in the lower arm of chromosome Pv11. Specific SSR and SNP markers and haplotype analysis of 18 sequenced bean varieties positioned Ur-3 in a 46.5 kb genomic region from 46.96 to 47.01 Mb on Pv11. We discovered in this region the SS68 KASP marker that was tightly linked to Ur-3 Validation of SS68 on a panel of 130 diverse common bean cultivars containing all known rust resistance genes revealed that SS68 was highly accurate and produced no false results. The SS68 marker will be of great value in pyramiding Ur-3 with other rust resistance genes. It will also significantly reduce time and labor associated with the current phenotypic detection of Ur-3 This is the first utilization of fine mapping to discover markers linked to rust resistance in common bean.

Keywords: KASP marker; Phaseolus vulgaris; Uromyces appendiculatus; fine mapping; rust resistance gene.

PubMed Disclaimer

Figures

Figure 1
Figure 1
Genetic and physical map of the Ur-3 locus in chromosome Pv11 of common bean. Ur-3 confers resistance to the bean rust pathogen (Uromyces appendiculatus). (A) SSR (identified as BARCPVSSR) and SNP KASP markers (identified as SS) positioned the Ur-3 locus between KASP marker SS5 and SSR marker BARCPVSSR14007 in a 470 kb genomic region in Pv11. (B) Flanking KASP markers SS4 and SS6 were used to genotype recombinant F2:3 families and to map the Ur-3 locus in an 83-kb genomic region between KASP markers SS17 and SS21. (C) Haplotype analysis combined with genotyping of recombinant F3 plants positioned the Ur-3 locus in a 46.5-kb genomic region between KASP markers SS36 and SS21. KASP marker SS68 is tightly linked to the Ur-3 locus in this region. The genetic map was generated using the Kosambi mapping function from 129 F2 plants derived from Pinto 114 (susceptible) × Aurora cross (resistant with Ur-3).
Figure 2
Figure 2
KASP marker SS68 analyzed on 129 F2 plants from the cross Pinto 114 (susceptible) × Aurora (resistant with the U-3 locus) cross inoculated with races of the bean rust pathogen (Uromyces appendiculatus). AA, ur-3 alleles; AB, heterozygous alleles; BB, Ur-3 alleles; NTC, nontarget control.
See this image and copyright information in PMC

References

    1. Acevedo M., Steadman J. R., Rosas J. C., 2012. Uromyces appendiculatus in Honduras: pathogen diversity and host resistance screening. Plant Dis. 97(5): 652–661. - PubMed
    1. Alzate-Marin A. L., Souza T. L. P. O., Ragagnin V. A., Moreira M. A., Barros E. G., 2004. Allelism tests between the rust resistance gene present in common bean cultivar Ouro Negro and genes Ur-5 and Ur-11. J. Phytopathol. 152(1): 60–64.
    1. Araya C. M., Alleyne A. T., Steadman J. R., Eskridge K. M., Coyne D. P., 2004. Phenotypic and genotypic characterization of Uromyces appendiculatus from Phaseolus vulgaris in the Americas. Plant Dis. 88(8): 830–836. - PubMed
    1. Arunga E. E., Ochuodho J. O., Kinyua M. G., Owuoche J. O., 2012. Chara-cterization of Uromyces appendiculatus isolates collected from snap bean growing areas in Kenya. Afr. J. Agric. Res. 7(42): 5685–5691.
    1. Augustin E., Coyne D. P., Schuster M. L., 1972. Inheritance of resistance in Phaseolus vulgaris to Uromyces phaseoli typica Brazilian rust race B11 and of plant habit. J. Am. Soc. Hortic. Sci. 97(4): 526–529.

Publication types

LinkOut - more resources