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Int. J. Mol. Sci. 2017, 18(6), 1109; doi:10.3390/ijms18061109

Marker-Assisted Molecular Profiling, Deletion Mutant Analysis, and RNA-Seq Reveal a Disease Resistance Cluster Associated with Uromyces appendiculatus Infection in Common Bean Phaseolus vulgaris L.

1
Department of Agriculture and Natural Resources, Delaware State University, Dover, DE 19901, USA
2
Department of Plant and Soil Sciences, University of Delaware, Newark, DE 19716, USA
3
Center for Molecular Biology, Department of Biological & Environmental Sciences, College of Agricultural, Life & Natural Sciences, Alabama A&M University, Normal, AL 35762, USA
4
Department of Plant Sciences, North Dakota State University, Fargo, ND 58105, USA
5
United States Department of Agriculture-Agricultural Research Service, Soybean Genomics and Improvement Laboratory, Beltsville Agricultural Research Center, Beltsville, MD 20170, USA
6
Center for Integrated and Environmental Research (CIBER), Delaware State University, Dover, DE 19901, USA
*
Author to whom correspondence should be addressed.
Academic Editor: Isabel Díaz
Received: 6 March 2017 / Revised: 21 April 2017 / Accepted: 13 May 2017 / Published: 23 May 2017
(This article belongs to the Special Issue Plant Defense Genes Against Biotic Stresses)
View Full-Text   |   Download PDF [1941 KB, uploaded 23 May 2017]   |  

Abstract

Common bean (Phaseolus vulgaris L.) is an important legume, useful for its high protein and dietary fiber. The fungal pathogen Uromyces appendiculatus (Pers.) Unger can cause major loss in susceptible varieties of the common bean. The Ur-3 locus provides race specific resistance to virulent strains or races of the bean rust pathogen along with Crg, (Complements resistance gene), which is required for Ur-3-mediated rust resistance. In this study, we inoculated two common bean genotypes (resistant “Sierra” and susceptible crg) with rust race 53 of U. appendiculatus, isolated leaf RNA at specific time points, and sequenced their transcriptomes. First, molecular markers were used to locate and identify a 250 kb deletion on chromosome 10 in mutant crg (which carries a deletion at the Crg locus). Next, we identified differential expression of several disease resistance genes between Mock Inoculated (MI) and Inoculated (I) samples of “Sierra” leaf RNA within the 250 kb delineated region. Both marker assisted molecular profiling and RNA-seq were used to identify possible transcriptomic locations of interest regarding the resistance in the common bean to race 53. Identification of differential expression among samples in disease resistance clusters in the bean genome may elucidate significant genes underlying rust resistance. Along with preserving favorable traits in the crop, the current research may also aid in global sustainability of food stocks necessary for many populations. View Full-Text
Keywords: common bean; bean rust; phaseolus; uromyces; RNA-seq; transcriptome; marker assisted profiling; delineation common bean; bean rust; phaseolus; uromyces; RNA-seq; transcriptome; marker assisted profiling; delineation
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Todd, A.R.; Donofrio, N.; Sripathi, V.R.; McClean, P.E.; Lee, R.K.; Pastor-Corrales, M.; Kalavacharla, V.K. Marker-Assisted Molecular Profiling, Deletion Mutant Analysis, and RNA-Seq Reveal a Disease Resistance Cluster Associated with Uromyces appendiculatus Infection in Common Bean Phaseolus vulgaris L.. Int. J. Mol. Sci. 2017, 18, 1109.

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