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Abstract Detail



Genomics / Proteomics

Nepal, Madhav P. [1], Neupane, Surendra [2], Mathew, Febina [3], Ma, Qin [4], Varenhorst, Adam [5], Andersen, Ethan J. [6], Reese, R. Neil [2].

Comparative Genomics of Disease Resistance Genes in Soybean (Glycine max) and Common Bean (Phaseolus vulgaris).

Proteins encoded by disease resistance genes (R-genes) play important role in defense against pathogens including bacteria, fungi, pests, nematodes and viruses. Recent availability of genome sequences of plant species including legumes such as soybean and common bean allows us to study different gene families. In this study we conducted genome-wide identification of the TNL (Toll and interleukin-1 receptor like Nucleotide-binding site-Leucine-rich repeat) genes in soybean and common bean using 83 Arabidopsis thaliana TNL reference sequences. Hidden Markov Model (HMM) profiling of the TNL R-gene sequences resulted in 117 and 77 genes in Soybean and common bean, respectively. Multiple Expectation Maximization for Motif Elicitation (MEME) analysis was used to visualize the conserved motifs, and the program SyMAP was used to generate a syntenic map of TNL genes in G. max and P. vulgaris. Sixty-three percentage of total TNL genes identified in soybean formed 27 clusters located in 15 out of 20 chromosomes and the majority of them were located on chromosomes 3G, 6G and 16G. Likewise, approximately 63% of total TNL genes identified in common bean formed 13 clusters located on 11 chromosomes and mostly clustered on chromosome 10P. The syntenic analysis showed high orthology between genes of chromosome 3G and 10P as well as 16G and 4P. At the meeting we will share our results on the analyses of evolutionary relationships, gene clustering, gene duplication events, transcriptomic data and selection pressure. Identification and characterization of these genes will improve our understanding of R-gene evolution and pave avenue for future legume crop improvement with durable resistance.


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Related Links:
Nepal Lab@South Dakota State University


1 - South Dakota State University, Biology And Microbiology, Northern Plain Biostress Laboratory, Brookings, SD, 57007, USA
2 - South Dakota State University, Biology and Microbiology, Edgar S. McFadden Biostress Laboratory, Brookings, South Dakota, 57006, USA
3 - South Dakota State University, Plant Science, Plant Science Hall, Brookings, South Dakota, 57006, United States
4 - South Dakota State University, Plant Science, Edgar S. McFadden Biostress Laboratory, Brookings, South Dakota, 57006, United States
5 - South Dakota State University, Plant Science, Berg Agricultural Hall, Brookings, South Dakota, 57006, United States
6 - South Dakota State University, Biology and Microbiology, Edgar S. McFadden Biostress Laboratory, Brookings, South Dakota, 57006, United States

Keywords:
Comparative GenomicsĀ 
Disease Resistance GenesĀ 
legumes
Fabaceae
Gene Clustering
Selection Pressure
Synteny
TNL Genes.

Presentation Type: Poster
Session: P, Genomics/Proteomics Posters
Location: Exhibit Hall/Savannah International Trade and Convention Center
Date: Monday, August 1st, 2016
Time: 5:30 PM This poster will be presented at 6:15 pm. The Poster Session runs from 5:30 pm to 7:00 pm. Posters with odd poster numbers are presented at 5:30 pm, and posters with even poster numbers are presented at 6:15 pm.
Number: PGP006
Abstract ID:634
Candidate for Awards:None


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