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Abstract Detail



Genomics / Proteomics

Benson, Benjamin V. [1], Nepal, Madhav P. [2], Subramanian , Senthil  [2], Ali, Shaukat. [3].

Soybean Disease Resistance Genes and Their Evolutionary Divergence.

Resistance Genes (R-genes) are involved in plant’s defense against pathogens. Nucleotide Binding Site Lucien Rich Region (NBS-LRR) is the largest group among the five groups of plant R-genes.  The NBS-LRR family is divided into two groups: TIR-NBS-LRR (TNL) that contain Toll/Interleukin-1 Receptor (TIR) and CC-NBS-LRR (CNL) that do not contain the TIR domain. Recent availability of soybean (Glycine max) genome sequences allows us to perform in silico analysis of G. max disease resistance genes. In this project we aimed to identify G. max CNL group of R-genes and assess their evolutionary divergence.  We explored the G. max genome available at Phytozome.net and our blast search resulted into 54,175 protein sequences. Hidden Markov Model (HMM) search yielded 461 sequences which after domain analyses confirmed 188 CNL genes in soybean.  This number is much larger than previously reported. Maximum Likelihood analysis revealed that soybean CNL genes were nested into four distinct clades consistent to their orthologs in other plant species.  Analysis of the CNL gene-clustering revealed a large cluster on chromosome 18 containing 20.21% of the CNL-genes. Analysis of functional coherence of structural variation suggests a positive correlation between the number and expression of the CNL genes. Synonymous change per synonymous site (Ks values) and chromosomal position analyses suggest a pericentromeric positioning of the CNL gene clusters allowing increased recombination of the LRR regions. In our presentation, we plan to discuss the processes involved in the positioning and distribution of the CNL genes on the chromosome affecting the durability of the resistance genes.


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Related Links:
Nepal Lab


1 - South Dakota State University, Biology and Microbiology, Brookings, SD, 57006, USA
2 - South Dakota State University, Biology And Microbiology, Northern Plain Biostress Laboratory, Brookings, SD, 57007, USA
3 - South Dakota State University, Plant Science, Brookings, SD, 57007, United States

Keywords:
Disease Resistance Genes
CNL Genes
Soybean
Gene Clustering
Bioinformatics
Pericentromeric positioning.

Presentation Type: Oral Paper:Papers for Topics
Session: 35
Location: Pines South/Boise Centre
Date: Wednesday, July 30th, 2014
Time: 8:00 AM
Number: 35001
Abstract ID:858
Candidate for Awards:None


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