Abstract Detail

Genomics / Proteomics

Andersen, Ethan J. [1], Nepal, Madhav P. [2], Ali, Shaukat [3], Yen, Yang [4], Reese, R. Neil [5], Neupane, Surendra [1].

Genome-wide Identification of the CNL Disease Resistance Genes in Barley (Hordeum vulgare L.) and Their Evolutinary Divergence.

Plant disease resistance genes (R-genes) are necessary for the recognition of pathogens and initiation of defense responses. Barley is an important crop species belonging to the family Poaceae, and much has yet to be understood about the diversity and evolution of R-genes within its genome. The objectives of this study were to identify Coiled-coil, Nucleotide-binding site, and Leucine-rich repeat (CNL) genes within the barley genome based upon conserved motifs and elucidate their evolutionary history. We utilized a Hidden Markov Model with 52 Arabidopsis thaliana CNL reference sequences for gene identification followed by analyses for phylogenetic relationships, structural variation, and gene clustering. We found 175 barley CNL genes that showed evidence for a) an expansion of the CNL-C clade, b) reduction of clades CNL-A and CNL-B, and c) a complete absence of CNL-D, and d) many instances of possible tandem duplication in evolutionary history. Also, MLOC_66581 and MLOC_10425 appear to be accession names for mildew locus A (MLA) genes that respond to powdery mildew and likely have many allelic variants. Fifteen gene clusters were found and most genes were located in the extra-pericentromeric regions on six of the seven chromosomes, with many clustered genes located on chromosomes 1H and 7H. Multiple splice variants were seen in barley which may have contributed to a rapid diversification of the CNL-C members. This in silico analysis aids to the understanding of R-genes in barley may assist in the development of durable resistance in cereal crops.

Related Links:
Nepal Lab @ South Dakota State University

1 - South Dakota State University, Edgar S. McFadden Biostress Laboratory, Brookings, SD, 57007
2 - South Dakota State University, Biology And Microbiology, Northern Plain Biostress Laboratory, Brookings, SD, 57007, USA
3 - South Dakota State University, Plant Science, Edgar S. McFadden Biostress Laboratory, Brookings, SD, 57007
4 - South Dakota State University , Biology and Microbiology , Edgar S. McFadden Biostress Laboratory , Brookings , SD, 57007
5 - South Dakota State University, Bio/Micro, SNP 249B, Box 2140D, Brookings, SD, 57007, USA

Keywords:
Grass Phylogenetics
Disease Resistance Genes 
Coiled-coil Nucleotide-binding site
NBS-LRRs
gene duplication
Purifying Selection.

Presentation Type: Oral Paper
Session: 19, Genomics & Proteomics I
Location: 105/Savannah International Trade and Convention Center
Date: Tuesday, August 2nd, 2016
Time: 10:15 AM
Number: 19009
Abstract ID:560
Candidate for Awards:None