Identification, characterization, and gene expression analysis of nucleotide binding site (NB)-type resistance gene homologues in switchgrass

ECU Author/Contributor (non-ECU co-authors, if there are any, appear on document)

Aureliano Bombarely (Creator)

Kevin L Childs (Creator)

Teresa J Donze-Reiner (Creator)

Taylor P Frazier (Creator)

Jerry W Jenkins (Creator)

Nathan A Palmer (Creator)

Gautam Sarath (Creator)

Jeremy Schmutz (Creator)

Shengqiang Shu (Creator)

Christian M Tobias (Creator)

Fuliang Xie (Creator)

Baohong Zhang (Creator)

Bingyu Zhao (Creator)

Institution

East Carolina University (ECU )

Web Site: http://www.ecu.edu/lib/

Abstract: "Abstract Background Switchgrass (Panicum virgatum L.) is a warm-season perennial grass that can be used as a second generation bioenergy crop. However, foliar fungal pathogens, like switchgrass rust, have the potential to significantly reduce switchgrass biomass yield. Despite its importance as a prominent bioenergy crop, a genome-wide comprehensive analysis of NB-LRR disease resistance genes has yet to be performed in switchgrass. Results In this study, we used a homology-based computational approach to identify 1011 potential NB-LRR resistance gene homologs (RGHs) in the switchgrass genome (v 1.1). In addition, we identified 40 RGHs that potentially contain unique domains including major sperm protein domain, jacalin-like binding domain, calmodulin-like binding, and thioredoxin. RNA-sequencing analysis of leaf tissue from ‘Alamo’, a rust-resistant switchgrass cultivar, and ‘Dacotah’, a rust-susceptible switchgrass cultivar, identified 2634 high quality variants in the RGHs between the two cultivars. RNA-sequencing data from field-grown cultivar ‘Summer’ plants indicated that the expression of some of these RGHs was developmentally regulated. Conclusions Our results provide useful insight into the molecular structure, distribution, and expression patterns of members of the NB-LRR gene family in switchgrass. These results also provide a foundation for future work aimed at elucidating the molecular mechanisms underlying disease resistance in this important bioenergy crop."

Additional Information

Publication

Other

BMC Genomics. 2016 Nov 08;17(1):892

Language: English

Date: 2016

Keywords

NB-LRR gene, RNA sequencing, Panicum virgatum, Disease resistance, Gene expression, Single nucleotide polymorphisms, Switchgrass, Biofuel

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