Identification, characterization, and gene expression analysis of nucleotide binding site (NB)-type resistance gene homologues in switchgrass
Author
Frazier, Taylor Price; Palmer, Nathan A.; Xie, Fuliang; Tobias, Christian M.; Donze-Reiner, Teresa J.; Bombarely, Aureliano; Childs, Kevin L.; Shu, Shengqiang; Jenkins, Jerry W.; Schmutz, Jeremy; Zhang, Baohong; Sarath, Gautam; Zhao, Bingyu
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.
Date
2016-11-08
Citation:
APA:
Frazier, Taylor Price, & Palmer, Nathan A., & Xie, Fuliang, & Tobias, Christian M., & Donze-Reiner, Teresa J., & Bombarely, Aureliano, & Childs, Kevin L., & Shu, Shengqiang, & Jenkins, Jerry W., & Schmutz, Jeremy, & Zhang, Baohong, & Sarath, Gautam, & Zhao, Bingyu. (November 2016).
Identification, characterization, and gene expression analysis of nucleotide binding site (NB)-type resistance gene homologues in switchgrass.
BMC Genomics. 2016 Nov 08,
(),
-
. Retrieved from
http://dx.doi.org/10.1186/s12864-016-3201-5http://hdl.handle.net/10342/5984
MLA:
Frazier, Taylor Price, and Palmer, Nathan A., and Xie, Fuliang, and Tobias, Christian M., and Donze-Reiner, Teresa J., and Bombarely, Aureliano, and Childs, Kevin L., and Shu, Shengqiang, and Jenkins, Jerry W., and Schmutz, Jeremy, and Zhang, Baohong, and Sarath, Gautam, and Zhao, Bingyu.
"Identification, characterization, and gene expression analysis of nucleotide binding site (NB)-type resistance gene homologues in switchgrass". BMC Genomics. 2016 Nov 08.
. (),
November 2016.
April 24, 2024.
http://dx.doi.org/10.1186/s12864-016-3201-5http://hdl.handle.net/10342/5984.
Chicago:
Frazier, Taylor Price and Palmer, Nathan A. and Xie, Fuliang and Tobias, Christian M. and Donze-Reiner, Teresa J. and Bombarely, Aureliano and Childs, Kevin L. and Shu, Shengqiang and Jenkins, Jerry W. and Schmutz, Jeremy and Zhang, Baohong and Sarath, Gautam and Zhao, Bingyu,
"Identification, characterization, and gene expression analysis of nucleotide binding site (NB)-type resistance gene homologues in switchgrass," BMC Genomics. 2016 Nov 08 , no.
(November 2016),
http://dx.doi.org/10.1186/s12864-016-3201-5http://hdl.handle.net/10342/5984 (accessed
April 24, 2024).
AMA:
Frazier, Taylor Price, Palmer, Nathan A., Xie, Fuliang, Tobias, Christian M., Donze-Reiner, Teresa J., Bombarely, Aureliano, Childs, Kevin L., Shu, Shengqiang, Jenkins, Jerry W., Schmutz, Jeremy, Zhang, Baohong, Sarath, Gautam, Zhao, Bingyu.
Identification, characterization, and gene expression analysis of nucleotide binding site (NB)-type resistance gene homologues in switchgrass. BMC Genomics. 2016 Nov 08.
November 2016;
():
.
http://dx.doi.org/10.1186/s12864-016-3201-5http://hdl.handle.net/10342/5984. Accessed
April 24, 2024.
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