Genome-Wide Analysis of NBS-LRR Genes in Sorghum Genome Revealed Several Events Contributing to NBS-LRR Gene Evolution in Grass Species

Evolutionary Bioinformatics Online
Xiping Yang, Jianping Wang

Abstract

The nucleotide-binding site (NBS)-leucine-rich repeat (LRR) gene family is crucially important for offering resistance to pathogens. To explore evolutionary conservation and variability of NBS-LRR genes across grass species, we identified 88, 107, 24, and 44 full-length NBS-LRR genes in sorghum, rice, maize, and Brachypodium, respectively. A comprehensive analysis was performed on classification, genome organization, evolution, expression, and regulation of these NBS-LRR genes using sorghum as a representative of grass species. In general, the full-length NBS-LRR genes are highly clustered and duplicated in sorghum genome mainly due to local duplications. NBS-LRR genes have basal expression levels and are highly potentially targeted by miRNA. The number of NBS-LRR genes in the four grass species is positively correlated with the gene clustering rate. The results provided a valuable genomic resource and insights for functional and evolutionary studies of NBS-LRR genes in grass species.

References

Mar 1, 1981·Cell·P A Sharp
Dec 26, 2001·Molecular Biology and Evolution·Erik RichlyDario Leister
Apr 3, 2003·The Plant Cell·Blake C MeyersRichard W Michelmore
Dec 6, 2006·Nucleic Acids Research·Shu OuyangC Robin Buell
Mar 11, 2008·Cell Host & Microbe·Jeffrey CaplanSavithramma P Dinesh-Kumar
May 31, 2008·BMC Bioinformatics·Frank M YouOlin D Anderson
Dec 17, 2008·The Plant Cell·Blake C MeyersJian-Kang Zhu
Feb 4, 2009·Nature·Andrew H PatersonDaniel S Rokhsar
Mar 18, 2009·Bioinformatics·Cole TrapnellSteven L Salzberg
Dec 8, 2009·Science·Patrick S SchnableRichard K Wilson
Feb 12, 2010·Nature·UNKNOWN International Brachypodium Initiative
May 21, 2010·Current Opinion in Plant Biology·Timothy K Eitas, Jeffery L Dangl
May 31, 2011·Nucleic Acids Research·Xinbin Dai, Patrick Xuechun Zhao
Nov 20, 2012·Nucleic Acids Research·Walter SanseverinoMaria Raffaella Ercolano
Mar 15, 2013·Molecular Biology and Evolution·Barry G Hall
Apr 4, 2013·International Journal of Molecular Sciences·Daniela MaroneAnna M Mastrangelo
Oct 18, 2013·Molecular Biology and Evolution·Koichiro TamuraSudhir Kumar
Jan 24, 2014·Bioinformatics·Philip JonesSarah Hunter
Mar 13, 2014·BMC Genomics·Rongzhi ZhangJerome Salse
Apr 4, 2014·Bioinformatics·Anthony M BolgerBjoern Usadel

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Citations

Jun 6, 2018·International Journal of Molecular Sciences·Grazia M BorrelliAnna M Mastrangelo
May 21, 2019·Plant & Cell Physiology·Richard RigoCéline Charon
Sep 28, 2021·Frontiers in Plant Science·Tinggang LiNikhilesh Dhar

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Methods Mentioned

BETA
RNA-seq

Software Mentioned

Trimmomatic
MEGA
MapDraw
ProScan
Inter
GENECONV
Primer3
InterProScan
MISA
TopHat

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