Identification of NBS-Type Resistance Gene Homologs in Tobacco Genome

  • Xiaodong Leng
  • Bingguang Xiao
  • Sheng Wang
  • Yijie Gui
  • Yu Wang
  • Xiuping Lu
  • Jiahua Xie
  • Yongping Li
  • Longjiang Fan


Tobacco (Nicotiana tabacum) is an important cash crop and an ideal experimental system for studies on plant–pathogen interaction. The sequenced tobacco genome provides an opportunity for examining resistance gene homologs (RGHs) in the tobacco genome. Thirty nucleotide-binding site-type RGHs were annotated from genomic data, and another 281 putative RGHs were identified via PCR amplification from wild and cultivated tobacco. The newly identified RGHs are similar to other known RGHs, and some were categorized into new groups or branches that are different from known Nicotiana R genes or RGHs. Of the 281RGHs, 146 were identified from a single tobacco genome. We did not find any polymorphism at the RGHs in cultivated accessions, implying that strong domestication selection and/or demographic effects might have caused a sharp reduction in nucleotide diversity. Three positive selection sites were found in several RGH groups, while purifying selection is pervasive in the RGH family. Our results provide a primary RGH pool and several positively selected sites for the further functional validation of resistance genes in tobacco.


Nicotiana tabacum Resistance gene homolog (RGH) Resistance gene analog (RGA) Positive selection Genetic diversity 



resistance gene homolog


resistance gene analog


nucleotide-binding site




leucine-rich repeat


Tobacco Genome Initiative




Toll-IL-1 resistance


expressed sequence tag


basic local alignment search tool


likelihood ratio test


Bayes empirical Bayes


single nucleotide polymorphism


random amplified polymorphic DNA


amplified fragment length polymorphism



This work was supported by the Yunnan Tobacco Company, which is affiliated with the China Tobacco Company (06A03). We thank Prof. Mingwei Gao (Zhejiang University) for his critical reading of the manuscript.

Supplementary material

11105_2009_134_MOESM1_ESM.doc (24 kb)
Figure S1 PCR amplification gel for tobacco RGHs (DOC 25 kb)
11105_2009_134_MOESM2_ESM.doc (40 kb)
Figure S2 Phylogenetic trees constructed by neighbor-joining methods based on the nucleotide sequences of tobacco RGH groups. A NBS226; B NBS173; C NBS271; D NBS374; E Nbs359; F NBS182; G NBS334; H NBS267; I NBS329 (DOC 40 kb)
11105_2009_134_MOESM3_ESM.doc (384 kb)
Figure S3 Alignment of sequences containing the NBS domain of an RGH (NBS133) from wild and cultivated tobacco (DOC 393 kb)
11105_2009_134_MOESM4_ESM.doc (52 kb)
Table S1 (DOC 53 kb)
11105_2009_134_MOESM5_ESM.doc (30 kb)
Table S2 (DOC 31 kb)
11105_2009_134_MOESM6_ESM.doc (30 kb)
Table S3 (DOC 30 kb)


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Copyright information

© Springer-Verlag 2009

Authors and Affiliations

  • Xiaodong Leng
    • 1
    • 2
  • Bingguang Xiao
    • 2
  • Sheng Wang
    • 1
  • Yijie Gui
    • 1
  • Yu Wang
    • 1
  • Xiuping Lu
    • 2
  • Jiahua Xie
    • 3
  • Yongping Li
    • 2
  • Longjiang Fan
    • 1
  1. 1.Institute of Crop ScienceZhejiang UniversityHangzhouChina
  2. 2.Joint Laboratory of Tobacco BioinformaticsYunnan Institute of Tobacco ScienceYuxiChina
  3. 3.Department of Pharmaceutical SciencesNorth Carolina Central UniversityDurhamUSA

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