Molecular Genetics and Genomics

, Volume 270, Issue 1, pp 34–45

A large scale analysis of resistance gene homologues in Arachis

  • D. J. Bertioli
  • S. C. M. Leal-Bertioli
  • M. B. Lion
  • V. L. Santos
  • G. PappasJr
  • S. B. Cannon
  • P. M. Guimarães
Original Paper

DOI: 10.1007/s00438-003-0893-4

Cite this article as:
Bertioli, D.J., Leal-Bertioli, S.C.M., Lion, M.B. et al. Mol Gen Genomics (2003) 270: 34. doi:10.1007/s00438-003-0893-4


Arachis hypogaea L., commonly known as the peanut or groundnut, is an important and widespread food legume. Because the crop has a narrow genetic base, genetic diversity in A. hypogaea is low and it lacks sources of resistance to many pests and diseases. In contrast, wild diploid Arachis species are genetically diverse and are rich sources of disease resistance genes. The majority of known plant disease resistance genes encode proteins with a nucleotide binding site domain (NBS). In this study, degenerate PCR primers designed to bind to DNA regions encoding conserved motifs within this domain were used to amplify NBS-encoding regions from Arachis spp. The Arachis spp. used were A. hypogaea var. Tatu and wild species that are known to be sources of disease resistance: A. cardenasii, A. duranensis , A. stenosperma and A. simpsonii. A total of 78 complete NBS-encoding regions were isolated, of which 63 had uninterrupted ORFs. Phylogenetic analysis of the Arachis NBS sequences derived in this study and other NBS sequences from Arabidopsis thaliana, Medicago trunculata , Glycine max , Lotus japonicus and Phaseolus vulgaris that are available in public databases This analysis indicates that most Arachis NBS sequences fall within legume-specific clades, some of which appear to have undergone extensive copy number expansions in the legumes. In addition, NBS motifs from A. thaliana and legumes were characterized. Differences in the TIR and non-TIR motifs were identified. The likely effect of these differences on the amplification of NBS-encoding sequences by PCR is discussed.


ArachisResistance genesNucleotide-binding siteLegumePeanut

Supplementary material

Arachis_RGHs_ORFs_DNA.txt is a text file of the DNA sequences of the RGHs with unbroken reading frames

Arachis_RGHs_ORFs_DNA.txt (32 kb)
Arachis_RGHs_ORFs_DNA.txt (33 KB)

Arachis_RGHs_Pseudogenes_DNA.txt is a text file of the DNA sequences with broken reading frames

Arachis_RGHs_Pseudogenes_DNA.txt (7 kb)
Arachis_RGHs_Pseudogenes_DNA.txt (8 KB)

nbslrr2.hmmaln is full Arabidopsis alignment

nbslrr2.hmmaln (712 kb)
nbslrr2.hmmaln (712 KB)

nbslrr2.hmm_cln is the Arabidopsis alignment used in the tree

nbslrr2.hmm_cln (36 kb)
nbslrr2.hmm_cln (37 KB)

nbslrr2.Pzl is an Arabidopsis tree

nbslrr2.Pzl (4 kb)
nbslrr2.Pzl (5 KB)

leg_3_long_names.fas is the sequences for the Fig. 1 tree

leg_3_long_names.fas (46 kb)
leg_3_long_names.fas (46 KB)

At_leg3a.hmm_aln is the full alignment to the model

At_leg3a.hmm_aln (838 kb)
At_leg3a.hmm_aln (839 KB)

At_leg3a_trimd.fas is the alignment used in the Fig. 1 tree

At_leg3a_trimd.fas (34 kb)
At_leg3a_trimd.fas (34 KB)

At_leg3a_trimd.phb is the NJ / ML Fig. 1 tree

At_leg3a_trimd.phb (7 kb)
At_leg3a_trimd.phb (34 KB)

LegNBSLRRs3/25_tree_prs_pzl/At_Leg_cln4_prs_pzl.Pzl is the parsimony / ML tree

At_Leg_cln4_prs_pzl.Pzl (6 kb)
At_Leg_cln4_prs_pzl.Pzl (7 KB)

Copyright information

© Springer-Verlag 2003

Authors and Affiliations

  • D. J. Bertioli
    • 1
  • S. C. M. Leal-Bertioli
    • 2
  • M. B. Lion
    • 2
  • V. L. Santos
    • 1
  • G. PappasJr
    • 1
  • S. B. Cannon
    • 3
  • P. M. Guimarães
    • 2
  1. 1.Universidade Católica de BrasíliaBrasíliaBrazil
  2. 2.EMBRAPA Recursos Genéticos e BiotecnologiaBrasíliaBrazil
  3. 3.Plant Biology DepartmentUniversity of MinnesotaSt. PaulUSA