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Acta Agron Sin ›› 2009, Vol. 35 ›› Issue (3): 566-570.doi: 10.3724/SP.J.1006.2009.00566

• RESEARCH NOTES • Previous Articles    

Genome-Wide Analysis of NBS-Encoding disease Resistance Genes in Maize Inbred Line B73

WANG Jie-Ming;JIANG Hai-Yang;ZHAO Yang;XIANG Yan;ZHU Su-Wen;CHENG Bei-Jiu*   

  1. School of Life Science,Anhui Agricultural University,Hefei 230036,China
  • Received:2008-08-20 Revised:2008-10-06 Online:2009-03-12 Published:2009-01-16
  • Contact: CHENG Bei-Jiu

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Abstract:

Nucleotide-binding site (NBS) disease resistance gene is a largest category in plant disease resistance genes, which is a focus in recent studies on molecular breeding of plant disease resistance. Using maize (Zea mays L.) inbred line B73, the complete set of disease resistance candidate genes that encode NBS was identified in the genome. The putative NBS genes were characterized with respect to structural diversity, phylogenetic relationships and so on. One hundred and sixty-five NBS-coding sequences were identified into two types: nonregular (12) and regular NBS genes (153). The amount of NBS genesis much smaller in maize than in japonica rice (Oryza sativa L.). The 153 regular NBS genes were categorized into eight classes, including CC-NBS-LRR, CC-NBS, NBS, NBS-NBS, NBS-LRR, NBS-NBS-LRR, NBS-X, and X-NBS, according to N-terminal motif and leucine-rich repeat (LRR) domains motif. The 165 NBS genes showed two remarkable branches in the phylogenetic tree, differing from the radiation structure in japonica rice. Gene duplication event was observed based on gene family analysis of the NBS disease-resistance genes in maize; however, the ratio of gene duplication was smaller than that in rice. This might be one of the reasons for less NBS disease-resistance genes in maize than in rice.

Key words: Zea mays L., Bioinformatics, Disease resistance gene, Nucleotide binding sity, Phylogenetic tree

[1]Duan M-X(段民孝), Zhao J-R(赵久然), Wang Y-D(王元东). Study progress in starch of corn Kerne. J Maize Sci (玉米科学), 2002, 10(1): 29–32 (in Chinese with English abstract)
[2]Richly E, Kurth J, Leister D. Mode of amplification and reorganization of resistance genes during recent Arabidopsis thaliana evolution. Mol Biol Evol, 2002, 19: 76–84
[3]Staskawicz B J, Ausubel F M, Baker B J, Ellis J G, Jones J D. Molecular genetics of plant disease resistance. Science, 1995, 268: 661–667
[4]Holub E. Arms race is an ancient history in Arabidopsis, the wildflower. Nat Rev Genet, 2001, 2: 516–527
[5]Meyers B C, Kaushik S, Nandety R S. Evolving disease resistance genes. Curr Opin Plant Biol, 2005, 8: 129–134
[6]Dangl L J, McDowell J M. Two modes of pathogen recognition by plants. Proc Natl Acad Sci USA, 2006, 103: 8575–8576
[7]Noutoshi Y, Ito T, Seki M, Nakashita H, Yoshida S, Marco Y, Shirasu K, Shinozaki K. A single amino acid insertion in the WRKY domain of the Arabidopsis TIR-NBS-LRR-WRKY-type disease resistance protein SLH1 (sensitive to low humidity 1) causes activation of defense responses and hypersensitive cell death. Plant J, 2005, 43: 873–888
[8]Montesinos E, Bonaterra A, Badosa E, Francés J, Alemany J, Llorente I, Moragrega C. Plant-microbe interactions and the new biotechnological methods of plant disease control. Int Microbiol, 2002, 5: 169–175
[9]Lupas A, Van Dyke M, Stock J. Predicting coled coils from protein sequences. Science, 1991, 252: 1162–1164
[10]Xu J H, Messing J.Organization of the prolamin gene family provides insight into the evolution of the maize genome and gene duplications in grass species. Proc Natl Acad Sci USA, 2008, 23:105–138
[11]Tian D, Traw M B, Chen J Q, Kreitman M, Bergelson J. Fitness cost of R-gene mediated resistance in Arabidopsis thaliana. Nature, 2003, 423: 74–77
[12]Chen G, Pan D, Zhou Y, Lin S, Ke X. Diversity and evolutionary relationship of nucleotide binding site-encoding disease-resistance gene analogues in sweet potato (Ipomoea batatas Lam.). J Biosci, 2007, 32: 713–721
[13]Xu Q, Wen X, Deng X. Isolation of TIR and non-TIR NBS-LRR resistance gene analogues and identification of molecular markers linked to a powdery mildew resistance locus in chestnut rose (Rosa roxburghii Tratt). Theor Appl Genet, 2005, 111: 819–830
[14]Plocik A, Layden J, Kesseli R. Comparative analysis of NBS domain sequences of NBS-LRR disease resistance genes from sunflower, lettuce, and chicory. Mol Phylogenet Evol, 2004, 31: 153–163
[15]Zhou T, Wang Y, Chen J Q, Araki H, Jing Z, Jiang K, Shen J, Tian D C. Genome-wide identification of NBS genes in japonica rice reveals significant expansion of divergent non-TIR NBS-LRR genes. Mol Genet Genomics, 2004, 271: 402–415
[16]Bai J, Pennill L A, Ning J, Lee S W, Ramalingam J, Webb C A, Zhao B, Sun Q, Nelson J C, Leach J E, Hulbert S H. Diversity in nucleotide binding site-leucine-rich repeat genes in cereals. Genome Res, 2002, 12: 1871–1884
[17]Peng G-Z(彭贵子), Chen L-L(陈玲玲), Tian D-C(田大成). Progress in the study of gene duplication. Hereditas (遗传), 2006, 28(7): 886–892 (in Chinese with English abstract)
[18]Meyers B C, Morgante M, Michelmore R W. TIR-X and TIR-NBS proteins: Two new families related to disease resistance TIR-NBS-LRR proteins encoded in Arabidopsis and other plant genomes. Plant J, 2002, 32: 77–92
[19]Meyers B C, Kozik A, Griego A, Kuang H, Michelmore R W. Genome-wide analysis of NBS-LRR-Encoding genes in Arabidopsis. Plant Cell, 2003, 15: 809–834
[20]Noir S, Combes M C, Anthony F, Lashermes P. Origin, diversity and evolution of NBS-type disease-resistance gene homologues in coffee trees (Coffea L.). Mol Genet Genomic, 2001, 265: 654–662
[21]López C E, Zuluaga A P, Cooke R, Delseny M, Tohme J, Verdier V. Isolation of resistance gene candidates (RGCs) and characterization of an RGC cluster in cassava. Mol Genet Genomic, 2003, 269: 658–671
[22]Tan X, Meyers B C, Kozik A, West M A, Morgante M, St Clair D A, Bent A F, Michelmore R W. Global expression analysis of nucleotide binding site-leucine rich repeat-encoding and related genes in Arabidopsis. BMC Plant Biol, 2007, 23: 56–76
[23]Mondragón-Palomino M, Meyers B C, Michelmore R W, Gaut B S. Patterns of positive selection in the complete NBS-LRR gene family of Arabidopsis thaliana. Genome Res, 2002, 12: 1305–1315
[24]Yaish M W, Sáenz de Miera L E, Pérez de la Vega M. Isolation of a family of resistance gene analogue sequences of the nucleotide binding site (NBS) type from Lens species. Genome, 2004, 47: 650–659
[25]Yang S H, Zhang X H, Yue J X, Tian D C, Chen J Q. Recent duplications dominate NBS-encoding gene expansion in two woody species. Mol Genet Genomics, 2008, 280: 187–198
[26]Kohler A, Rinaldi C, Duplessis S, Baucher M, Geelen D, Duchaussoy F, Meyers BC, Boerjan W, Martin F. Genome-wide identification of NBS resistance genes in Populus trichocarpa. Plant Mol Biol, 2008, 66: 619–636
[27]Pan Q, Wendel J, Fluhr R. Divergent evolution of plant NBS-LRR resistance gene homologues in dicot and cereal genomes. J Mol Evol, 2000, 50: 203–213
[28]Shirano Y, Kachroo P, Shah J, Klessig D F. A gain-of-function mutation in an Arabidopsis Toll Interleukin receptor-nucleotide binding site-leucine-rich repeat type R gene triggers defense responses and results in enhanced disease resistance. Plant Cell, 2002, 14: 3149–3162
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