An overall evaluation of the resistance (R) and pathogenesis-related (PR) super families in soybean, as compared with Medicago and Arabidopsis

Genetics and Molecular Biology

Volumn 35, Issue SUPPL.1, 2012, Pages 260-271

  Wanderley Nogueira, Ana C ^a   Belarmino, Luis C ^a   Soares Cavalcanti, Nina Da M ^a   Bezerra Neto, João P ^a   Kido, Ederson A ^a   Pandolfi, Valesca ^a   Abdelnoor, Ricardo V ^b   Binneck, Eliseu ^b   Carazzole, Marcelo F ^c   Benko Iseppon, Ana M ^a  

^a DEPARTAMENTO DE MICOLOGIA   (Brazil)

^b EMBRAPA CERRADOS   (Brazil)

^c UNIVERSITY OF CAMPINAS   (Brazil)

Author keywords

Bioinformatics; Biotic stress; Glycine max; Medicago truncatula; Pathogen response

Indexed keywords

TRANSCRIPTOME; PATHOGENESIS RELATED PROTEIN; PR2 PROTEIN; RESISTANCE PROTEIN; SOYBEAN PROTEIN; UNCLASSIFIED DRUG; VEGETABLE PROTEIN; XA21 PROTEIN;

ARABIDOPSIS; ARTICLE; CONTROLLED STUDY; GENE EXPRESSION REGULATION; GENE STRUCTURE; GENETIC ASSOCIATION; GENETIC SCREENING; MEDICAGO; MOLECULAR EVOLUTION; NONHUMAN; PATHOGENESIS RELATED GENE; PHYLOGENY; PLANT GENE; PLANT GENETICS; PLANT SEED; POPULATION ABUNDANCE; RESISTANCE GENE; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS; SPECIES COMPARISON; TRANSCRIPTION REGULATION; BRAZIL; EXPRESSED SEQUENCE TAG; GENE EXPRESSION; GENE EXPRESSION PROFILING; GENE LIBRARY; GENE SEQUENCE; GENETIC CONSERVATION; GENETIC VARIABILITY; PATHOGENESIS; PLANT DEVELOPMENT; PLANT PATHOGEN INTERACTION; PLANT TISSUE; SIGNAL TRANSDUCTION; SOYBEAN; SPECIES DIVERSITY; TRANSCRIPTOMICS;

ARABIDOPSIS; GLYCINE MAX; MEDICAGO; MEDICAGO TRUNCATULA;

EID: 84863003744     PISSN: 14154757     EISSN: 16784685     Source Type: Journal    
DOI: 10.1590/S1415-47572012000200007     Document Type: Article

References (66)

1. Alberts B, Johnson A, Lewis J, Raff M, Roberts K and Walter P (2002) Molecular Biology of the Cell. 4th edition. Garland Publishing Company, New York & London, 1616 pp.
2. Altschul SF, Gish W, Miller W and Myers E (1990) Basic local alignment search tool. J Mol Biol 215:403-410.
3. Ashfield T, Bocian A, Held D, Henk AD, Marek LF, Danesh D, Penuela S, Meksem K, Lightfoot DA, Young ND, et al (2003) Genetic and physical localization of the soybean Rpg1-b disease resistance gene reveals a complex locus containing several tightly linked families of NBS-LRR genes. Mol Plant Microbe Interact 16:817-826.
4. Atici O and Nalbantoglu B (2003) Antifreeze proteins in higher plants. Phytochemistry 64:1187-1196.
5. Barbosa-da-Silva A, Wanderley-Nogueira AC, Silva RRM, Belarmino LC, Soares-CavalcantiNM and Benko-Iseppon AM (2005) In silico survey of resistance (R) genes in Eucalyptus transcriptome. Genet Mol Biol 28:562-574.
6. Benko-Iseppon AM, Galdino SL, Calsa Júnior T, Kido EA, Tossi A, Belarmino LC and Crovella S (2010) Overview of plant antimicrobial peptides. Curr Prot Pept Sci 11:181-188.
7. Bent AF (1996) Plant disease resistance genes: Function meets structure. Plant Cell 8:1751-1771.
8. Bolton M (2009) Primary metabolism and plant defense-Fuel for the fire. Mol Plant Microbe Interact 22:487-497.
9. Bonas U and Anckerveken GV (1999) Gene-for-gene interactions: Bacterial avirulence proteins specify plant disease resistance. Curr Opin Plant Biol 2:94-98.
10. Bonasera JM, Kim JF and Beer SV (2006) PR genes of apple: Identification and expression in response to elicitors and inoculation with Erwinia amylovora. BMC Plant Biol 6:23-34.
11. Cannon SB, May GD and Jackson SA (2009) Three sequenced legume genomes and many crop species: Rich opportunities for translational genomics. Plant Physiol 151:970-977.
12. Chester KS (1933) The problem of acquired physiological immunity in plants. Quart Rev Phytopathol 42:185-209.
13. Dafny-Yelin M and Tzfira T (2007) Delivery of multiple trans-genes to plant cells. Plant Physiol 145:1118-1128.
14. Dinesh-Kumar SP, Whitham S, Choi D, Hehl R, Corr C and Baker B (1995) Transposon tagging of tobacco mosaic virus resistance gene N:I its possible role in the TMV-N-mediated signal transduction pathway. Proc Natl Acad Sci USA 92:4175-4180.
15. Dixon MS, Jones DA, Keddie JS, Thomas CT, Harrison K and Jones JDG (1996) The tomato Cf2 disease resistance locus comprises two functional genes encoding leucine rich repeats proteins. Cell 84:451-459.
16. Durrant WE and Dong X (2004) Systemic acquired resistance. Annu Rev Plant Pathol 42:185-209.
17. Eisen MB, Spellman PT, Brown PO and Botstein B (1998) Cluster analysis and display of genome-wide expression patterns. Genetics 25:14863-14868.
18. Ellis J and Jones D (2000) Structure and function of proteins controlling strain-specific pathogen resistance in plants. Curr Opin Plant Biol 1:288-293.
19. Ellis J, Lawrence GJ, Finnegan EJ and Anderson PA (1995) Contrasting complexity of two rust resistance loci in flax. Proc Natl Acad Sci USA 92:4185-4188.
20. Ellis J, Dodds P and Pryor T (2000) Structure, function and evolution of plant disease resistance genes. Curr Opin Plant Biol 3:278-284.
21. Gaffney T, Friedrich L, Vernooij B, Negrotto D, Nye G, Ukness S, Ward E, Kessman Hand Ryals J (1993) Requirementofsalicylic acid for the induction of systemic acquired resistance. Science 261:754-756.
22. Glombitza S, Dubuis P-H, Thulke O, Welzl G, Bovet L, Götz M, Affenzeller M, Geist B, Hehn A, Asnaghi C, et al (2004) Crosstalk and differential response to abiotic and biotic stressors reflected at the transcriptional level of effector genes from secondary metabolism. Plant Mol Biol 54:817-835.
23. Griffith M and Yaish MWF (2004) Antifreeze proteins in overwintering plants: A tale of two activities. Trends Plant Sci 9:399-405.
24. Hammond-Kosack KE and Jones JDG (1997) Plant disease resistance genes. Annu Rev Plant Physiol 48:575-607.
25. Hon WC, Griffith M, Mlynarz A, Kwok YC and Yang DSC (1995) Antifreeze proteins in winter rye are similar to pathogenesis-related proteins. Plant Physiol 109:879-889.
26. Hulbert SH, Webb CA, Smith SM and Sun Q (2001) Resistance gene complexes: Evolution and utilization. Annu Rev Phytopathol 39:285-312.
27. Joahal GS and Briggs SP (1992) Reductase activity encodes by the Hm1 resistance gene in maize. Science 198:985-987.
28. Kanazin V, Marek LF and Shoemaker RC (1996) Resistance gene analogs are conserved and clustered in soybean. Proc Natl Acad Sci USA 93:11746-11750.
29. Kido EA, Barbosa PK, Ferreira Neto JCR, Pandolfi V, Houllou-Kido LM, Crovella S and Benko-Iseppon AM (2011) Identification of plant protein kinases in response to abiotic and biotic stresses using SuperSAGE. Curr Prot Pept Sci 12:643-656.
30. Kitajima S and Sato F (1999) Plant pathogenesis-related proteins: Molecular mechanisms of gene expression and protein function. J Biochem 125:1-8.
31. Lavin M, Herendeen PS and Wojciechowski MF (2005) Evolutionary rates analysis of Leguminosae implicates a rapid diversification of lineages during the tertiary. Syst Biol 54:575-594.
32. Lawrence GJ, Finnegan EJ, Ayliffe MA and Ellis JG (1995) The L6 gene for flax rust resistance is related to the Arabidopsis bacterial resistance gene RPS2 and the tobacco viral resistance gene N. Plant Cell 7:1195-1206.
33. Leubner-Metzger G (2005) β-1,3-glucanase gene expression in low-hydrated seeds as a mechanism for dormancy release during tobacco after-ripening. Plant J 41:133-145.
34. Li L, He H, Zhang J, Wang X, Bai S, Stolc V, Tongprasit W, Young ND, Yu O and Deng XW (2008) Transcriptional analysis of highly syntenic regions between Medicago truncatula and Glycine max using tiling microarrays. Genome Biol 9:R57.
35. Libault M, Farmer A, Joshi T, Takahashi K, Langley RJ, Franklin LD, He J, Xu D, May G and Stacey G (2010) An integrated transcriptome atlas of the crop model Glycine max and its use in comparative analyses in plants. Plant J 63:86-99.
36. Liu B, Zhang S, Zhu X, Yang Q, Wu S, Mei M, Mauleon R, Leach J, Mew T and Leung H (2004) Candidate defense genes as predictors of quantitative blast resistance in rice. Mol Plant Microbe Int 17:1146-1152.
37. Maisonneuve B, Bellec Y, Anderson P and Michelmore RW (1994) Rapid mapping of two genes for resistance to downy mildew from Lactuca serriola to existing clusters of resistance genes. Theor Appl Genet 89:96-104.
38. Matsumura H, Kruger DH, Kahl G and Terauchi R (2008) SuperSAGE: A modern platform for genome-wide quantitative transcript profiling. Curr Pharm Biotechnol 9:368-374.
39. Melotto M, Coelho MF, Pedrosa-Harand A, Kelly JD and Camargo LE (2004) The anthracnose resistance locus Co-4 of common bean is located on chromosome 3 and contains putative disease resistance-related genes. Theor Appl Genet 109:690-699.
40. Metzler MC, Cutt JR and Klessig DF (1991) Isolation and characterization of a gene encoding a PR-1 like protein from Arabidopsis thaliana. Plant Physiol 96:346-348.
41. Michelmore RW and Meyers BC (1998) Clusters of resistance genes in plants evolve by divergent selection and a birth-and-death process. Genome Res 8:1113-1130.
42. Mindrinos M, Katagiri F, Yu GL and Ausubel FM (1994) The Arabidopsis thaliana disease resistance gene encodes a protein containing a nucleotide-binding site and leucine rich repeats. Cell 78:1089-1099.
43. Mudge J, Cannon SB, Kalo P, Oldroyd GE, Roe BA, Town CD and Young ND (2005) Highly syntenic regions in the genomes of soybean, Medicago truncatula and Arabidopsis thaliana. BMC Plant Biol 5:e15.
44. Nanda AK, Andrio E, Marino D, Pauly N and Dunand C (2010) Reactive Oxygen Species during plant-microorganism early interactions. J Integr Plant Biol 52:195-204.
45. Nurnberg T and Brunner F (2002) Innate immunity in plants and animals: Emerging parallels between the recognition of general elicitors and pathogen-associated molecular patterns. Curr Opin Plant Biol 5:318-324.
46. Page RD (1996) Treeview program, ver. 1.6.1. Comp Appl Biosci 12:357-358.
47. Rayapati PJ, Lee M, Gregory JW and Wise RP (1994) A linkage map of diploid Avena based on RFLP loci and a locus conferring resistance to nine isolates of Puccinia coronata var. 'avenae'. Theor Appl Genet 89:831-837.
48. Salmeron JM, Oldroyd GED, Romens CMT, Scofield SR, Kim HS, Lavelle DT, Dahlbeck D and Staskawicz BJ (1996) Tomato Prf is a member of the leucine rich repeats class of plant disease resistance genes and lies embedded within the Pto kinase gene cluster. Cell 86:123-133.
49. Shoemaker RC, Schlueter J and Doyle JJ (2006) Paleopolyploidy and gene duplication in soybean and other legumes. Curr Opin Plant Biol 9:104-109.
50. Song WY, Pi LY, Wang GL, Gardner J, Holsten T and Ronald PC (1997) Evolution of the rice Xa21 disease resistance genes family. Plant Cell 9:1279-1287.
51. Song WY, Wang GL, Kim HS, Pi LY, Gardner J, Wang B, Holsten T, Zhai WX, Zhu LH, Fauquet C, et al (1995) A receptor kinase-like protein encoded by the rice disease resistance gene Xa21. Science 270:1804-1806.
52. Sparla F, Rotino L, Valgimigli MC, Pupillo P and Trost P (2004) Systemic resistance induced by benzothisdizole in pear inoculated with the agent of fire blight. Sci Hortic 101:269-279.
53. Tamura K, Dudley J, Nei M and Kumar S (2007) MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software ver. 4.0. Mol Biol Evol 24:1596-1599.
54. Tang X, Xie M, Kim YJ, Zhou J, Klessing DF and Martin GB (1999) Overexpression of Pto activates defense responses and confers broad resistance. Plant Cell 11:15-29.
55. Thiel T, Graner A, Waugh R, Grosse I, Close TJ and Stein N (2009) Evidence and evolutionary of ancient whole-genome duplication in barley predating the divergence from rice. BMC Evol Biol 9:209-227.
56. Tornero P, Gadea J, Conejero V and Vera P (1997) Two PR-1 genes from tomato are differentially regulated and reveal a novel mode of expression for a pathogenesis-related gene during the hypersensitive response and development. Plant Microbe Interact 10:624-634.
57. van-Loon LC, Geraats BPJ and Linthorst HJM (2006) Ethylene as a modulator of disease resistance in plants. Trends Plant Sci 11:184-191.
58. van-Loon LC, Pierpoint WS, Boller T and Conejero V (1999) Recommendations for naming plant pathogenesis-related proteins. Plant Mol Biol Rep 12:245-264.
59. Velazhahan R and Muthukrishnan S (2003) Transgenic tobacco plants constitutively overexpressing a rice thaumatin-like protein (PR-5) show enhanced resistance to Alternaria alternata. Plant Biol 47:347-354.
60. Vergne E, Grand X, Ballini R, Chalvon V, Saindrenan P, Tharreau D, Nottéghem J-L and Morel J-B (2010) Preformed expression of defense is a hallmark of partial resistance to rice blast fungal pathogen Magnaporthe oryzae. BMC Plant Biol 10:e206.
61. Wanderley-Nogueira AC, Mota N, Lima-Morais D, Silva LCB, Silva AB and Benko-Iseppon AM (2007) Abundance and diversity of resistance (R) genes in the sugarcane trans-criptome. Genet Mol Res 6:866-889.
62. Wang GL, Holsten TE, Song WY, Wang HP and Ronald PC (1995) Construction of a rice bacterial artificial chromosome library and identification of clones linked to the Xa21 disease resistance locus. Plant J 7:525-533.
63. Wendell J (2000) Genome evolution in polyploids. Plant Mol Biol 42:225-249.
64. Weng JK, Banks JA and Chapple C (2008) Parallels in lignin biosynthesis: A study in Selaginella moellendorffii reveals convergence across 400 million years of evolution Comm Int Biol 1:20-22.
65. Wilkstrom N, Savolainen V and Chase MW (2001) Evolution of the angiosperms: Calibrating the family tree. Proc Soc Biol Sci 268:2211-2220.
66. Zeier J, Pink B, Mueller MJ and Berger S (2004) Light conditions influence specific defense responses in incompatible plant-pathogen interactions: Uncoupling systemic resistance from salicylic acid and PR-1 accumulation. Planta 219:673-683.