Identification of genes differentially expressed between resistant and susceptible tomato lines during time-course interactions with Xanthomonas perforans race T3

PLoS ONE

Volumn 9, Issue 3, 2014, Pages

  Du, Heshan ^a   Li, Wenhui ^a   Wang, Yuqing ^a   Yang, Wencai ^a  

^a CHINA AGRICULTURAL UNIVERSITY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

COMPLEMENTARY DNA; TRANSCRIPTOME;

AMPLIFIED FRAGMENT LENGTH POLYMORPHISM; ARTICLE; CONTROLLED STUDY; DOWN REGULATION; GENE EXPRESSION; GENE IDENTIFICATION; GENETIC TRANSCRIPTION; NONHUMAN; NUCLEOTIDE SEQUENCE; REAL TIME POLYMERASE CHAIN REACTION; TOMATO; UPREGULATION; XANTHOMONAS; XANTHOMONAS PERFORANS; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENETICS; MICROBIOLOGY; PLANT DISEASE; PLANT GENE; PROCEDURES;

AMPLIFIED FRAGMENT LENGTH POLYMORPHISM ANALYSIS; DNA, COMPLEMENTARY; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, PLANT; GENES, PLANT; LYCOPERSICON ESCULENTUM; PLANT DISEASES; TRANSCRIPTOME; XANTHOMONAS;

EID: 84899840185     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0093476     Document Type: Article

References (56)

1. Yang W (2013) Recent advances on genetics and mapping of resistance to bacterial spot in tomato. Acta Hortic Sin 40: 1731-1740.
2. Jones JB, Lacy GH, Bouzar H, Minsavage GV, Stall RE, et al. (2005) Bacterial spot - Worldwide distribution, importance and review. Acta Hortic 695: 27-33.
3. Jones JB, Bouzar H, Stall RE, Almira EC, Roberts PD, et al. (2000) Systematic analysis of xanthomonads (Xanthomonas spp.) associated with pepper and tomato lesions. Int J Syst Evol Microbiol 50: 1211-1219.
4. Astua-Monge G, Minsavage GV, Stall RE, Davis MJ, Bonas U, et al. (2000) Resistance of tomato and pepper to T3 strains of Xanthomonas campestris pv. vesicatoria is specified by a plant-inducible. Mol Plant Microbe In 13: 911-921.
5. Stall RE, Jones JB, Minsavage GV (2009) Durability of resistance in tomato and pepper to Xanthomonads causing bacterial spot. Annu Rev Phytopathol 47: 265-284.
6. Yang W, Chen J, Zhang X, Francis DM, Yang WC, et al. (2007) Recent advances in classification of tomato bacterial spot pathogen, genetics of resistance, and marker-assisted selection. Sci Agric Sin 40: 283-290.
7. Scott JW, Stall RE, Jones JB, Somodi GC (1996) A single gene controls the hypersensitive response of Hawaii 7981 to race 3 (T3) of the bacterial spot pathogen. Rpt Tomato Genet Coop 46: 23.
8. Pei C, Wang H, Zhang J, Wang Y, Francis DM, et al. (2012) Fine mapping and analysis of a candidate gene in tomato accession PI128216 conferring hypersensitive resistance to bacterial spot race T3. Theor Appl Genet 124: 533-542.
9. Sun H, Liu X, Li W, Yang W (2011) Preliminary mapping of a gene in tomato accession LA1589 conferring resistance to race T3 of bacterial spot. J Agr Univ Hebei 34 (6): 65-69.
10. Scott JW, Jones JB, Somodi GC (2001) Inheritance of resistance in tomato to race T3 of the bacterial spot pathogen. J Am Soc Hortic Sci 126: 436-441.
11. Robbins MD, Darrigues A, Sim S-C, Masud MAT, Francis DM (2009) Characterization of hypersensitive resistance to bacterial spot race T3 (Xanthomonas perforans) from tomato accession PI 128216. Phytopathology 99: 1037-1044.
12. Scott JW, Francis DM, Miller SA, Somodi GC, Jones JB (2003) Tomato bacterial spot resistance derived from PI 114490; Inheritance of resistance to race T2 and relationship across three pathogen races. J Am Soc Hortic Sci 128: 698-703.
13. Hutton SF, Scott JW, Yang W, Sim S-C, Francis DM, et al. (2010) Identification of QTL associated with resistance to bacterial spot race T4 in tomato. Theor Appl Genet 121: 1275-1287.
14. Sun H, Zhang J, Wang Y, Scott JW, Francis DM, et al. (2011) QTL analysis of resistance to bacterial spot race T3 in tomato. Acta Hortic Sin 38: 2297-2308.
15. Sun HJ, Wei JL, Zhang JY, Yang WC (2014) A comparison of disease severity measurements using image analysis and visual estimates using a category scale for genetic analysis of resistance to bacterial spot in tomato. Eur J Plant Pathol DOI 10.1007/s10658-013-0371-8.
16. Gibly A, Bonshtien A, Balaji V, Debbie P, Martin GB, et al. (2004) Identification and expression profiling of tomato genes differentially regulated during a resistance response to Xanthomonas campestris pv. vesicatoria. Mol Plant Microbe In 17: 1212-1222.
17. Balaji V, Gibly A, Debbie P, Sessa G (2007) Transcriptional analysis of the tomato resistance response triggered by recognition of the Xanthomonas type III effector AvrXv3. Funct Integr Genomics 7: 305-316.
18. Melech-Bonfil S, Sessa G (2010) Tomato MAPKKKe is a positive regulator of cell-death signaling networks associated with plant immunity. Plant J 64: 379-391.
19. Melech-Bonfil S, Sessa G (2011) The SlMKK2 and SlMPK2 genes play a role in tomato disease resistance to Xanthomonas campestris pv. vesicatoria. Plant Signal Behav 6: 154-156.
20. Vuylsteke M, Peleman JD, van Eijk MJT (2007) AFLP-based transcript profiling (cDNA-AFLP) for genome-wide expression analysis. Nat Protoc 2: 1399-1413.
21. Daurelio LD, Petrocelli S, Blanco F, Holuigue L, Ottado J, et al. (2011) Transcriptome analysis reveals novel genes involved in nonhost response to bacterial infection in tobacco. J Plant Physiol 168: 382-391.
22. Dinari A, Niazi A, Afsharifar AR, Ramezani A (2013) Identification of upregulated genes under cold stress in cold-tolerant chickpea using the cDNA-AFLP approach. Plos One 8: 52757
23. Santaella M, Suarez E, Lopez C, Gonzalez C, Mosquera G, et al. (2004) Identification of genes in cassava that are differentially expressed during infection with Xanthomonas axonopodis pv. manihotis. Mol Plant Pathol 5: 549-558.
24. Reijans M, Lascaris R, Groeneger AO, Wittenberg A, Wesselink E, et al. (2003) Quantitative comparison of cDNA-AFLP, microarrays, and GeneChip expression data in Saccharomyces cerevisiae. Genomics 82: 606-618.
25. Gabriëls SHEJ, Takken FLW, Vossen JH, de Jong CF, Liu Q, et al. (2006) cDNA-AFLP combined with functional analysis reveals novel genes involved in the hypersensitive response. Mol Plant Microbe In 19: 567-576.
26. Polesani M, Desario F, Ferrarini A, Zamboni A, Pezzotti M, et al. (2008) cDNA-AFLP analysis of plant and pathogen genes expressed in grapevine infected with Plasmopara viticola. BMC Genomics 9: 142.
27. Lin YT, Jan FJ, Lin CW, Chung CH, Chen JC, et al. (2013) Differential gene expression in response to Papaya ringspot virus infection in Cucumis metuliferus using cDNA-amplified fragment length polymorphism analysis. Plos One 8: e68749.
28. Lelliot RA, Stead DE (1987) Methods for the diagnosis of bacterial diseases of plants. Blackwell Scientific Publication Ltd., Oxford.
29. Bachem CWB, Oomen R, Visser RGF (1998) Transcript imaging with cDNA-AFLP: A step-by-step protocol. Plant Mol Biol Rep 16: 157-173.
30. Chen J, Wang H, Shen H, Chai M, Li J, et al. (2009) Genetic variation in tomato populations from four breeding programs revealed by single nucleotide polymorphism and simple sequence repeat markers. Sci Hortic 122: 6-16.
31. Chen ZZ, Xue CH, Zhu S, Zhou FF, Ling XFB, et al. (2005) GoPipe: Streamlined Gene Ontology annotation for batch anonymous sequences with statistics. Prog Biochem Biophys 32: 187-190.
32. Ye J, Fang L, Zheng H, Zhang Y, Chen J, et al. (2006) WEGO: a web tool for plotting GO annotations. Nucleic Acids Res 34 (web service issue): 293-297.
33. Schmittgen TD, Livak KJ (2008) Analyzing real-time PCR data by the comparative C-T method. Nat Protoc 3: 1101-1108.
34. Sheng J, Mehdy MC (1993) Isolation and characterization of a cDNA clone encoding a small wound-inducible protein from Phaseolus vulgaris. Plant Physiol 101: 1409.
35. Balaji V, Mayrose M, Sherf O, Jacob-Hirsch J, Eichenlaub R, et al. (2008) Tomato transcriptional changes in response to Clavibacter michiganensis subsp. michiganensis reveal a role for ethylene in disease development. Plant Physiol 146: 1797-1809.
36. Nicot N, Hausman JF, Hoffmann L, Evers D (2005) Housekeeping gene selection for real-time RT-PCR normalization in potato during biotic and abiotic stress. J Exp Bot 56: 2907-2914.
37. Orlowska E, Fiil A, Kirk H-G, Llorente B, Cvitanich C (2012) Differential gene induction in resistant and susceptible potato cultivars at early stages of infection by Phytophthora infestans. Plant Cell Rep 31: 187-203.
38. Thieme F, Koebnik R, Bekel T, Berger C, Boch J, et al. (2005) Insights into genome plasticity and pathogenicity of the plant pathogenic bacterium Xanthomonas campestris pv. vesicatoria revealed by the complete genome sequence. J Bacteriol 187: 7254-7266.
39. Potnis N, Krasileva K, Chow V, Almeida NF, Patil PB, et al. (2011) Comparative genomics reveals diversity among xanthomonads infecting tomato and pepper. BMC Genomics 12.
40. Panstruga R, Parker JE, Schulze-Lefert P (2009) SnapShot: Plant immune response pathways. Cell 136: 978.e1-3.
41. Broekaert WF, Delaure SL, De Bolle MFC, Cammue BPA (2006) The role of ethylene in host-pathoven interactions. Annu Rev Phytopathol 44: 393-416.
42. Zhou JM, Tang XY, Martin GB (1997) The Pto kinase conferring resistance to tomato bacterial speck disease interacts with proteins that bind a cis-element of pathogenesis-related genes. EMBO J 16: 3207-3218.
43. Abeles FB, Morgan PW, Saltveit ME Jr (1992) Ethylene in Plant Biology, Second edition. Academic Press, London.
44. O'Donnell PJ, Schmelz EA, Moussatche P, Lund ST, Jones JB, et al. (2003) Susceptible to intolerance - a range of hormonal actions in a susceptible Arabidopsis pathogen response. Plant J 33: 245-257.
45. Gu YQ, Wildermuth MC, Chakravarthy S, Loh YT, Yang CM, et al. (2002) Tomato transcription factors Pti4, Pti5, and Pti6 activate defense responses when expressed in Arabidopsis. Plant Cell 14: 817-831.
46. Gu YQ, Martin GB (1998) Molecular mechanisms involved in bacterial speck disease resistance of tomato. Philos Trans R Soc Lond B Biol Sci 353: 1455-1461.
47. Gu YQ, Yang C, Thara VK, Zhou J, Martin GB (2000) Pti4 is induced by ethylene and salicylic acid, and its product is phosphorylated by the Pto kinase. Plant Cell 12: 771-785.
48. Bent AF, Innes RW, Ecker JR, Staskawicz BJ (1992) Disease development in ethylene-insensitive arabidopsis-thaliana infected with virulent and avirulent Pseudomonas and Xanthomonas pathogens. Mol Plant Microbe In 5: 372-378.
49. Hoffman T, Schmidt JS, Zheng XY, Bent AF (1999) Isolation of ethylene-insensitive soybean mutants that are altered in pathogen susceptibility and gene-for-gene disease resistance. Plant Physiol 119: 935-949.
50. Grant MR, Jones JDG (2009) Hormone (dis)harmony moulds plant health and disease. Science 324: 750-752.
51. Demianski AJ, Chung KM, Kunkel BN (2012) Analysis of Arabidopsis JAZ gene expression during Pseudomonas syringae pathogenesis. Mol Plant Pathol13: 46-57.
52. Froehlich JE, Itoh A, Howe GA (2001) Tomato allene oxide synthase and fatty acid hydroperoxide lyase, two cytochrome P450s involved in oxylipin metabolism, are targeted to different membranes of chloroplast envelope. Plant Physiol 125: 306-317.
53. Wasternack C (2007) Jasmonates: An update on biosynthesis, signal transduction and action in plant stress response, growth and development. Ann Bot 100: 681-697.
54. Shi C, Chaudhary S, Yu K, Park SJ, Navabi A, et al. (2011) Identification of candidate genes associated with CBB resistance in common bean HR45 (Phaseolus vulgaris L.) using cDNA-AFLP. Mol Biol Rep 38: 75-81.
55. Chung HS, Howe GA (2009) A critical role for the TIFY motif in repression of Jasmonate signaling by a stabilized splice variant of the JASMONATE ZIM-Domain protein JAZ10 in Arabidopsis. Plant Cell 21: 131-145.
56. Chung HS, Cooke TF, DePew CL, Patel LC, Ogawa N, et al. (2010) Alternative splicing expands the repertoire of dominant JAZ repressors of jasmonate signaling. Plant J 63: 613-622.