Gene expression profile in response to Xanthomonas axonopodis pv. manihotis infection in cassava using a cDNA microarray

Plant Molecular Biology

Volumn 57, Issue 3, 2005, Pages 393-410

  Lopez, Camilo ^a   Soto, Mauricio ^b   Restrepo, Silvia ^b   Piégu, Benoît ^a   Cooke, Richard ^a   Delseny, Michel ^a   Tohme, Joe ^b   Verdier, Valérie ^a  

^a INSTITUT DE RECHERCHE POUR LE DÉVELOPPEMENT   (France)

^b Biotechnology Research Unit   (Colombia)

Author keywords

Cassava; EST; Gene expression; Microarray; QRT PCR; Resistance

Indexed keywords

CLONING; DATABASE SYSTEMS; ENZYMES; GENES; PHOTOSYNTHESIS; STRAIN;

CDNA MICROARRAYS; GENE EXPRESSION; PATHOGENESIS-RELATED (PR) GENES; POLYMERASE CHAIN REACTION (PCR);

DNA;

ARTICLE; CASSAVA; CLUSTER ANALYSIS; COMPARATIVE STUDY; DNA MICROARRAY; EXPRESSED SEQUENCE TAG; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENETICS; GROWTH, DEVELOPMENT AND AGING; METHODOLOGY; MICROBIOLOGY; REPRODUCIBILITY; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; XANTHOMONAS;

CLUSTER ANALYSIS; EXPRESSED SEQUENCE TAGS; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, PLANT; MANIHOT; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; REPRODUCIBILITY OF RESULTS; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; XANTHOMONAS;

CLONES; DATA BASES; ENZYMES; GENES; NUCLEIC ACIDS; PHOTOSYNTHESIS; STRAINS;

MANIHOT ESCULENTA; XANTHOMONAS; XANTHOMONAS AXONOPODIS PV. MANIHOTIS;

EID: 17744383849     PISSN: 01674412     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11103-004-7819-3     Document Type: Article

References (53)

1. A. Aharoni L.C.P. Keizer H.J. Bouwmeester Z. Sun M. Alvarez-Huerta H.A. Verhoeven J. Blaas A.M.M.L. Van Houwelingen R.C.H. De Vos H. Vander Voet R.C. Jansen M. Guis J. Mol R.W. Davis M. Schena A.J. Van Tunen A.P. O'Connell 2000 Identification of the SAAT gene involved in strawberry flavor biogenesis by use of DNA microarrays Plant Cell 12 647 661
2. A. Aharoni L.C. Keizer H.C. Van Den Broeck R. Blanco-Portales J. Munoz-Blanco G. Bois P. Smit R.C. De Vos A.P. O'Connell 2002 Novel insight into vascular, stress, and auxin-dependent and -independent gene expression programs in strawberry, a non-climacteric fruit Plant Physiol. 129 1019 1031
3. K. Appel H. Hirt 2004 Reactive oxygen species: metabolism, oxidative stress, and signal transduction Annu. Rev. Plant. Physiol. Plant. Mol. Biol. 55 373 399
4. M.J. Austin P. Muskett K. Kahn B.J. Feys J.D. Jones J.E. Parker 2002 Regulatory role of SGT1 in early R gene-mediated plant defenses Science 295 2077 2080
5. C. Azevedo A. Sadanandom K. Kitagawa A. Freialdenhoven K. Shirasu P. Schulze-Lefert 2002 The RAR1 interactor SGT1, an essential component of R gene-triggered disease resistance Science 295 2073 2076
6. A. Becker H. Berges E. Krol C. Bruand S. Ruberg D. Capela E. Lauber E. Meilhoc F. Ampe F.J. de Bruijn J. Fourment A. Francez-Charlot D. Kahn H. Kuster C. Liebe A. Puhler S. Weidner J. Batut 2004 Global changes in gene expression in Sinorhizobium meliloti 1021 under microoxic and symbiotic conditions Mol. Plant-Microbe Interact. 17 292 303
7. O. Blokhina E. Virolainen K.V. Fagerstedt 2003 Antioxidants, oxidative damage and oxygen deprivation stress: a review Ann. Bot. 91 179 194
8. W. Boerjan J. Ralph M. Baucher 2003 Lignin biosynthesis Annu. Rev. Plant. Physiol. Plant. Mol. Biol. 54 519 546
9. F. Brunner A. Stintzi B. Fritig M. Legrand 1998 Substrate specificities of tobacco chitinases Plant J. 14 225 234
10. B. Bucciarelli H.G. Jung M.E. Ostry N.A. Andrerson C.P. Vance 1998 Wound response characteristics as related to phenylpropanoid enzyme activity and lignin deposition in reistant and susceptible Populus tremuloides inoculated with Entoleuca mammata (Hypoxylon mammatum) Can. J. Bot. 76 1282 1289
11. C. Dowd I.W. Wilson H. McFadden 2004 Gene expression profile changes in cotton root and hypocotyl tissues in response to infection with Fusarium oxysporum f. sp. vasinfectum Mol. Plant-Microbe Interact. 17 654 667
12. C. Ellis J.G. Turner A. Devoto 2002 Protein complexes mediate signalling in plant responses to hormones, light, sucrose and pathogens Plant Mol. Biol. 50 971 980
13. I.B.F. Fofana A. Sangaré R. Collier Ch. Taylor C.M. Fauquet 2004 A geminivirus-induced gene silencing system for gene function validation in cassava Plant Mol. Biol. 56 613 624
14. B. Fritig T. Heitz M. Legrand 1998 Antimicrobial proteins in induced plant defense Curr. Opin. Immunol. 10 16 22
15. I. Guterman M. Shalit N. Menda D. Piestun M. Dafny-Yelin G. Shalev E. Bar O. Davydov M. Ovadis M. Emanuel J. Wang Z. Adam E. Pichersky E. Lewinsohn D. Zamir A. Vainstein D. Weiss 2002 Rose scent: genomics approach to discovering novel floral fragrance-related genes Plant Cell 14 2325 2338
16. S.K. Hahn A.K. Howland E.R. Terry 1980 Correlated resistance of cassava to mosaic and bacterial blight diseases Euphytica 29 305 311
17. M. Heil I.T. Baldwin 2002 Fitness costs of induced resistance: emerging experimental support for a slippery concept Trends. Plant. Sci. 7 61 67
18. V. Jorge M.A. Fregene M.C. Duque M.W. Bonierbale J. Tohme V. Verdier 2000 Genetic mapping of resistance to bacterial blight disease in cassava (Manihot esculenta Crantz) Theor. Appl. Genet. 101 865 872
19. K. Kazan P.M. Schenk I. Wilson J.M. Manners 2001 DNA microarrays: New tools in the analyses of plant defence responses Mol. Plant Pathol. 2 177 185
20. K. Kpémoua B. Boher M. Nicole P. Calatayud J.P. Geiger 1996 Cytochemistry of defense responses in cassava infected by Xanthomonas campestris pv. manihotis Can. J. Microbiol. 42 1131 1143
21. C. Lamb R.A. Dixon 1997 The oxidative burst in plant disease resistance Annu. Rev. Plant. Physiol. Plant. Mol. Biol. 48 251 275
22. S. Lee S.Y. Kim E. Chung Y.H. Joung H.S. Pai C.G. Hur D. Choi 2004 EST and microarray analyses of pathogen-responsive genes in hot pepper (Capsicum annuumL.) non-host resistance against soybean pustule pathogen (Xanthomonas axonopodis pv. glycines) Funct. Integr. Genomics 4 196 205
23. Y. Liu T. Burch-Smith M. Schiff S. Feng S.P. Dinesh-Kumar 2004 Molecular chaperone Hsp90 associates with resistance protein N and its signaling proteins SGT1 and Rar1 to modulate an innate immune response in plants J. Biol. Chem. 279 2101 2108
24. C. Lopez V. Jorge B. Piégu C. Mba D. Cortes S. Restrepo M. Soto M. Laudié Ch. Berger R. Cooke M. Delseny J. Tohme V. Verdier 2004 A unigene catalogue of 5700 expressed genes in cassava Plant Mol. Biol. 56 541 554
25. F. Micheli 2001 Pectin methylesterases: cell wall enzymes with important roles in plant physiology Trends Plant Sci. 6 414 419
26. P. Moy D. Qutob P. Chapman I. Aktinson M. Gijzen 2004 Patterns of gene expression upon infection of soybean plants by Phytophthora sojae Mol. Plant-Microbe Interact. 17 1051 1062
27. K.S. Mysore M.D. D'Ascenzo X. He G.B. Martin 2003 Overexpression of the disease resistance gene Pto in tomato induces gene expression changes similar to immune responses in human and fruitfly Plant Physiol. 132 1901 1912
28. S. Panda T.K. Sato G.M. Hampton J.B. Hogenesch 2003 An array of insights: application of DNA chip technology in the study of cell biology Trends Cell Biol. 13 151 156
29. J.R. Peart R. Lu A. Sadanandom I. Malcuit P. Moffett D.C. Brice L. Schauser D.A. Jaggard S. Xiao M.J. Coleman M. Dow J.D. Jones K. Shirasu D.C. Baulcombe 2002 Ubiquitin ligase-associated protein SGT1 is required for host and nonhost disease resistance in plants Proc. Natl. Acad. Sci. USA 99 10865 10869
30. A.J. Pereira A.S. Lapenta P.S. Vidigal-Filho M.F.P.S. Machado 2001 Differential esterase expression in leaves of Manihot esculenta Crantz infected with Xanthomonas axonopodis pv. manihotis Bioch. Gen. 39 289 296
31. J. Quackenbush 2002 Microarray data normalization and transformation Nat. Genet. 32 496 501
32. B.F. Quirino Y.S. Noh E. Himelblau R.M. Amasino 2000 Molecular aspects of leaf senescence Trends Plant Sci. 5 278 282
33. K.M. Ramonell S. Somerville 2002 The genomics parade of defense responses: to infinity and beyond Curr. Opin. Plant Biol. 5 291 294
34. S. Restrepo M.C. Duque V. Verdier 2000a Characterization of pathotypes among isolates of Xanthomonas axonopodis pv.manihotis in Colombia Plant Pathol. 49 680 687
35. S. Restrepo C.M. Velez V. Verdier 2000b Measurement of the genetic diversity in Xanthomonas axonopodis pv. manihotis within different fields in Colombia by rep-PCR, RFLP and AFLP analyses Phytopathology 90 638 690
36. S. Restrepo C.M. Velez M.C. Duque V. Verdier 2004 Genetic structure and population dynamics of Xanthomonas axonopodis pv. manihotis in Colombia from 1995 to 1999 Appl. Environ. Microbiol. 70 255 261
37. P.J. Rushton A. Reinstadler V. Lipka B. Lippok I.E. Somssich 2002 Synthetic plant promoters containing defined regulatory elements provide novel insights into pathogen- and wound-induced signaling Plant Cell 14 749 762
38. A.I. Saeed V. Sharov J. White J. Li W. Liang N. Bhagabati J. Braisted M. Klapa T. Currier M. Thiagarajan A. Sturn M. Snuffin A. Rezantsev D. Popov A. Ryltsov E. Kostukovich I. Borisovsky Z. Liu A. Vinsavich V. Trush J. Quackenbush 2003 TM4: a free, open-source system for microarray data management and analysis Biotechniques 34 374 378
39. M. Scheideler N.L. Schlaich K. Fellenberg T. Beissbarth N.C. Hauser M. Vingron A.J. Slusarenko J.D. Hoheisel 2002 Monitoring the switch from housekeeping to pathogen defense metabolism in Arabidopsis thaliana using cDNA arrays J. Biol. Chem. 277 10555 10561
40. M. Seki M. Narusaka J. Ishida T. Nanjo M. Fujita Y. Oono A. Kamiya M. Nakajima A. Enju T. Sakurai M. Satou K. Akiyama T. Taji K. Yamaguchi-Shinozaki P. Carninci J. Kawai Y. Hayashizaki K. Shinozaki 2002 Monitoring the expression profiles of 7000 Arabidopsis genes under drought, cold and high-salinity stresses using a full-length cDNA microarray Plant J. 31 279 292
41. K. Shirasu P. Schulze-Lefert 2003 Complex formation, promiscuity and multi-functionality: protein interactions in disease-resistance pathways Trends Plant Sci. 8 252 258
42. D. Stekel 2003 Microarray Bioinformatics Cambridge University Press Cambridge
43. J.A. Swidzinski L.J. Sweetlove C.J. Leaver 2002 A custom microarray analysis of gene expression during programmed cell death in Arabidopsis thaliana Plant J. 30 431 446
44. Y. Tao Z. Xie W. Chen J. Glazebrook H.S. Chang B. Han T. Zhu G. Zou F. Katagiri 2003 Quantitative nature of Arabidopsis responses during compatible and incompatible interactions with the bacterial pathogen Pseudomonas syringae Plant Cell 15 317 330
45. N. Taylor P. Chavarriaga K. Raemakers D. Siritunga P. Zhang 2004 Development and application of transgenic technologies in cassava Plant Mol. Biol. 56 671 688
46. O. Thimm B. Essigmann S. Kloska T. Altmann T.J. Buckhout 2001 Response of Arabidopsis to iron deficiency stress as revealed by microarray analysis Plant Physiol. 127 1030 1043
47. M. Tor P. Gordon A. Cuzick T. Eulgem E. Sinapidou F. Mert-Turk C. Can J.L. Dangl E.B. Holub 2002 Arabidopsis SGT1b is required for defense signaling conferred by several downy mildew resistance genes Plant Cell 14 993 1003
48. V.G. Tusher R. Tibshirani G. Chu 2001 Significance analyses of microarrays applied to the ionizing radiation response Proc. Natl. Acad. Sci. USA. 98 5116 5121
49. Y. Umemura K. Kawano 1983 Field assessment and inheritance of resistance to cassava bacterial blight Crop Sci. 23 1127 1132
50. V. Verdier S. Ojeda G. Mosquera 2001 Methods for detecting the cassava bacterial blight pathogen: a practical approach for managing the disease Euphytica 120 103 107
51. V. Verdier S. Restrepo G. Mosquera V. Jorge C. Lopez 2004 Recent progress in the characterization of molecular determinants in the Xanthomonas axonopodis pv. manihotis - cassava interaction Plant Mol. Biol. 56 573 584
52. K. Zhu-Salzman R.A. Salzman J.E. Ahn H. Koiwa 2004 Transcriptional regulation of sorghum defense determinants against a phloem-feeding aphid Plant Physiol. 134 420 431
53. Zou, J., Young, S., Zhu, F., Gheyas, F., Skeans, S., Wan, Y., Wang, L., Ding, W., Billah, M., McClanahan, T., Coffman, R.L., Egan, R. and Umland, S. 2002. Microarray profile of differentially expressed genes in a monkey model of allergic asthma. Genome Biol. 3: research 0020