Niño-Liu DO, Ronald PC, Bogdanove AJ: Xanthomonas oryzae pathovars: model pathogens of a model crop. Molecular Plant Pathology. 2006, 7: 303-324. 10.1111/j.1364-3703.2006.00344.x.
Article
PubMed
Google Scholar
Ou S: Rice disease. 1985, Commonwealth Agricultural Bureau , Kew, Surrey, 2nd
Google Scholar
Ochiai H, Inoue Y, Takeya M, Sasaki A, Kaku H: Genome sequence of Xanthomonas oryzae pv. oryzae suggests contribution of large numbers of effector genes and insertion sequences to its race diversity. Jpn Agri Res Quart. 2005, 39: 275-287.
Article
CAS
Google Scholar
Lee BM, Park YJ, Park DS, Kang HW, Kim JG, Song ES, Park IC, Yoon UH, Hahn JH, Koo BS, Lee GB, Kim H, Park HS, Yoon KO, Kim JH, Jung C, Koh NH, Seo JS, Go SJ: The genome sequence of Xanthomonas oryzae pathovar oryzae KACC10331, the bacterial blight pathogen of rice. Nucleic Acids Res. 2005, 33 (2): 577-586. 10.1093/nar/gki206.
Article
PubMed Central
CAS
PubMed
Google Scholar
Comprehensive Microbial Resource. [http://cmr.jcvi.org/tigr-scripts/CMR/CmrHomePage.cgi]
Duggan DJ, Bittner M, Chen Y, Meltzer P, Trent JM: Expression profiling using cDNA microarrays. Nature genetics. 1999, 21 (1 Suppl): 10-14. 10.1038/4434.
Article
CAS
PubMed
Google Scholar
Hughes TR, Mao M, Jones AR, Burchard J, Marton MJ, Shannon KW, Lefkowitz SM, Ziman M, Schelter JM, Meyer MR, Kobayashi S, Davis C, Dai H, He YD, Stephaniants SB, Cavet G, Walker WL, West A, Coffey E, Shoemaker DD, Stoughton R, Blanchard AP, Friend SH, Linsley PS: Expression profiling using microarrays fabricated by an ink-jet oligonucleotide synthesizer. Nature biotechnology. 2001, 19 (4): 342-347. 10.1038/86730.
Article
CAS
PubMed
Google Scholar
DeRisi JL, Iyer VR, Brown PO: Exploring the metabolic and genetic control of gene expression on a genomic scale. Science. 1997, 278: 680-686. 10.1126/science.278.5338.680.
Article
CAS
PubMed
Google Scholar
Hauser NC, Vingron M, Scheideler M, Krems B, Hellmuth K, Entian KD, Hoheisel JD: Transcriptional profiling on all open reading frames of Saccharomyces cerevisiae. Yeast (Chichester, England). 1998, 14 (13): 1209-1221. 10.1002/(SICI)1097-0061(19980930)14:13<1209::AID-YEA311>3.0.CO;2-N.
Article
CAS
Google Scholar
Astua-Monge G, Freitas-Astua J, Bacocina G, Roncoletta J, Carvalho SA, Machado MA: Expression profiling of virulence and pathogenicity genes of Xanthomonas axonopodis pv. citri. Journal of bacteriology. 2005, 187 (3): 1201-1205. 10.1128/JB.187.3.1201-1205.2005.
Article
PubMed Central
CAS
PubMed
Google Scholar
Guidot A, Prior P, Schoenfeld J, Carrere S, Genin S, Boucher C: Genomic structure and phylogeny of the plant pathogen Ralstonia solanacearum inferred from gene distribution analysis. Journal of bacteriology. 2007, 189 (2): 377-387. 10.1128/JB.00999-06.
Article
PubMed Central
CAS
PubMed
Google Scholar
He YW, Xu M, Lin K, Ng YJ, Wen CM, Wang LH, Liu ZD, Zhang HB, Dong YH, Dow JM, Zhang LH: Genome scale analysis of diffusible signal factor regulon in Xanthomonas campestris pv. campestris: identification of novel cell-cell communication-dependent genes and functions. Molecular microbiology. 2006, 59 (2): 610-622. 10.1111/j.1365-2958.2005.04961.x.
Article
CAS
PubMed
Google Scholar
Koide T, Vencio RZ, Gomes SL: Global gene expression analysis of the heat shock response in the phytopathogen Xylella fastidiosa. Journal of bacteriology. 2006, 188 (16): 5821-5830. 10.1128/JB.00182-06.
Article
PubMed Central
CAS
PubMed
Google Scholar
Lu SE, Wang N, Wang J, Chen ZJ, Gross DC: Oligonucleotide microarray analysis of the salA regulon controlling phytotoxin production by Pseudomonas syringae pv. syringae. Mol Plant Microbe Interact. 2005, 18 (4): 324-333. 10.1094/MPMI-18-0324.
Article
CAS
PubMed
Google Scholar
Valls M, Genin S, Boucher C: Integrated regulation of the type III secretion system and other virulence determinants in Ralstonia solanacearum. PLoS pathogens. 2006, 2 (8): e82-10.1371/journal.ppat.0020082.
Article
PubMed Central
PubMed
Google Scholar
Wang N, Lu SE, Wang J, Chen ZJ, Gross DC: The expression of genes encoding lipodepsipeptide phytotoxins by Pseudomonas syringae pv. syringae is coordinated in response to plant signal molecules. Mol Plant Microbe Interact. 2006, 19 (3): 257-269. 10.1094/MPMI-19-0257.
Article
CAS
PubMed
Google Scholar
He YQ, Zhang L, Jiang BL, Zhang ZC, Xu RQ, Tang DJ, Qin J, Jiang W, Zhang X, Liao J, Cao JR, Zhang SS, Liang XX, Wei ML, Lu GT, Feng JX, Chen B, Cheng J, Tang JL: Comparative and functional genomics reveals genetic diversity and determinants of host specificity among reference strains and a large collection of Chinese isolates of the phytopathogen Xanthomonas campestris pv. campestris. Genome Biol. 2007, 8 (10): R218-10.1186/gb-2007-8-10-r218.
Article
PubMed Central
PubMed
Google Scholar
Tsuge S, Ayako F, Rie F, Takashi OKU, Kazunori T, Hirokazu O, Yasuhiro I, Hisatoshi K, Yasuyuki K: Expression of Xanthomonas oryzae pv. oryzae hrp Genes in XOM2, a Novel Synthetic Medium. J Gen Plant Path. 2002, V68 (4): 363-10.1007/PL00013104.
Article
Google Scholar
Tsuge S, Nakayama T, Terashima S, Ochiai H, Furutani A, Oku T, Tsuno K, Kubo Y, Kaku H: Gene involved in transcriptional activation of the hrp regulatory gene hrpG in Xanthomonas oryzae pv. oryzae. Journal of bacteriology. 2006, 188 (11): 4158-4162. 10.1128/JB.00006-06.
Article
PubMed Central
CAS
PubMed
Google Scholar
Schulte R, Bonas U: A Xanthomonas Pathogenicity Locus Is Induced by Sucrose and Sulfur-Containing Amino Acids. Plant Cell. 1992, 4 (1): 79-86. 10.1105/tpc.4.1.79.
Article
PubMed Central
CAS
PubMed
Google Scholar
Makino S: Inhibition of resistance gene mediated defense in rice by Xanthomonas oryzae pv. oryzicola. Mol Plant-Microbe Interact. 2006, 19: 240-249. 10.1094/MPMI-19-0240.
Article
CAS
PubMed
Google Scholar
Zhu W: Identification of two novel hrp-associated genes in the hrp gene cluster of Xanthomonas oryzae pv. oryzae. J Bacteriol. 2000, 182 (7): 1844-1853. 10.1128/JB.182.7.1844-1853.2000.
Article
PubMed Central
CAS
PubMed
Google Scholar
Rahme LG, Mindrinos MN, Panopoulos NJ: Plant and environmental sensory signals control the expression of hrp genes in Pseudomonas syringae pv. phaseolicola. Journal of bacteriology. 1992, 174 (11): 3499-3507.
PubMed Central
CAS
PubMed
Google Scholar
Wei ZM: Expression of Erwinia amylovora hrp genes in response to environmental stimuli. J Bacteriol. 1992, 174: 1875-1882.
PubMed Central
CAS
PubMed
Google Scholar
Lee SW, Han SW, Bartley LE, Ronald PC: Unique characteristics of Xanthomonas oryzae pv. oryzae AvrXa21 and implications for plant innate immunity. PNAS. 2006, 103 (49): 18395-18400. 10.1073/pnas.0605508103.
Article
PubMed Central
CAS
PubMed
Google Scholar
Burdman S, Shen Y, Lee SW, Xue Q, Ronald P: RaxH/RaxR: a two-component regulatory system in Xanthomonas oryzae pv. oryzae required for AvrXa21 activity. Mol Plant Microbe Interact. 2004, 17 (6): 602-612. 10.1094/MPMI.2004.17.6.602.
Article
CAS
PubMed
Google Scholar
da Silva FG, Shen Y, Dardick C, Burdman S, Yadav RC, de Leon AL, Ronald PC: Bacterial genes involved in type I secretion and sulfation are required to elicit the rice Xa21-mediated innate immune response. Molecular Plant-Microbe Interactions. 2004, 17 (6): 593-601. 10.1094/MPMI.2004.17.6.593.
Article
CAS
PubMed
Google Scholar
Shen Y, Sharma P, da Silva FG, Ronald PC: The Xanthomonas oryzae pv. oryzae raxP and raxQ genes encode an ATP sulfurylase and adenosine-5'-phosphosulphate kinase that are required for AvrXa21 avirulence activity. Mol Microbiol. 2002, 44: 37-38. 10.1046/j.1365-2958.2002.02862.x.
Article
CAS
PubMed
Google Scholar
Rocke DM: Design and analysis of experiments with high throughput biological assay data. Semin Cell Dev Biol. 2004, 15 (6): 703-713.
Article
CAS
PubMed
Google Scholar
Yao B, Rakhade SN, Li Q, Ahmed S, Krauss R, Draghici S, Loeb JA: Accuracy of cDNA microarray methods to detect small gene expression changes induced by neuregulin on breast epithelial cells. BMC bioinformatics. 2004, 5: 99-10.1186/1471-2105-5-99.
Article
PubMed Central
PubMed
Google Scholar
Baker M, Wolanin P, Stock J: Systems biology of bacterial chemotaxis. Current Opinion in Microbiology. 2006, 9: 187-192. 10.1016/j.mib.2006.02.007.
Article
CAS
PubMed
Google Scholar
Rajagopala S, Titz B, Goll J, Parrish J, Wohlbold K, MacKevitt M, Palzkill T, Mori H, Finley R, Uetz P: The protein network of bacterial motility. Mol Systems Biol. 2007, 3: 128-
Article
Google Scholar
Barak R, Eisenbach M: Correlation between phosphorylation of the chemotaxis protein CheY and its activity at the flagellar motor. Biochemistry. 1992, 31 (6): 1821-1826. 10.1021/bi00121a034.
Article
CAS
PubMed
Google Scholar
Khan IH, Reese TS, Khan S: The cytoplasmic component of the bacterial flagellar motor. PNAS. 1992, 89 (13): 5956-5960. 10.1073/pnas.89.13.5956.
Article
PubMed Central
CAS
PubMed
Google Scholar
Szurmant H: Diversity in chemotaxismechanisms among the bacteria and archeae. Microbiology and Molecular Biology Reviews. 2004, 68 (2): 301-319. 10.1128/MMBR.68.2.301-319.2004.
Article
PubMed Central
CAS
PubMed
Google Scholar
Wang L, Makino S, Subedee A, Bogdanove AJ: Mutational analysis reveals novel candidate virulence factors in the rice pathogen Xanthomonas oryzae pv. oryzicola. Appl Environ Microbiol. 2008, 73: 8023-8027. 10.1128/AEM.01414-07.
Article
Google Scholar
Yao J, Allen C: Chemotaxis Is Required for Virulence and Competitive Fitness of the Bacterial Wilt Pathogen Ralstonia solanacearum. J Bacteriol. 2006, 188 (10): 3697-3708. 10.1128/JB.188.10.3697-3708.2006.
Article
PubMed Central
CAS
PubMed
Google Scholar
Beier D: Regulation of bacterial virulence by two-component systems. Current Opinion in Microbiology. 2006, 9: 143-152. 10.1016/j.mib.2006.01.005.
Article
CAS
PubMed
Google Scholar
West AH, Stock AM: Histidine kinases and response regulator proteins in two-component signaling systems. Trends Biochem Sci. 2001, 26: 369-376. 10.1016/S0968-0004(01)01852-7.
Article
CAS
PubMed
Google Scholar
Lejona S: Molecular characterization of the Mg2+ responsive PhoP-PhoQ regulon in Salmonella enterica. J Bacteriol. 2003, 185 (21): 6287–6294-10.1128/JB.185.21.6287-6294.2003.
Article
PubMed Central
PubMed
Google Scholar
Zwir I, Shin D, Kato A, Nishino K, Latifi T, Solomon F, Hare J, Huang H, Groisman E: Dissecting the PhoP regulatory network of Escherichia coli and Salmonella enterica. Proc Natl Acad Sci. 2005, 102 (8): 2862– 2867-10.1073/pnas.0408238102.
Article
PubMed Central
PubMed
Google Scholar
Lee SW, Han SW, Park KS, Ronald PC: The PhoP/Q two-component system is required for AvrXA21 activity, activation of hrp gene expression, and virulence in Xanthomonas oryzae pv. oryzae. J Bacteriology. 2007,
Google Scholar
Ryan R, Fouhy Y, Lucey J, Crossman L, Spiro S, He YW, Zhang LH, Heeb S, Cámara M, Williams P, Dow M: Cell–cell signaling in Xanthomonas campestris involves an HD-GYP domain protein that functions in cyclic di-GMP turnover. PNAS. 2006, 13 (17):
Xiao YL, Li YR, Liu ZY, Xiang Y, Chen GY: Establishment of the hrp-inducing systems for the expression of the hrp genes of Xanthomonas oryzae pv. oryzicola. Wei Sheng Wu Xue Bao. 2007, 47: 396-401.
CAS
PubMed
Google Scholar
Wengelnik K, Ackerveken G, Bonas U: HrpG, a key hrp regulatory protein of Xanthomonas campestris pv. vesicatoria is homologous to two-component response regulators. Mol Plant-Microbe Interact. 1996, 9: 704–712-
Article
PubMed
Google Scholar
Wengelnik K, Bonas U: HrpXv, an AraC-type regulator, activates expression of five of the six loci in the hrp cluster of Xanthomonas campestris pv. vesicatoria. J Bacteriol. 1996, 178: 3462-3469.
PubMed Central
CAS
PubMed
Google Scholar
Weber E, Koebnik R: Domain structure of HrpE, the Hrp pilus subunit of Xanthomonas campestris pv. vesicatoria. Journal of bacteriology. 2005, 187 (17): 6175-6186. 10.1128/JB.187.17.6175-6186.2005.
Article
PubMed Central
CAS
PubMed
Google Scholar
Furutani A. TS: Hpa1 secretion via type III secretion system in Xanthomonas oryzae pv. oryzae. J Gen Plant Path. 2003, 69: 271-275. 10.1007/s10327-003-0042-2.
Article
Google Scholar
Charkowski AO, Alfano JR, Preston G, Yuan J, He SY, Collmer A: The Pseudomonas syringae pv. tomato HrpW protein has domains similar to harpins and pectate lyases and can elicit the plant hypersensitive response and bind to pectate. J Bacteriol. 1998, 180: 5211-5217.
PubMed Central
CAS
PubMed
Google Scholar
Noël L, Thieme F, Nennstiel D, Bonas U: cDNA-AFLP analysis unravels a genomic-wide hrpG-regulon in the plant pathogen Xanthomonas campestris pv. vesicatoria. Molecular microbiology. 2001, 41 (6): 1271-1281. 10.1046/j.1365-2958.2001.02567.x.
Article
PubMed
Google Scholar
Heithoff D: Bacterial infection as assessed by in vivo gene expression. PNAS. 1997, 94: 934-939. 10.1073/pnas.94.3.934.
Article
PubMed Central
CAS
PubMed
Google Scholar
Rainey P: In vivo expression technology strategies: valuable tools for biotechnology. Current Opinion in Biotechnology. 2000, 11: 440-444. 10.1016/S0958-1669(00)00132-4.
Article
CAS
PubMed
Google Scholar
Tamir-Ariel D: Identification of genes in Xanthomonas campestris pv. vesicatoria induced during its interaction with tomato. J Bacteriol. 2007, 189 (17): 6359-6371. 10.1128/JB.00320-07.
Article
PubMed Central
CAS
PubMed
Google Scholar
Le Brigand K, Russell R, Moreilhon C, Rouillard JM, Jost B, Amiot FV, Bole-Feysot C, Rostagno P, Virolle V, Defamie V, Dessen P, Williams G, Lyons P, Rios G, Mari B, Gulari E, Kastner P, Gidrol X, Freeman TC, Barbry P: An open-access long oligonucleotide microarray resource for analysis of the human and mouse transcriptomes. Nucleic Acids Res. 2006, 34: e87-10.1093/nar/gkl485.
Article
PubMed
Google Scholar
Chou HH, Hsia AP, Mooney DL, Schnable PS: Picky: oligo microarray design for large genomes. Bioinformatics (Oxford, England). 2004, 20 (17): 2893-2902. 10.1093/bioinformatics/bth347.
Article
CAS
Google Scholar
Integrated DNA Technology. [http://www.idtdna.com]
ArrayCore Microarray Facility at the University of California, Davis. [http://array.ucdavis.edu/home/contact.php]
Raghavachari N, Bao YO, Li G, Xie X, Muller UR: Reduction of autofluorescence on DNA microarrays and slide surfaces by treatment with sodium borohydride. Anal Biochem. 2003, 312: 101-105. 10.1016/S0003-2697(02)00440-2.
Article
CAS
PubMed
Google Scholar
Primer3. [http://frodo.wi.mit.edu]