Transcriptome profiling of Xanthomonas campestris pv. campestris grown in minimal medium MMX and rich medium NYG
Tài liệu tham khảo
Alifano, 1996, Histidine biosynthetic pathway and genes: structure, regulation, and evolution, Microbiol. Rev., 60, 44, 10.1128/mr.60.1.44-69.1996
Anders, 2010, Differential expression analysis for sequence count data, Genome Biol., 11, R106, 10.1186/gb-2010-11-10-r106
Argüelles, 2000, Physiological roles of trehalose in bacteria and yeasts: a comparative analysis, Arch. Microbiol., 174, 217, 10.1007/s002030000192
Barber, 1997, A novel regulatory system required for pathogenicity of Xanthomonas campestris is mediated by a small diffusible signal molecule, Mol. Microbiol., 24, 555, 10.1046/j.1365-2958.1997.3721736.x
Bullard, 2010, Evaluation of statistical methods for normalization and differential expression in mRNA-Seq experiments, BMC Bioinform., 11, 94, 10.1186/1471-2105-11-94
Castañeda, 2005, Mutagenesis of all eight avr genes in Xanthomonas campestris pv. campestris had no detected effect on pathogenicity, but one avr gene affected race specificity, Mol. Plant-Microbe Interact., 18, 1306, 10.1094/MPMI-18-1306
Chan, 1999, The molecular genetics of virulence of Xanthomonas campestris, Biotechnol. Adv., 17, 489, 10.1016/S0734-9750(99)00025-7
Chao, 2008, The rsmA-like gene rsmAxcc of Xanthomonas campestris pv. campestris is involved in the control of various cellular processes, including pathogenesis, Mol. Plant-Microbe Interact., 21, 411, 10.1094/MPMI-21-4-0411
Cunnac, 2004, Characterization of the cis-acting regulatory element controlling HrpB-mediated activation of the type III secretion system and effector genes in Ralstonia solanacearum, J. Bacteriol., 186, 2309, 10.1128/JB.186.8.2309-2318.2004
da Silva, 2002, Comparison of the genomes of two Xanthomonas pathogens with differing host specificities, Nature, 417, 459, 10.1038/417459a
Daniels, 1984, Cloning of genes involved in pathogenicity of Xanthomonas campestris pv. campestris using the broad host range cosmid pLAFR1, EMBO J., 3, 3323, 10.1002/j.1460-2075.1984.tb02298.x
Daniels, 1984, Isolation of mutants of Xanthomonas campestris pathovar campestris showing altered pathogenicity, J. Gen. Microbiol., 130, 2447
Dow, 1990, Extracellular proteases from Xanthomonas campestris pv. campestris, the black rot pathogen, Appl. Environ. Microbiol., 56, 2994, 10.1128/aem.56.10.2994-2998.1990
Dow, 2003, Biofilm dispersal in Xanthomonas campestris is controlled by cell-cell signaling and is required for full virulence to plants, Proc. Natl. Acad. Sci. U. S. A., 100, 10995, 10.1073/pnas.1833360100
Febrer, 2011, Advances in bacterial transcriptome and transposon insertion-site profiling using second-generation sequencing, Trends Biotechnol., 29, 586, 10.1016/j.tibtech.2011.06.004
Feng, 2012, A Xanthomonas uridine 5'-monophosphate transferase inhibits plant immune kinases, Nature, 485, 114, 10.1038/nature10962
Fenselau, 1995, Sequence and expression analysis of the hrpB pathogenicity operon of Xanthomonas campestris pv. vesicatoria which encodes eight proteins with similarity to components of the Hrp, Ysc, Spa, and Fli secretion systems, Mol. Plant Microbe. Interact., 8, 845, 10.1094/MPMI-8-0845
Goss, 2001, Roles of glutamate synthase, gltBD, and gltF in nitrogen metabolism of Escherichia coli and Klebsiella aerogenes, J. Bacteriol., 183, 6607, 10.1128/JB.183.22.6607-6619.2001
Hayward, 1993, The hosts of Xanthomonas, 1
He, 2007, 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., 8, R218, 10.1186/gb-2007-8-10-r218
Howells, 2002, Role of trehalose biosynthesis in environmental survival and virulence of Salmonella enterica serovar typhimurium, Res. Microbiol., 153, 281, 10.1016/S0923-2508(02)01321-9
Ignatov, 2002, A virulence gene from Xanthomonas campestris pv. campestris homologous to the avrBs2 locus is recognized in race-specific reaction by two different resistance genes in Brassica plant species, Genetika, 38, 1656
Imlay, 2008, Cellular defenses against superoxide and hydrogen peroxide, Annu. Rev. Biochem., 77, 755, 10.1146/annurev.biochem.77.061606.161055
Isabella, 2011, Deep sequencing-based analysis of the anaerobic stimulon in Neisseria gonorrhoeae, BMC Genomics, 12, 51, 10.1186/1471-2164-12-51
Jiang, 2008, The type III secretion effector XopXccN of Xanthomonas campestris pv. campestris is required for full virulence, Res. Microbiol., 159, 216, 10.1016/j.resmic.2007.12.004
Jiang, 2009, Identification of six type III effector genes with the PIP box in Xanthomonas campestris pv. campestris and five of them contribute individually to full pathogenicity, Mol. Plant-Microbe Interact., 22, 1401, 10.1094/MPMI-22-11-1401
Katzen, 1998, Xanthomonas campestris pv. campestris gum mutants: effects on xanthan biosynthesis and plant virulence, J. Bacteriol., 180, 1607, 10.1128/JB.180.7.1607-1617.1998
Koebnik, 2006, Specific binding of the Xanthomonas campestris pv. vesicatoria AraC-type transcriptional activator HrpX to plant-inducible promoter boxes, J. Bacteriol., 188, 7652, 10.1128/JB.00795-06
Krell, 2011, Diversity at its best: bacterial taxis, Environ. Microbiol., 13, 1115, 10.1111/j.1462-2920.2010.02383.x
Li, 2009, SNP detection for massively parallel whole-genome resequencing, Genome Res., 19, 1124, 10.1101/gr.088013.108
Meyer, 2005, Optimization of pathogenicity assays to study the Arabidopsis thaliana-Xanthomonas campestris pv. campestris pathosystem, Mol. Plant Pathol., 6, 327, 10.1111/j.1364-3703.2005.00287.x
Mortazavi, 2008, Mapping and quantifying mammalian transcriptomes by RNA-Seq, Nat. Methods, 5, 621, 10.1038/nmeth.1226
Picardeau, 2003, Genetic evidence for the existence of two pathways for the biosynthesis of methionine in the Leptospira spp, FEMS Microbiol. Lett., 225, 257, 10.1016/S0378-1097(03)00529-9
Porter, 2011, Signal processing in complex chemotaxis pathways, Nat. Rev. Microbiol., 9, 153, 10.1038/nrmicro2505
Puttikamonkul, 2010, Trehalose 6-phosphate phosphatase is required for cell wall integrity and fungal virulence but not trehalose biosynthesis in the human fungal pathogen Aspergillus fumigatus, Mol. Microbiol., 77, 891, 10.1111/j.1365-2958.2010.07254.x
Qian, 2005, Comparative and functional genomic analyses of the pathogenicity of phytopathogen Xanthomonas campestris pv. campestris, Genome Res., 15, 757, 10.1101/gr.3378705
Römling, 2005, C-di-GMP: the dawning of a novel bacterial signalling system, Mol. Microbiol., 57, 629, 10.1111/j.1365-2958.2005.04697.x
Ronald, 1988, The avirulence gene avrBs1 from Xanthomonas campestris pv. vesicatoria encodes a 50-kD protein, Mol. Plant-Microbe Interact., 1, 191, 10.1094/MPMI-1-191
Ryan, 2006, Cell-cell signaling in Xanthomonas campestris involves an HD-GYP domain protein that functions in cyclic di-GMP turnover, Proc. Natl. Acad. Sci. U. S. A., 103, 6712, 10.1073/pnas.0600345103
Ryan, 2007, Cyclic di-GMP signalling in the virulence and environmental adaptation of Xanthomonas campestris, Mol. Microbiol., 63, 429, 10.1111/j.1365-2958.2006.05531.x
Simpson, 1990, Arabidopsis thaliana as a host for Xanthomonas campestris pv. campestris, Mol. Plant-Microbe Interact., 3, 233, 10.1094/MPMI-3-233
Tang, 2005, Xanthomonas campestris pv. campestris possesses a single gluconeogenic pathway that is required for virulence, J. Bacteriol., 187, 6231, 10.1128/JB.187.17.6231-6237.2005
Tang, 1987, Molecular cloning of protease gene(s) from Xanthomonas campestris pv. campestris: expression in Escherichia coli and role in pathogenicity, Mol. Gen. Genet., 210, 443, 10.1007/BF00327195
Tao, 1999, Functional genomics: expression analysis of Escherichia coli growing on minimal and rich media, J. Bacteriol., 181, 6425, 10.1128/JB.181.20.6425-6440.1999
Tondo, 2010, The monofunctional catalase KatE of Xanthomonas axonopodis pv. citri is required for full virulence in citrus plants, PLoS One, 5, e10803, 10.1371/journal.pone.0010803
Vicente, 2013, Xanthomonas campestris pv. campestris (cause of black rot of crucifers) in the genomic era is still a worldwide threat to brassica crops, Mol. Plant Pathol., 14, 2, 10.1111/j.1364-3703.2012.00833.x
Vorhölter, 2008, The genome of Xanthomonas campestris pv. campestris B100 and its use for the reconstruction of metabolic pathways involved in xanthan biosynthesis, J. Biotechnol., 134, 33, 10.1016/j.jbiotec.2007.12.013
Wei, 2007, hpaR, a putative marR family transcriptional regulator, is positively controlled by HrpG and HrpX and involved in the pathogenesis, hypersensitive response, and extracellular protease production of Xanthomonas campestris pathovar campestris, J. Bacteriol., 189, 2055, 10.1128/JB.01331-06
Williams, 1980, Black rot: a continuing threat to world crucifers, Plant Dis., 64, 736, 10.1094/PD-64-736
Xu, 2008, AvrACxcc8004, a type III effector with a leucine-rich repeat domain from Xanthomonas campestris pathovar campestris confers avirulence in vascular tissues of Arabidopsis thaliana ecotype Col-0, J. Bacteriol., 190, 343, 10.1128/JB.00978-07
Zhang, 2008, A putative colRXC1049 - colSXC1050 two-component signal transduction system in Xanthomonas campestris positively regulates hrpC and hrpE operons and is involved in virulence, the hypersensitive response and tolerance to various stresses, Res. Microbiol., 159, 569, 10.1016/j.resmic.2008.06.010