Members of the Sinorhizobium meliloti ChvI regulon identified by a DNA binding screen

BMC Microbiology

Volumn 13, Issue 1, 2013, Pages

  Bélanger, Louise ^a,b   Charles, Trevor C ^a  

^a UNIVERSITY OF WATERLOO   (Canada)

^b Prevtec microbia   (Canada)

Author keywords

Alfalfa nodulation; chvI regulon; DNA binding assay; DNA binding; Exopolysaccharide; Response regulator; Rhizobia; Signal transduction; Transcriptional regulation

Indexed keywords

DNA FRAGMENT; REGULATOR PROTEIN;

ARTICLE; DNA BINDING; GEL MOBILITY SHIFT ASSAY; GENE; GENE FUSION; MUTANT; NONHUMAN; PHENOTYPE; REGULON; SINORHIZOBIUM MELILOTI;

BACTERIAL PROTEINS; DNA, BACTERIAL; ELECTROPHORETIC MOBILITY SHIFT ASSAY; GENE EXPRESSION REGULATION, BACTERIAL; PROTEIN BINDING; REGULON; SINORHIZOBIUM MELILOTI; TRANSCRIPTION FACTORS; TRANSCRIPTION, GENETIC;

ALPHAPROTEOBACTERIA; EUKARYOTA; MEDICAGO SATIVA; SINORHIZOBIUM MELILOTI;

EID: 84878818553     PISSN: None     EISSN: 14712180     Source Type: Journal    
DOI: 10.1186/1471-2180-13-132     Document Type: Article

References (56)

1. The Pfam protein families database. Finn RD, Mistry J, Tate J, Coggill P, Heger A, Pollington JE, Gavin OL, Gunasekaran P, Ceric G, Forslund K, Holm L, Sonnhammer ELL, Eddy SR, Bateman A, Nucleic Acids Res 2010 38 211 D222 10.1093/nar/gkp985 19920124
2. Structural classification of bacterial response regulators: diversity of output domains and domain combinations. Galperin MY, J Bacteriol 2006 188 4169 4182 10.1128/JB.01887-05 16740923
3. Biological insights from structures of two-component proteins. Gao R, Stock AM, Annu Rev Microbiol 2009 63 133 154 10.1146/annurev.micro.091208.073214 19575571
4. A chromosomally encoded two-component sensory transduction system is required for virulence of Agrobacterium tumefaciens. Charles TC, Nester EW, J Bacteriol 1993 175 6614 6625 8407839
5. A two-component regulatory system playing a critical role in plant pathogens and endosymbionts is present in Brucella abortus and controls cell invasion and virulence. Sola-Landa A, Pizarro-Cerdá J, Grilló MJ, Moreno E, Moriyón I, Blasco JM, Gorvel JP, López-Goñi I, Mol Microbiol 1998 29 125 138 10.1046/j.1365-2958.1998.00913.x 9701808
6. Transcriptome analysis of the Brucella abortus BvrR/BvrS two-component regulatory system. Viadas C, Rodríguez MC, Sangari FJ, Gorvel JP, García-Lobo JM, López-Goñi I, PLoS One 2010 5 10216 10.1371/journal.pone.0010216 20422049
7. The BatR/BatS two-component regulatory system controls the adaptive response of Bartonella henselae during human endothelial cell infection. Quebatte M, Dehio M, Tropel D, Basler A, Toller I, Raddatz G, Engel P, Huser S, Schein H, Lindroos HL, Andersson SGE, Dehio C, J Bacteriol 2010 192 3352 3367 10.1128/JB.01676-09 20418395
8. Mutation of the sensor kinase chvG in Rhizobium leguminosarum negatively impacts cellular metabolism, outer membrane stability, and symbiosis. Vanderlinde EM, Yost CK, J Bacteriol 2012 194 768 777 10.1128/JB.06357-11 22155778
9. Succinoglycan production by Rhizobium meliloti is regulated through the ExoS-ChvI two-component regulatory system. Cheng HP, Walker GC, J Bacteriol 1998 180 20 26 9422587
10. Null mutations in Sinorhizobium meliloti exoS and chvI demonstrate the importance of this two-component regulatory system for symbiosis. Bélanger L, Dimmick KA, Fleming JS, Charles TC, Mol Microbiol 2009 74 1223 1237 10.1111/j.1365-2958.2009.06931.x 19843226
11. Identification of Rhizobium-specific intergenic mosaic elements within an essential two-component regulatory system of Rhizobium species. Osterås M, Stanley J, Finan TM, J Bacteriol 1995 177 5485 5494 7559334
12. Sinorhizobium meliloti 1021 loss-of-function deletion mutation in chvI and its phenotypic characteristics. Wang C, Kemp J, Da Fonseca IO, Equi RC, Sheng X, Charles TC, Sobral BWS, Mol Plant Microbe Interact 2010 23 153 160 10.1094/MPMI-23-2-0153 20064059
13. The periplasmic regulator ExoR inhibits ExoS/ChvI two-component signalling in Sinorhizobium meliloti. Chen EJ, Sabio EA, Long SR, Mol Microbiol 2008 69 1290 1303 10.1111/j.1365-2958.2008.06362.x 18631237
14. Sinorhizobium meliloti ExoR is the target of periplasmic proteolysis. Lu H-Y, Luo L, Yang M-H, Cheng H-P, J Bacteriol 2012 194 4029 4040 10.1128/JB.00313-12 22636773
15. HPrK regulates succinate-mediated catabolite repression in the gram-negative symbiont Sinorhizobium meliloti. Pinedo CA, Gage DJ, J Bacteriol 2009 191 298 309 10.1128/JB.01115-08 18931135
16. ExoR is genetically coupled to the ExoS-ChvI two-component system and located in the periplasm of Sinorhizobium meliloti. Wells DH, Chen EJ, Fisher RF, Long SR, Mol Microbiol 2007 64 647 664 10.1111/j.1365-2958.2007.05680.x 17462014
17. Identification of direct transcriptional target genes of ExoS/ChvI two-component signaling in Sinorhizobium meliloti. Chen E, Fisher R, Perovich V, Sabio E, Long S, J Bacteriol 2009 191 6833 6842 10.1128/JB.00734-09 19749054
18. A gel electrophoresis method for quantifying the binding of proteins to specific DNA regions: application to components of the Escherichia coli lactose operon regulatory system. Garner MM, Revzin A, Nucleic Acids Res 1981 9 3047 3060 10.1093/nar/9.13.3047 6269071
19. Phosphoenolpyruvate carboxykinase is an acid-induced, chromosomally encoded virulence factor in Agrobacterium tumefaciens. Liu P, Wood D, Nester EW, J Bacteriol 2005 187 6039 6045 10.1128/JB.187.17.6039-6045.2005 16109945
20. An integrated approach to functional genomics: construction of a novel reporter gene fusion library for Sinorhizobium meliloti. Cowie A, Cheng J, Sibley CD, Fong Y, Zaheer R, Patten CL, Morton RM, Golding GB, Finan TM, Appl Environ Microbiol 2006 72 7156 7167 10.1128/AEM.01397-06 16963549
21. The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases. Caspi R, Altman T, Dreher K, Fulcher CA, Subhraveti P, Keseler IM, Kothari A, Krummenacker M, Latendresse M, Mueller LA, Ong Q, Paley S, Pujar A, Shearer AG, Travers M, Weerasinghe D, Zhang P, Karp PD, Nucleic Acids Res 2012 40 742 D753 10.1093/nar/gkr1014 22102576
22. KEGG for linking genomes to life and the environment. Kanehisa M, Araki M, Goto S, Hattori M, Hirakawa M, Itoh M, Katayama T, Kawashima S, Okuda S, Tokimatsu T, Yamanishi Y, Nucleic Acids Res 2008 36 480 D484 18077471
23. STRING 8 - a global view on proteins and their functional interactions in 630 organisms. Jensen LJ, Kuhn M, Stark M, Chaffron S, Creevey C, Muller J, Doerks T, Julien P, Roth A, Simonovic M, Bork P, von Mering C, Nucleic Acids Res 2009 37 412 D416 10.1093/nar/gkn760 18940858
24. Galactose metabolism in Rhizobium meliloti L5-30. Arias A, Cerveñansky C, J Bacteriol 1986 167 1092 1094 3745118
25. Inability to catabolize galactose leads to increased ability to compete for nodule occupancy in Sinorhizobium meliloti. Geddes BA, Oresnik IJ, J Bacteriol 2012 194 5044 5053 10.1128/JB.00982-12 22797764
26. Membrane lipids in plant-associated bacteria: their biosyntheses and possible functions. López-Lara IM, Sohlenkamp C, Geiger O, Mol Plant Microbe Interact 2003 16 567 579 10.1094/MPMI.2003.16.7.567 12848422
27. Sinorhizobium meliloti mutants deficient in phosphatidylserine decarboxylase accumulate phosphatidylserine and are strongly affected during symbiosis with alfalfa. Vences-Guzmán MA, Geiger O, Sohlenkamp C, J Bacteriol 2008 190 6846 6856 10.1128/JB.00610-08 18708506
28. BDGP, Neural Network Promoter Prediction [ http://www.fruitfly.org/seq- tools/promoter.html ]
29. Siderophore-mediated iron metabolism in growth and nitrogen fixation by alfalfa nodulated with Rhizobium meliloti. Barton LL, Johnson GV, Schitoskey K, Wertz M, J Plant Nutr 1996 19 1201 1210 10.1080/01904169609365191
30. Identification of rhtX and fptX, novel genes encoding proteins that show homology and function in the utilization of the siderophores rhizobactin 1021 by Sinorhizobium meliloti and pyochelin by Pseudomonas aeruginosa, respectively. O Cuív P, Clarke P, Lynch D, O'connell M, J Bacteriol 2004 186 2996 3005 10.1128/JB.186.10.2996-3005.2004 15126460
31. Genetic organization of the region encoding regulation, biosynthesis, and transport of rhizobactin 1021, a siderophore produced by Sinorhizobium meliloti. Lynch D, O'Brien J, Welch T, Clarke P, Cuív PO, Crosa JH, O'Connell M, J Bacteriol 2001 183 2576 2585 10.1128/JB.183.8.2576-2585.2001 11274118
32. RirA is the iron response regulator of the rhizobactin 1021 biosynthesis and transport genes in Sinorhizobium meliloti 2011. Viguier C, O Cuív P, Clarke P, O'connell M, FEMS Microbiol Lett 2005 246 235 242 10.1016/j.femsle. 2005.04.012 15899411
33. Role of the regulatory gene rirA in the transcriptional response of Sinorhizobium meliloti to iron limitation. Chao T-C, Buhrmester J, Hansmeier N, Puhler A, Weidner S, Appl Environ Microbiol 2005 71 5969 10.1128/AEM.71.10.5969- 5982.2005 16204511
34. The Sinorhizobium meliloti MsbA2 protein is essential for the legume symbiosis. Beck S, Marlow VL, Woodall K, Doerrler WT, James EK, Ferguson GP, Microbiology (Reading, Engl) 2008 154 1258 1270 10.1099/mic.0.2007/014894-0
35. A symbiotic mutant of Sinorhizobium meliloti reveals a novel genetic pathway involving succinoglycan biosynthetic functions. Griffitts JS, Long SR, Mol Microbiol 2008 67 1292 1306 10.1111/j.1365-2958.2008.06123.x 18284576
36. Mutational analysis of the Sinorhizobium meliloti short-chain dehydrogenase/reductase family reveals substantial contribution to symbiosis and catabolic diversity. Jacob AI, Adham SAI, Capstick DS, Clark SRD, Spence T, Charles TC, Mol Plant Microbe Interact 2008 21 979 987 10.1094/MPMI-21-7-0979 18533838
37. Mapping the Sinorhizobium meliloti 1021 solute-binding protein-dependent transportome. Mauchline TH, Fowler JE, East AK, Sartor AL, Zaheer R, Hosie AHF, Poole PS, Finan TM, Proc Natl Acad Sci USA 2006 103 17933 17938 10.1073/pnas.0606673103 17101990
38. Proteomic analysis of wild-type Sinorhizobium meliloti responses to N-acyl homoserine lactone quorum-sensing signals and the transition to stationary phase. Chen H, Teplitski M, Robinson JB, Rolfe BG, Bauer WD, J Bacteriol 2003 185 5029 5036 10.1128/JB.185.17.5029-5036.2003 12923075
39. Lipopolysaccharide mutants of Rhizobium meliloti are not defective in symbiosis. Clover RH, Kieber J, Signer ER, J Bacteriol 1989 171 3961 3967 2738026
40. Induction of pathogenic-like responses in the legume Macroptilium atropurpureum by a transposon-induced mutant of the fast-growing, broad-host-range Rhizobium strain NGR234. Djordjevic SP, Ridge RW, Chen HC, Redmond JW, Batley M, Rolfe BG, J Bacteriol 1988 170 1848 1857 2832384
41. Infection of soybean and pea nodules by Rhizobium spp. purine auxotrophs in the presence of 5-aminoimidazole-4-carboxamide riboside. Newman JD, Diebold RJ, Schultz BW, Noel KD, J Bacteriol 1994 176 3286 3294 8195084
42. Rhizobial purine and pyrimidine auxotrophs: Nutrient supplementation, genetic analysis, and the symbiotic requirement for the novo purine biosynthesis. Noel KD, Diebold RJ, Cava JR, Brink BA, Arch Microbiol 1988 149 499 506 10.1007/BF00446751
43. In vivo dissection of the Helicobacter pylori Fur regulatory circuit by genome-wide location analysis. Danielli A, Roncarati D, Delany I, Chiarini V, Rappuoli R, Scarlato V, J Bacteriol 2006 188 4654 4662 10.1128/JB.00120-06 16788174
44. Characterization of a gene family of outer membrane proteins (ropB) in Rhizobium leguminosarum bv. viciae VF39SM and the role of the sensor kinase ChvG in their regulation. Foreman DL, Vanderlinde EM, Bay DC, Yost CK, J Bacteriol 2010 192 975 983 10.1128/JB.01140-09 20023026
45. Functional characterization of the incomplete phosphotransferase system (PTS) of the intracellular pathogen Brucella melitensis. Dozot M, Poncet S, Nicolas C, Copin R, Bouraoui H, Mazé A, Deutscher J, De Bolle X, Letesson J-J, PLoS One 2010 5 12679 10.1371/journal.pone.0012679 20844759
46. Physical and genetic characterization of symbiotic and auxotrophic mutants of Rhizobium meliloti induced by transposon Tn5 mutagenesis. Meade HM, Long SR, Ruvkun GB, Brown SE, Ausubel FM, J Bacteriol 1982 149 114 122 6274841
47. The composite genome of the legume symbiont Sinorhizobium meliloti. Galibert F, Finan T, Long S, Pühler A, Abola P, Ampe F, Barloy-Hubler F, BARNETT M, Becker A, Boistard P, Bothe G, Boutry M, Bowser L, Buhrmester J, Cadieu E, Capela D, Chain P, Cowie A, Davis R, Dreano S, Federspiel N, FISHER R, Gloux S, Godrie T, Goffeau A, Golding B, Gouzy J, Gurjal M, Hernández-Lucas I, Hong A, et al. Science 2001 293 668 672 10.1126/science.1060966 11474104
48. Studies on transformation of Escherichia coli with plasmids. Hanahan D, J Mol Biol 1983 166 557 580 10.1016/S0022-2836(83)80284-8 6345791
49. Use of bacteriophage T7 RNA polymerase to direct selective high-level expression of cloned genes. Studier FW, Moffatt BA, J Mol Biol 1986 189 113 130 10.1016/0022-2836(86)90385-2 3537305
50. Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mp18 and pUC19 vectors. Yanisch-Perron C, Vieira J, Messing J, Gene 1985 33 103 119 10.1016/0378-1119(85)90120-9 2985470
51. A wide-host-range suicide vector for improving reverse genetics in gram-negative bacteria: inactivation of the blaA gene of Yersinia enterocolitica. Kaniga K, Delor I, Cornelis GR, Gene 1991 109 137 141 10.1016/0378-1119(91)90599-7 1756974
52. History and principles of conductive media for standard DNA electrophoresis. Brody JR, Kern SE, Anal Biochem 2004 333 1 13 10.1016/j.ab.2004.05.054 15351274
53. Ausubel FM, Brent R, Kingston RE, Moore DD, Seidman JG, Smith JA, Struhl K, Short protocols in molecular biology New York: Greene Publishing Associates and John Wiley and Sons 2 1992
54. Sambrook J, Russell DW, Molecular cloning: a laboratory manual, Vol 1-3 Cold Spring Harbor, New York: Cold Spring Harbor Laboratory Press 3 2001
55. Sinorhizobium meliloti 1021 [ http://iant.toulouse.inra.fr/bacteria/ annotation/cgi/rhime.cgi ]
56. General transduction in Rhizobium meliloti. Finan TM, Hartweig E, Lemieux K, Bergman K, Walker GC, Signer ER, J Bacteriol 1984 159 120 124 6330024