A highly conserved Sinorhizobium meliloti operon is induced microaerobically via the FixLJ system and by nitric oxide (NO) via NnrR

Environmental Microbiology

Volumn 8, Issue 8, 2006, Pages 1371-1381

  De Bruijn, Frans J ^a,b,c   Rossbach, Silvia ^a,d   Bruand, Claude ^a   Parrish, Jodi R ^b,e  

^a LABORATOIRE DES INTERACTIONS PLANTES MICROORGANISMES LIPM   (France)

^b MICHIGAN STATE UNIVERSITY   (United States)

^c Western Michigan University ^*  (United States)

^d WESTERN MICHIGAN UNIVERSITY   (United States)

^e WAYNE STATE UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL PROTEIN; FIXL PROTEIN, BACTERIA; HEMOPROTEIN; NITRIC OXIDE; OXYGEN;

ARTICLE; CHROMOSOME MAP; GENE EXPRESSION REGULATION; GENE FUSION; GENETICS; METABOLISM; METHODOLOGY; OPEN READING FRAME; OPERON; PHYSIOLOGY; REPORTER GENE; SINORHIZOBIUM MELILOTI;

BACTERIAL PROTEINS; CHROMOSOME MAPPING; GENE EXPRESSION REGULATION, BACTERIAL; GENE FUSION; GENES, REPORTER; HEMEPROTEINS; NITRIC OXIDE; OPEN READING FRAMES; OPERON; OXYGEN; SINORHIZOBIUM MELILOTI;

SINORHIZOBIUM MELILOTI;

EID: 33745798389     PISSN: 14622912     EISSN: 14622920     Source Type: Journal    
DOI: 10.1111/j.1462-2920.2006.01030.x     Document Type: Article

References (49)

1. Barnett, M.J., Fisher, R.F., Jones, T., Komp, C., Abola, A.P., Barloy-Hubler, F., et al. (2001) Nucleotide sequence and predicted functions of the entire Sinorhizobium meliloti pSymA megaplasmid. Proc Natl Acad Sci USA 98: 9883-9888.
2. Bartnikas, T.B., Wang, Y., Bobo, T., Veselov, A., Scholes, C.P., and Shapleigh, J.P. (2002) Characterization of a member of the NnrR regulon in Rhodobacter sphaeroides 2.4.3 encoding a haem-copper protein. Microbiology 148: 825-833.
3. Batut, J., Terzaghi, B., Ghérardi, M., Huguet, M., Terzaghi, E., Garnerone, A.-M., et al. (1985) Localization of a symbiotic fix region on Rhizobium meliloti pSym megaplasmid more than 200 kilobases from the nod-nif region. Mol Gen Genet 199: 232-239.
4. Batut, J., Andersson, S.G., and O'Callaghan, D. (2004) The evolution of chronic infection strategies in the alpha-proteobacteria. Nat Rev Microbiol 2: 933-945.
5. Becker, A., Berges, H., Krol, E., Bruand, C., Ruberg, S., Capela, D., et al. (2004) Global changes in gene expression in Sinorhizobium meliloti 1021 under microoxic and symbiotic conditions. Mol Plant Microbe Interact 17: 292-303.
6. Bedmar, E.J., Robles, E.F., and Delgado, M.J. (2005) The complete denitrification pathway of the symbiotic, nitrogen-fixing bacterium Bradyrhizobium japonicum. Biochem Soc Trans 33: 141-144.
7. Bergès, H., Checroun, C., Guiral, S., Garnerone, A.-M., Boistard, P., and Batut, J. (2001) A glutamine-amidotransferase-like protein modulates FixT anti-kinase activity in Sinorhizobium meliloti. BMC Microbiol 1: 6.
8. Bolton, H.J., Fredrickson, J., and Elliott, L. (1993) Microbial Ecology of the Rhizosphere. New York, NY, USA: Marcel Dekker.
9. de Bruijn, F.J., Davey, M.E., Bergès, H., Krol, E., Bruand, C., Rueberg, S., et al. (2004) Genetics and genomics of nutrient deprivation-induced, microaerobic and symbiotic gene expression in Sinorhizobium meliloti. In Biology of Plant-Microbe Interactions. Tikhonovich, I., Lugtenberg, B., and Provorov, N. (eds). St Paul, MN, USA: International Society for Molecular Plant Microbe Interactions, pp. 405-410.
10. Capela, D., Barloy-Hubler, F., Gouzy, J., Bothe, G., Ampe, F., Batut, J., et al. (2001) Analysis of the chromosome sequence of the legume symbiont Sinorhizobium meliloti strain 1021. Proc Natl Acad Sci USA 98: 9877-9882.
11. Chan, Y.K., and Wheatcroft, R. (1993) Detection of a nitrous oxide reductase structural gene in Rhizobium meliloti strains and its location on the nod megaplasmid of JJ1c10 and SU47. J Bacteriol 175: 19-26.
12. Chan, Y.K., McCormick, W.A., and Watson, R.J. (1997) A new nos gene downstream from nosDFY is essential for dissimilatory reduction of nitrous oxide by Rhizobium (Sinorhizobium) meliloti. Microbiology 143: 2817-2824.
13. Davey, M.E., and de Bruijn, F.J. (2000) A homologue of the tryptophan-rich sensory protein TspO and FixL regulate a novel nutrient deprivation-induced Sinorhizobium meliloti locus. Appl Environ Microbiol 66: 5353-5359.
14. David, M., Daveran, M.L., Batut, J., Dedieu, A., Domergue, O., Ghai, J., et al. (1988) Cascade regulation of nif gene expression in Rhizobium meliloti. Cell 54: 671-683.
15. DelVecchio, V.G., Kapatral, V., Elzer, P., Patra, G., and Mujer, C.V. (2002) The genome of Brucella melitensis. Vet Microbiol 90: 587-592.
16. Ermolaeva, M.D., White, O., and Salzberg, S.L. (2001) Prediction of operons in microbial genomes. Nucleic Acids Res 29: 1216-1221.
17. Finan, T.M., Hartweig, E., LeMieux, K., Bergman, K., Walker, G.C., and Signer, E.R. (1984) General transduction in Rhizobium meliloti. J Bacteriol 159: 120-124.
18. Finan, T.M., Weidner, S., Wong, K., Buhrmester, J., Chain, P., Vorholter, F.J., et al. (2001) The complete sequence of the 1,683-kb pSymB megaplasmid from the N2-fixing endosymbiont Sinorhizobium meliloti. Proc Natl Acad Sci USA 98: 9889-9894.
19. Galibert, F., Finan, T.M., Long, S.R., Puehler, A., Abola, P., Ampe, F., et al. (2001) The composite genome of the legume symbiont Sinorhizobium meliloti. Science 293: 668-672.
20. Galindo Blaha, C.A., and Schrank, I.S. (2003) An Azospirillum brasilense Tn5 mutant with modified stress response and impaired in flocculation. Antonie Van Leeuwenhoek 83: 35-43.
21. Hérouart, D., Baudouin, E., Frendo, P., Harrison, J., Santos, R., Jamet, A., et al. (2002) Reactive oxygen species, nitric oxide and glutathione: a key role in the establishment of the legume-Rhizobium symbiosis? Plant Physiol Biochem 40: 619-624.
22. Holloway, P., McCormick, W., Watson, R.J., and Chan, Y.K. (1996) Identification and analysis of the dissimilatory nitrous oxide reduction genes, nosRZDFY, of Rhizobium meliloti. J Bacteriol 178: 1505-1514.
23. House, B.L., Mortimer, M.W., and Kahn, M.L. (2004) New recombination methods for Sinorhizobium meliloti genetics. Appl Environ Microbiol 70: 2806-2815.
24. Kahn, D., David, M., Domergue, O., Daveran, M.L., Ghai, J., Hirsch, P.R., and Batut, J. (1989) Rhizobium meliloti fixGHI sequence predicts involvement of a specific cation pump in symbiotic nitrogen fixation. J Bacteriol 171: 929-939.
25. Korner, H., Sofia, H.J., and Zumft, W.G. (2003) Phylogeny of the bacterial superfamily of Crp-Fnr transcription regulators: exploiting the metabolic spectrum by controlling alternative gene programs. FEMS Microbiol Rev 27: 559-592.
26. Kowalchuk, G.A., and Stephen, J.R. (2001) Ammonia-oxidizing bacteria: a model for molecular microbial ecology. Annu Rev Microbiol 55: 485-529.
27. Mesa, S., Bedmar, E.J., Chanfon, A., Hennecke, H., and Fischer, H.M. (2003) Bradyrhizobium japonicum NnrR, a denitrification regulator, expands the FixLJ-FixK2 regulatory cascade. J Bacteriol 185: 3978-3982.
28. Metting, F.B.J. (1993) Structure and Physiological Ecology of Soil Microbial Communities. New York, NY, USA: Marcel Dekker.
29. Milcamps, A., and de Bruijn, F.J. (1999) Identification of a novel nutrient-deprivation-induced Sinorhizobium meliloti gene (hmgA) involved in the degradation of tyrosine. Microbiology 145: 935-947.
30. Milcamps, A., Ragatz, D.M., Lim, P., Berger, K.A., and de Bruijn, F.J. (1998) Isolation of carbon- and nitrogen-deprivation-induced loci of Sinorhizobium meliloti 1021 by Tn5-luxAB mutagenesis. Microbiology 144: 3205-3218.
31. Milcamps, A., Struffi, P., and de Bruijn, F.J. (2001) The Sinorhizobium meliloti nutrient-deprivation-induced tyrosine degradation gene hmgA is controlled by a novel member of the arsR family of regulatory genes. Appl Environ Microbiol 67: 2641-2648.
32. Moreno, E., Stackebrandt, E., Dorsch, M., Wolters, J., Busch, M., and Mayer, H. (1990) Brucella abortus 16S rRNA and lipid A reveal a phylogenetic relationship with members of the alpha-2 subdivision of the class Proteobacteria. J Bacteriol 172: 3569-3576.
33. O'Hara, G.M., and Daniel, R. (1985) Rhizobial denitrification: a review. Soil Biol Biochem 17: 1-9.
34. Ohno, H., Zhu, G., Mohan, V.P., Chu, D., Kohno, S., Jacobs, W.R., Jr, and Chan, J. (2003) The effects of reactive nitrogen intermediates on gene expression in Mycobacterium tuberculosis. Cell Microbiol 5: 637-648.
35. Oke, V., and Long, S.R. (1999) Bacterial genes induced within the nodule during the Rhizobium-legume symbiosis. Mol Microbiol 32: 837-849.
36. O'Toole, G.A., and Kolter, R. (1998) Initiation of biofilm formation in Pseudomonas fluorescens WCS365 proceeds via multiple, convergent signalling pathways: a genetic analysis. Mol Microbiol 28: 449-461.
37. Paulsen, I.T., Seshadri, R., Nelson, K.E., Eisen, J.A., Heidelberg, J.F., Read, T.D., et al. (2002) The Brucella suis genome reveals fundamental similarities between animal and plant pathogens and symbionts. Proc Natl Acad Sci USA 99: 13148-13153.
38. Polverari, A., Molesini, B., Pezzotti, M., Buonaurio, R., Marte, M., and Delledonne, M. (2003) Nitric oxide-mediated transcriptional changes in Arabidopsis thaliana. Mol Plant Microbe Interact 16: 1094-1105.
39. Rénalier, M.H., Batut, J., Ghai, J., Terzaghi, B., Ghérardi, M., David, M., et al. (1987) A new symbiotic cluster on the pSym megaplasmid of Rhizobium meliloti 2011 carries a functional fix gene repeat and a nod locus. J Bacteriol 169: 2231-2238.
40. Revers, L.F., Passaglia, L.M., Marchal, K., Frazzon, J., Blaha, C.G., Vanderleyden, J., and Schrank, I.S. (2000) Characterization of an Azospirillum brasilense Tn5 mutant with enhanced N(2) fixation: the effect of ORF280 on nifH expression. FEMS Microbiol Lett 183: 23-29.
41. Richardson, D.J., and Watmough, N.J. (1999) Inorganic nitrogen metabolism in bacteria. Curr Opin Chem Biol 3: 207-219.
42. Soupène, E., Foussard, M., Boistard, P., Truchet, G., and Batut, J. (1995) Oxygen as a key developmental regulator of Rhizobium meliloti N2-fixation gene expression within the alfalfa root nodule. Proc Natl Acad Sci USA 92: 3759-3763.
43. Stamler, J.S., Lamas, S., and Fang, F.C. (2001) Nitrosylation. The prototypic redox-based signaling mechanism. Cell 106: 675-683.
44. Trzebiatowski, J.R., Ragatz, D.M., and de Bruijn, F.J. (2001) Isolation and regulation of Sinorhizobium meliloti 1021 loci induced by oxygen limitation. Appl Environ Microbiol 67: 3728-3731.
45. Ugalde, R.A. (1999) Intracellular lifestyle of Brucella spp. Common genes with other animal pathogens, plant pathogens, and endosymbionts. Microbes Infect 1: 1211-1219.
46. Wolk, C.P., Cai, Y., and Panoff, J.M. (1991) Use of a transposon with luciferase as a reporter to identify environmentally responsive genes in a cyanobacterium. Proc Natl Acad Sci USA 88: 5355-5359.
47. Zhao, H., Li, X., Johnson, D.E., and Mobley, H.L. (1999) Identification of protease and rpoN-associated genes of uropathogenic Proteus mirabilis by negative selection in a mouse model of ascending urinary tract infection. Microbiology 145: 185-195.
48. Zumft, W.G. (1997) Cell biology and molecular basis of denitrification. Microbiol Mol Biol Rev 61: 533-616.
49. Zumft, W.G. (2003) Nitric oxide signaling and NO dependent transcriptional control in bacterial denitrification by members of the Fnr-Crp regulator family. In Regulatory Networks in Prokaryotes. Dürre, P., and Friedrich, B. (eds). Norwich, UK: Horizon Scientific Press, pp. 109-118.