Genome-enabled analysis of the utilization of taurine as sole source of carbon or of nitrogen by Rhodobacter sphaeroides 2.4.1

Microbiology

Volumn 152, Issue 11, 2006, Pages 3197-3206

  Denger, Karin ^a   Smits, Theo H M ^a   Cook, Alasdair M ^a  

^a Department of Biology ^*  (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

ABC TRANSPORTER; ACYLTRANSFERASE; ALANINE DEHYDROGENASE; AMINOTRANSFERASE; AMMONIA; BACTERIAL ENZYME; CARBON; CARRIER PROTEIN; LYASE; MALATE SYNTHASE; MALYL COENZYME A LYASE; NITROGEN; OXIDOREDUCTASE; PHOSPHATE ACETYLTRANSFERASE; SUCCINIC ACID; SULFOACETALDEHYDE ACETYLTRANSFERASE; TAURINE; TAURINE DEHYDROGENASE; TAURINE PYRUVATE AMINOTRANSFERASE; UNCLASSIFIED DRUG;

AEROBIC METABOLISM; ARTICLE; BACTERIAL GENETICS; BACTERIAL GENOME; BACTERIAL GROWTH; BACTERIAL METABOLISM; CONTROLLED STUDY; CULTURE MEDIUM; ENZYME ACTIVITY; ENZYME INDUCTION; GENETIC TRANSCRIPTION; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RHODOBACTER SPHAEROIDES;

ACETALDEHYDE; ACETYLTRANSFERASES; ALANINE DEHYDROGENASE; ATP-BINDING CASSETTE TRANSPORTERS; BACTERIAL PROTEINS; CARBON; CULTURE MEDIA; GENES, BACTERIAL; MALATE SYNTHASE; MULTIGENE FAMILY; NITROGEN; OXIDOREDUCTASES ACTING ON CH-NH GROUP DONORS; OXO-ACID-LYASES; PHOSPHATES; POLYMERASE CHAIN REACTION; PYRUVIC ACID; RHODOBACTER SPHAEROIDES; SUCCINIC ACID; TAURINE; TRANSCRIPTION, GENETIC;

RHODOBACTER SPHAEROIDES 2.4.1;

EID: 33750957249     PISSN: 13500872     EISSN: None     Source Type: Journal    
DOI: 10.1099/mic.0.29195-0     Document Type: Article

References (55)

1. Abraham, W.-R., Strömpl, C., Vancanneyt, M., Bennasar, A, Swings, J., Lünsdorf, H., Smit, J. & Moore, E. R. B. (2004). Woodsholea maritima gen. nov., sp. nov., a marine bacterium with a low diversity of polar lipids. Int J Syst Evol Microbiol 54, 1227-1234.
2. Alber, B. E., Spanheimer, R., Ebenau-Jehle, C. & Fuchs, G. (2006). Study of an alternative glyoxylate cycle for acetate assimilation by Rhodobacter sphaeroides. Mol Microbiol 61, 297-309.
3. Allen, J. A. & Garrett, M. R. (1971). Taurine in marine invertebrates. Adv Mar Biol 9, 205-253.
4. Altschul, S. F., Madden, T. L., Schäffer, A. A., Zhang, J., Zhang, Z, Miller, W. & Lipman, D. J. (1997). Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25, 3389-3402.
5. Bergmeyer, H. U., Graßl, M. & Walter, E.-M. (1983). Phosphotransacetylase. In Methods of Enzymatic Analysis, pp. 295-296. Edited by H. U. Bergmeyer. Weinheim: Verlag Chemie.
6. Bradford, M. (1976). A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem 72, 248-254.
7. Brüggemann, C., Denger, K., Cook, A. M. & Ruff, J. (2004). Enzymes and genes of taurine and isethionate dissimilation in Paracoccus denitrificans. Microbiology 150, 805-816.
8. Cook A. M. (1987). Biodegradation of s-triazine xenobiotics. FEMS Microbiol Rev 46, 93-116.
9. Cook A. M. & Hütter, R. (1981). s-Triazines as nitrogen sources for bacteria. J Agric Food Chem 29, 1135-1143.
10. 2 sulfonates. Arch Microbiol 179, 1-6.
11. Cook, A. M. & Denger, K. (2006). Metabolism of taurine in microorganisms: a primer in molecular diversity? Adv Exp Med Biol 583, 3-13.
12. Denger, K., Laue, H. & Cook, A. M. (1997). Anaerobic taurine oxidation: a novel reaction by a nitrate-reducing Alcaligenes sp. Microbiology 143, 1919-1924.
13. Denger, K, Ruff, J., Rein, U. & Cook, A. M. (2001). Sulfoacetaldehyde sulfo-lyase [EC 4.4.1.12] from Desulfonispora thiosulfatigenes: purification, properties and primary sequence. Biochem J 357, 581-586.
14. Denger, K., Ruff, J., Schleheck, D. & Cook, A. M. (2004a). Rhodococcus opacus expresses the xsc gene to utilize taurine as a carbon source or as a nitrogen source but not as a sulfur source. Microbiology 150, 1859-1867.
15. Denger, K., Weinitschke, S., Hollemeyer, K. & Cook, A. M. (2004b). Sulfoacetate generated by Rhodopseudomonas palustris from taurine. Arch Microbiol 182, 254-258.
16. T. Biochern J 394, 657-664.
17. Desomer, J., Crespi, M. & Van Montagu, M. (1991). Illegitimate integration of non-replicative vectors in the genome of Rhodococcus fascians upon electrotransformation as an insertional mutagenesis system. Mol Microbiol 5, 2115-2124.
18. Dixon, G. H. & Kornberg, H. L. (1959). Assay methods for key enzymes of the glyoxylate cycle. Biochem J 72, 3P.
19. Eichhorn, E., van der Ploeg, J. R. & Leisinger, T. (2000). Deletion analysis of the Escherichia coli taurine and alkanesulfonate transport systems. J Bacteriol 182, 2687-2795.
20. Filatova, L. V., Berg, I. A., Krasil'nikova, E. N. & Ivanovsky, R. N. (2005). A study of the mechanism of acetate assimilation in purple nonsulfur bacteria lacking the glyoxylate shunt: enzymes of the citramalate cycle in Rhodobacter sphaeroides. Microbiology (English translation of Mikrobiologiia) 74, 270-278.
21. Forward, J. A., Behrendt, M. C., Wyborn, N. R., Cross, R. & Kelly, D. J. (1997). TRAP transporters: a new family of periplasmic solute transport systems encoded by the dctPQM genes of Rhodobacter capsulatus and by homologs in diverse gram-negative bacteria. J Bacteriol 179, 5482-5493.
22. Gesellschaft Deutscher Chemiker (1996). German Standard Methods for the Laboratory Examination of Water, Waste Water and Sludge. Weinheim: Verlag Chemie.
23. T. Arch Microbiol 185, 402-606.
24. Hagen, K. D. & Nelson, D. C. (1997). Use of reduced sulfur compounds by Beggiatoa spp.: enzymology and physiology of marine and freshwater strains in homogeneous and gradient cultures. Appl Environ Microbiol 63, 3957-3964.
25. Huxtable, R. J. (1992). Physiological actions of taurine. Physiol Rev 72, 101-163.
26. Innis, M. A., Gelfand, D. H., Sninsky, J. J. & White, T. J. (1990). PCR Protocols. A Guide to Methods and Applications. San Diego: Academic Press.
27. Kappler, U. & Dahl, C. (2001). Enzymology and molecular biology of prokaryotic sulfite oxidation. FEMS Microbiol Lett 203, 1-9.
28. Kappler, U., Bennett B., Rethmeier, J., Schwarz, G., Deutzmann, R., McEwan, A. G. & Dahl, C. (2000). Sulfite: cytochrome c oxidoreductase from Thiobacillus novellus. Purification, characterization, and molecular biology of a heterodimeric member of the sulfite oxidase family. J Biol Chem 275, 13202-13212.
29. Kertesz, M. A. (2000). Riding the sulfur cycle - metabolism of sulfonates and sulfate esters in Gram-negative bacteria. FEMS Microbiol Rev 24, 135-175.
30. Khademi, S., O'Connell, J., III, Remis, J., Robles-Colmenares, Y., Miercke, L. J. & Stroud, R. M. (2004). Mechanism of ammonia transport by Amt/MEP/Rh: structure of AmtB at 1.35 Å. Science 305, 1587-1594.
31. Kinhikar, A. G., Vargas, D., Li, H., Mahaffey, S. B., Hinds, L., Belisle, J. T. & Laal, S. (2006). Mycobacterium tuberculosis malate synthase is a laminin-binding adhesin. Mol Microbiol 60, 999-1013.
32. Laemmil, U. K. (1970). Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature 227, 680-685.
33. Laue, H. & Cook A. M. (2000a). Purification, properties and primary structure of alanine dehydrogenase involved in taurine metabolism in the anaerobe Bilophila wadsworthia. Arch Microbiol 174, 162-167.
34. Laue, H. & Cook A. M. (2000b). Biochemical and molecular characterization of taurine: pyruvate aminotransferase from the anaerobe Bilophila wadsworthia. Eur J Biochem 267, 6841-6848.
35. Laue, H., Smits, T. H. M., Schumacher, U., Claros, M., Hartemink, R. & Cook, A. M. (2006). Identification of Bilophila wadsworthia in enrichment cultures by specific PCR which targets the taurine:pyruvate aminotransferase gene. FEMS Microbiol Lett 261, 74-79.
36. Lawrence, S. H., Luther, K. B., Schindelin, H. & Ferry, J. G. (2006). Structural and functional studies suggest a catalytic mechanism for the phosphotransacetylase from Methanosarcina thermophila. J Bacteriol 188, 1143-1154.
37. Lie, T. L., Leadbetter, J. R. & Leadbetter, E. R. (1998). Metabolism of sulfonic acids and other organosulfur compounds by sulfate-reducing bacteria. Geomicrobiol J 15, 135-149.
38. Masepohl, B., Führer, F. & Klipp, W. (2001). Genetic analysis of a Rhodobacter capsulatus gene region involved in utilization of taurine as a sulfur source. FEMS Microbiol Lett 205, 105-111.
39. Mayer, J., Danger, K., Smits, T. H. M., Hollemeyer, K., Groth, U. & Cook, A. M. (2006). N-Acetyltaurine dissimilated via taurine by Delftia acidovorans NAT. Arch Microbiol 186, 61-67.
40. Meister, M., Saum, S., Alber, B. E. & Fuchs, G. (2005). ι-Malylcoenzyme A/β-methylmalyl-coenzyme A lyase is involved in acetate assimilation of the isocitrate lyase-negative bacterium Rhodobacter capsulatus. J Bacteriol 187, 1415-1425.
41. Novak, R. T., Gritzer, R. F., Leadbetter, E. R. & Godchaux, W. (2004). Phototrophic utilization of taurine by the purple nonsulfur bacteria Rhodopseudomonas palustris and Rhodobacter sphaeroides. Microbiology 150, 1881-1891.
42. Reichenbecher, W., Kelly, D. P. & Murrell, J. C. (1999). Desulfonation of propanesulfonic acid by Comamonas acidovorans strain P53: evidence for an alkanesulfonate sulfonatase and an atypical sulfite dehydrogenase. Arch Microbiol 172, 387-392.
43. Rein, U., Gueta, R., Denger, K., Ruff, J., Hollemeyer, K. & Cook, A. M. (2005). Dissimilation of cysteate via 3-sulfolactate sulfo-lyase and a sulfate exporter in Paracoccus pantotrophus NKNCYSA. Microbiology 151, 737-747.
44. Ruff, J., Denger, K. & Cook, A. M. (2003). Sulphoacetaldehyde acetyltransferase yields acetyl phosphate: purification from Alcaligenes defragrans and gene clusters in taurine degradation. Biochem J 369, 275-285.
45. Sambrook, J., Fritsch, E. F. & Maniatis, T. (1989). Molecular Cloning: a Laboratory Manual, 2nd edn. Cold Spring Harbor: Cold Spring Harbor Laboratory.
46. Schiffer, A., Fritz, G., Kroneck, P. M. & Ermler, U. (2006). Reaction mechanism of the iron-sulfur flavoenzyme adenosine-5′-phosphosulfate reductase based on the structural characterization of different enzymatic states. Biochemistry 45, 2960-2967.
47. Sistrom, W. R. (1962). The kinetics of the synthesis of photopigments in Rhodopseudomonas sphaeroides. J Gen Microbiol 28, 607-616.
48. Sörbo, B. (1987). Sulfate: turbidimetric and nephelometric methods. Methods Enzymol 143, 3-6.
49. Styp von Rekowski, K., Denger, K. & Cook, A. M. (2005). Isethionate as a product from taurine during nitrogen-limited growth of Klebsiella oxytoca Tau-N1. Arch Microbiol 183, 325-330.
50. Thurnheer, T., Köhler, T., Cook, A. M. & Leisinger, T. (1986). Orthanilic acid and analogues as carbon sources for bacteria: growth physiology and enzymic desulphonation. J Gen Microbiol 132, 1215-1220.
51. Vollrath, F., Fairbrother, W. J., Williams, R. J. P., Tillinghast, E. K., Bernstein, D. T., Gallagher, K. S. & Townley, M. A. (1990). Compounds in the droplets of the orb spider's viscid spiral. Nature 345, 526-528.
52. Weinitschke, S., Styp von Rekowski, K., Denger, K. & Cook, A. M. (2005). Sulfoacetaldehyde is excreted quantitatively by Acinetobacter calcoaceticus SW1 during growth with taurine as sole source of nitrogen. Microbiology 151, 1285-1290.
53. Weinitschke, S., Denger, K., Smits, T. H. M., Hollemeyer, K. & Cook, A. M. (2006). The sulfonated osmolyte N-methyltaurine is dissimilated by Alcaligenes faecalis and by Paracoccus versutus with release of methylamine. Microbiology 152, 1179-1186.
54. Weisburg, W. G., Barns, S. M., Pelletier, D. A. & Lane, D. J. (1991). 16S ribosomal DNA amplification for phylogenetic study. J Bacteriol 173, 697-703.
55. Yin, M., Palmer, H. R., Fyfe-Johnson, A. L, Bedford, J. J., Smith, R. A. & Yancey, P. H. (2000). Hypotaurine, N-methyltaurine, taurine, and glycine betaine as dominant osmolytes of vestimentiferan tubeworms from hydrothermal vents and cold seeps. Physiol Biochem Zool 73, 629-637.