Methylotrophy in Methylobacterium extorquens AM1 from a genomic point of view

Journal of Bacteriology

Volumn 185, Issue 10, 2003, Pages 2980-2987

  Chistoserdova, Ludmila ^a   Chen, Sung Wei ^a   Lapidus, Alla ^c   Lidstrom, Mary E ^a,b  

^a University of Washington   (United States)

^b UNIVERSITY OF WASHINGTON   (United States)

^c Integrated Genomics Inc   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CARBON; ENZYME; FORMALDEHYDE; FORMIC ACID; GLYOXYLIC ACID; POLY(3 HYDROXYBUTYRIC ACID); SERINE;

BACTERIAL GENE; BACTERIAL GENOME; BACTERIAL METABOLISM; CHROMOSOME; CITRIC ACID CYCLE; GENOMICS; METHYLOBACTERIUM EXTORQUENS; METHYLOTROPHIC BACTERIUM; NUCLEOTIDE SEQUENCE; OXIDATION; PRIORITY JOURNAL; SHORT SURVEY;

CITRIC ACID CYCLE; FORMIC ACIDS; GENES, BACTERIAL; GENOME, BACTERIAL; GLYOXYLATES; HYDROXYBUTYRATES; METHANOL; METHYLAMINES; METHYLOBACTERIUM EXTORQUENS; OXIDATION-REDUCTION; POLYESTERS; SERINE;

BACTERIA (MICROORGANISMS); METHYLOBACTERIUM; METHYLOBACTERIUM EXTORQUENS;

EID: 0037967152     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/JB.185.10.2980-2987.2003     Document Type: Short Survey

References (53)

1. Amaratunga, K., P. M. Goodwin, C. D. O'Connor, and C. Anthony. 1997. The methanol oxidation genes mxaFJGIR(S)ACKLD in Methylobacterium extorquens. FEMS Microbiol. Lett. 146:31-38. (Erratum, 150:175-177.).
2. Anderson, D. J., C. J. Morris, D. N. Nunn, C. Anthony, and M. E. Lidstrom. 1990. Nucleotide sequence of the Methylobacterium extorquens AM1 moxF and moxJ genes involved in methanol oxidation, Gene 90:173-176.
3. Anthony, C. 1982. The biochemistry of methylotrophs. Academic Press, London, United Kingdom.
4. Arps, P. J., G. F. Fulton, E. C. Minnich, and M. E. Lidstrom. 1993. Genetics of serine pathway enzymes in Methylobacterium extorquens AM1: phosphoenolpyruvate carboxylase and malyl coenzyme A lyase. J. Bacteriol. 175: 3776-3783.
5. Chistoserdov, A. Y., L. V. Chistoserdova, W. S. McIntire, and M. E. Lidstrom. 1994, Genetic organization of the mau cluster in Methylobacterium extorquens AM1: complete nucleotide sequence and generation and characteristics of mau mutants. J. Bacteriol. 176:4052-4065.
6. 1 compounds. Kluwer Academic Publishers, Dordrecht, The Netherlands,
7. Chistoserdova, L. V., and M. E. Lidstrom. 1991. Purification and characterization of hydroxypyruvate reductase from the facultative methylotroph Methylobacterium extorquens AM1. J. Bacteriol. 173:7228-7232.
8. Chistoserdova, L. V., and M. E. Lidstrom. 1992. Cloning, mutagenesis, and physiological effect of a hydroxypyruvate reductase gene from Methylobacterium extorquens AM1. J. Bacteriol. 174:71-77.
9. Chistoserdova, L. V., and M. E. Lidstrom. 1994. Genetics of the serine cycle in Methylobacterium extorquens AM1: identification of sgaA and mtdA and sequences of sgaA, hprA, and mtdA. J. Bacteriol. 176:1957-1968.
10. 1 assimilation, orf4, mtkA, and mtkB. J. Bacteriol. 176:7398-7404.
11. Chistoserdova, L. V., and M. E. Lidstrom. 1994. Genetics of the serine cycle in Methylobacterium extorquens AM1: cloning, sequence, mutation, and physiological effect of glyA, the gene for serine hydroxymethyltransferase. J. Bacteriol. 176:6759-6763.
12. Chistoserdova, L. V., and M. E. Lidstrom. 1996. Molecular characterization of a chromosomal region involved in the oxidation of acetyl-CoA into glyoxylate in the isocitrate-lyase-negative methylotroph, Methylobacterium extorquens AM1. Microbiology 142:1459-1468.
13. Chistoserdova, L. V., and M. E. Lidstrom. 1997. Molecular and mutational analysis of a DNA region separating two methylotrophy gene clusters in Methylobacterium extorquens AM1. Microbiology 143:1729-1736.
14. Chistoserdova, L. V., and M. E. Lidstrom. 1997. Identification and mutation of a gene required for glycerate kinase activity from a facultative methylotroph. Methylobacterium extorquens AM1. J. Bacteriol. 179:4946-4948.
15. 1 transfer enzymes and coenzymes linking methylotrophic bacteria and methanogenic archaea. Science 281:99-102.
16. 4MPT dehydrogenase from Methylobacterium extorquens AM1. Structure 10:11271.137.
17. Hagemeier, C. H., S. Bartoschek, C. Griesinger, R. K. Thauer, and J. A. Vorholt. 2001. Re-face stereospecificity of NADP dependent methylene tetrahydromethanopterin dehydrogenase from Methylobactedum extorquens AM1 as determined by NMR spectroscopy. FEBS Lett. 494:95-98.
18. Hagemeier, C. H., L. Chistoserdova, M. E. Lidstrom, R. K. Thauer, and J. A. Vorholt. 2000, Characterization of a second methylene tetrahydromethanopterin dehydrogenase from Methylobacterium extorquens AM1. Eur. J. Biochem. 267:3762-3769.
19. Han, L., and K. A. Reynolds. 1997. A novel alternative anaplerotic pathway to the glyoxylate cycle in streptomycetes. J. Bacteriol. 179:5157-5164.
20. Kalyuzhnaya, M., and M. E. Lidstrom. 2003. QscR, a LysR-type transcriptional regulator and CbbR homolog, is involved in regulation of the serine cycle genes in Methylobacterium extorquens AM1. J. Bacteriol. 185:1229-1235.
21. Kelly, D. P., and J. C. Murrell. 1999. Microbial metabolism of methanesulfonic acid. Arch. Microbiol. 172:341-348.
22. Korotkova, N., L. Chistoserdova, V. Kuksa, and M. E. Lidstrom. 2002. Glyoxylate regeneration pathway in the methylotroph Methylobacterium extorquens AM1: J. Bacteriol. 184:1750-1758.
23. Korotkova, N., L. Chistoserdova, and M. E. Lidstrom. 2002. Poly-β-hydroxybutyrate biosynthesis in the facultative methylotroph Methylobacterium extorquens AMI: identification and mutation of gap11, gap20, and phaR. J. Bacteriol. 184:6174-6181.
24. 2 compounds in the methylotroph Methylobacterium extorquens AM1. J. Bacteriol. 183:1038-1046.
25. Laukel, M., L. Chistoserdova, M. E. Lidstrom, and J. A. Vorholt. 2003. The tungsten-containing formate dehydrogenase from Methylobacterium extorquens AM1: purification and properties. Eur. J. Biochem. 270:325-333.
26. Lidstrom, M. E., C. Anthony, F. Biville, F. Gasser, P. Goodwin, R. S. Hanson, and N. Harms. 1994. New unified nomenclature for genes involved in the oxidation of methanol in Gram-negative bacteria. FEMS Microbiol. Lett. 117:103-106.
27. 1 metabolism in methylotrophs, p. 121-134. In E. Vijgenboom and G. Canters (ed.), NATO Symposium on Electron Transfer Chains.
28. Marx, C. J., B. N. O'Brien, J. Breezee, and M. E. Lidstrom. 2003. Novel methylotrophy genes of Methylobacterium extorquens AM1 identified by using transposon mutagenesis including a putative dihydromethanopterin reductase. J. Bacteriol. 185:669-673.
29. Morris, C. J., Y. M. Kim, K. E. Perkins, and M. E. Lidstrom. 1995. Identification and nucleotide sequences of mxA, mxaC, mxaK, mxaL, and mxaD genes from Methylobacterium extorquens AM1. J. Bacteriol. 177: 6825-6831.
30. L and a hypothetical second subunit of the methanol dehydrogenase of Methylobacterium extorquens AM1. Nucleic Acids Res. 16:7722.
31. Nunn, D. N., D. Day, and C. Anthony. 1989. The second subunit of methanol dehydrogenase of Methylobacterium extorquens AM1. Biochem. J. 260:857-862.
32. Nunn, D. N., and M. E. Lidstrom. 1986. Isolation and complementation analysis of 10 methanol oxidation mutant classes and identification of the methanol dehydrogenase structural gene of Methylobacterium sp. strain AM1. J. Bacteriol. 166:581-590.
33. Nunn, D. N., and M. E. Lidstrom. 1986. Phenotypic characterization of 10 methanol oxidation mutant classes in Methylobacterium sp. strain AM1. J. Bacteriol. 166:591-597.
34. Pomper, B. K., O. Saurel, A. Milon, and J. A. Vorholt. 2002. Generation of formate by the formyltransferase/hydrolase complex (Fhc) from Methylobacterium extorquens AM1. FEBS Lett. 523:133-137.
35. Pomper, B. K., and J. A. Vorholt. 2001. Characterization of the formyltransferase (Ftr) from Methylobacterium extorquens AM1. Eur. J. Biochem. 269: 4769-4775.
36. Pomper, B. K., J. A. Vorholt, L. Chistoserdova, M. E. Lidstrom, and R. K. Thauer. 1999. A methenyl tetrahydromethanopterin cyclohydrolase and a methenyl tetrahydrofolate cyclohydrolase in Methylobacterium extorquens AM1. Eur. J. Biochem. 261:475-480.
37. Rossbach, S., and H. Hennecke. 1991. Identification of glyA as a symbiotically essential gene in Bradyrhizobium japonicum. Mol. Microbiol. 5:39-47.
38. Scott, J. W., and M. E. Rasche. 2002. Purification, overproduction, and partial characterization of β-RFAP synthase, a key enzyme in the methanopterin biosynthesis pathway. J. Bacteriol. 184:4442-4448.
39. Shively, J. M., G. van Keulen, and W. G. Meijer. 1998. Something from almost nothing: carbon dioxide fixation in chemoautotrophs. Annu. Rev. Microbiol. 52:191-230.
40. Smith, L. M., W. G. Meijer, L. Dijkhuizen, and P. M. Goodwin. 1996. A protein having similarity with methylmalonyl-CoA mutase is required for the assimilation of methanol and ethanol by Methylobacterium extorquens AM1. Microbiology 142:675-684.
41. Springer, A. L., A. J. Auman, and M. E. Lidstrom. 1998. Sequence and characterization of mxaB, a response regulator involved in regulation of methanol oxidation, and of mxaW, a methanol-regulated gene in Methylobacterium extorquens AM1. FEMS Microbiol. Lett. 160:119-124.
42. Springer, A. L., C. J. Morris, and M. E. Lidstrom. 1997. Molecular analysis of mxbD and mxbM, a putative sensor-regulator pair for oxidation of methanol in Methylobacterium extorquens AM1. Microbiology 143:1737-1744.
43. Springer, A. L., R. Ramamoorthi, and M. E. Lidstrom. 1996. Characterization and nucleotide sequence of pqqE and pqqF in Methylobacterium extorquens AM1. J. Bacteriol. 178:2154-2157.
44. Toyama, H., C. Anthony, and M. E. Lidstrom. 1998. Construction of insertion and deletion mxa mutants of Methylobacterium extorquens AM1 by electroporation. FEMS Microbiol. Lett. 166:1-7.
45. Toyama, H., L. L. Chistoserdova, and M. E. Lidstrom. 1997. Sequence analysis of pqq genes required for biosynthesis of pyrroloquinoline quinone in Methylobacterium extorquens AM1 and the purification of a biosynthetic intermediate. Microbiology 143:595-602.
46. Toyama, H., and M. E. Lidstrom. 1998. pqqA is not required for biosynthesis of pyrroloquinoline quinone in Methylobacterium extorquens AM1. Microbiology 144:183-191.
47. Umbarger, H. E., M. A. Umbarger, and P. M. L. Siu. 1963. Biosynthesis of serine in Escherichia coli and Salmonella typhimurium. J. Bacteriol. 85:1431-1439.
48. Van Dien, S. J., and M. E. Lidstrom. 2002. Stoichiometric model for evaluating the metabolic capabilities of the facultative methylotroph Methylobacterium extorquens AM1, with application to reconstruction of C(3) and C(4) metabolism. Biotechnol. Bioeng. 78:296-312.
49. 4 metabolism in Methylobacterium extorquens AM1 using transposon mutagenesis. Microbiology 149:601-609.
50. Vannelli, T., M. Messmer, A. Studer, S. Vuilleumier, and T. Leisinger. 1999. A corrinoid-dependent catabolic pathway for growth of a Methylobacterium strain with chloromethane. Proc. Natl. Acad. Sci. USA 96:4615-4620.
51. Vorholt, J. A., L. Chistoserdova, M. E. Lidstrom, and R. K. Thauer. 1998. The NADP-dependent methylene tetrahydromethanopterin dehydrogenase in Methylobacterium extorquens AM1. J. Bacteriol. 180:5351-5356.
52. Vorholt, J. A., C. J. Marx, M. E. Lidstrom, and R. K. Thauer. 2000. Novel formaldehyde-activating enzyme in Methylobacterium extorquens AM1 required for growth on methanol J. Bacteriol. 182:6645-6650.
53. Vorholt, J. A., L Chistoserdova, S. M. Stolyar, R. K. Thauer, and M. E. Lidstrom. 1999. Distribution of tetrahydromethanopterin-dependent enzymes in methylotrophic bacteria and phylogeny of methenyl tetrahydromethanopterin cyclohydrolases. J. Bacteriol. 181:5750-5757.