Characterization of the ectoine biosynthesis genes of haloalkalotolerant obligate methanotroph "Methylomicrobium alcaliphilum 20Z"

Archives of Microbiology

Volumn 184, Issue 5, 2006, Pages 286-297

  Reshetnikov, Alexander S ^a   Khmelenina, Valentina N ^a   Trotsenko, Yuri A ^a  

^a SKRYABIN INSTITUTE OF BIOCHEMISTRY AND PHYSIOLOGY OF MICROORGANISMS   (Russian Federation)

Author keywords

"Methylomicrobium alcaliphilum"; Compatible solutes; EctABCask gene cluster; Ectoine; Methanotrophs; Osmoregulation

Indexed keywords

ACYLTRANSFERASE; AMINO ACID; AMINOTRANSFERASE; ASPARTATE KINASE; BACTERIAL ENZYME; DNA FRAGMENT; ECTOINE; SODIUM CHLORIDE; SYNTHETASE;

ARTICLE; BACTERIAL GENETICS; BIOSYNTHESIS; CELL GROWTH; CONTROLLED STUDY; ESCHERICHIA COLI; GENE EXPRESSION; METHANOTROPHIC BACTERIUM; METHYLMICROBIUM ALCALIPHILUM; NONHUMAN; NUCLEOTIDE SEQUENCE; OPERON; PHYLOGENY; PRIORITY JOURNAL; PROMOTER REGION; STRUCTURAL GENE; VIBRIO CHOLERAE;

AMINO ACID SEQUENCE; AMINO ACIDS, DIAMINO; BACTERIAL PROTEINS; BASE SEQUENCE; CLONING, MOLECULAR; GENE EXPRESSION REGULATION, BACTERIAL; GENES, BACTERIAL; HYDRO-LYASES; HYDROGEN-ION CONCENTRATION; METHYLOCOCCACEAE; MOLECULAR SEQUENCE DATA; MULTIGENE FAMILY; SEQUENCE ANALYSIS, DNA; SODIUM CHLORIDE;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI; METHYLOBACTER ALCALIPHILUS; VIBRIO CHOLERAE;

EID: 29144439151     PISSN: 03028933     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00203-005-0042-z     Document Type: Article

References (54)

1. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215:403-410
2. Benoiton L, Leclerc J (1965) An improved synthesis of ε-N-acetyl-L-lysine and similar compounds. Can J Chem 43:991-993
3. Bentley SD, Chater KF, Cerdeno-Tarraga AM, Challis GL, Thomson NR, James KD, Harris DE, Quail MA, Kieser H, Harper D, Bateman A, Brown S, Chandra G, Chen CW, Collins M, Cronin A, Fraser A, Goble A, Hidalgo J, Hornsby T, Howarth S, Huang CH, Kieser T, Larke L, Murphy L, Oliver K, O'Neil S, Rabinowitsch E, Rajandream MA, Rutherford K, Rutter S, Seeger K, Saunders D, Sharp S, Squares R, Squares S, Taylor K, Warren T, Wietzorrek A, Woodward J, Barrell BG, Parkhill J, Hopwood DA (2002) Complete genome sequence of the model actinomycete Streptomyces coelicolor A3(2). Nature 417(6885):141-147
4. Bestvater T, Galinski EA (2002) Investigation into a stress-inducible promoter region from Marinococcus halophilus using green fluorescent protein. Extremophiles 6:15-20
5. Calderón MI, Vargas C, Rojo F, Iglessias-Guerra F, Csonka LN, Ventosa A, Nieto JJ (2004) Complex regulation of the synthesis of the compatible solute ectoine in the halophilic bacterium Chromohalobacter salexigens. Microbiology 150:3051-3063
6. Cánovas D, Vargas C, Calderon MI, Ventosa A, Nieto JJ (1998) Characterization of the genes for the biosynthesis of the compatible solute ectoine in the moderately halophilic bacterium Halomonas elongata DSM 3043. Syst Appl Microbiol 21:487-497
7. Chetina EV, Trotsenko YA (1987) The levels of adenine and pyridine nucleotides in methylotrophic bacteria (English translation). Mikrobiologya 56:292-296
8. Chomczynski P, Sacchi N (1987) Single-step method of RNA isolation by acid guanidinium thiocyanate-phenol-chloroform extraction. Anal Biochem 162:156-159
9. Fuse H, Ohta M, Takimura O, Murakami K, Inoue H, Yamaoka Y, Oclarit JM, Omori T (1998) Oxidation of trichloroethylene and dimethyl sulfide by a marine Methylomicrobium strain containing soluble methane monooxygenase. Biosci Biotechnol Biochem 62:1925-1931
10. Galinski EA (1995) Osmoadaptation in bacteria. Adv Microbial Physiol 37:273-328
11. Galinski EA, Pfeiffer HP, Trüper HG (1985) 1,4,5,6,-Tetrahydro-2- methyl-4-pyrimidinecarboxylic acid, a novel cyclic acid from halophilic phototrophic bacteria of genus Ectothiorodospira. Eur J Biochem 149:135-139
12. Gardner WS, Miller WH (1980) Reverse-phase liquid chromatographic analysis of amino acids after reaction with o-phthalaldehyde. Anal Biochem 101:61-65
13. Göller K, Ofer A, Galinski EA (1998) Construction and characterization of an NaCl -sensitive mutant of Halomonas elongata impaired in ectoine biosynthesis. FEMS Microbiol Lett 161:293-300
14. Grant WD (2004) Life at low water activity. Phil Trans R Soc Lond B 359:1249-1267
15. Grant WD, Jones BE (2000) Alkaline environments. In: Lederberg J (ed) Encyclopedia of microbiology, 2nd edn, vol 1. Academic, San-Diego, pp 126-133
16. Heidelberg JF, Eisen JA, Nelson WC, Clayton RA, Gwinn ML, Dodson RJ, Haft DH, Hikey EK, Peterson JD, Umayam L, Gill SR, Nelson KE, Read TD, Tettelin H, Richardson D, Ermolaeva MD, Vamathevan J, Bass S, Qin H, Dragoi I, Sellers P, McDonald I, Utterback T, Feishmann TB, Nierman WC, White O (2000) DNA sequences of both chromosome of the cholera pathogen Vibrio cholerae. Nature 406:477-483
17. Hengge-Aronis R, Klein W, Lange R, Rimmele M, Boss W (1991) Trehalose synthesis genes are controlled by the putative sigma factor encoded by rpoS and are involved in stationary phase thermotolerance in Escherichia coli. J Bacteriol 173:7918-7924
18. Ikeda H, Ishikawa J, Hanamoto A, Shinose M, Kikuchi H, Shiba T, Sakaki Y, Hattori M, Omura S (2003) Complete genome sequence and comparative analysis of the industrial microorganism Streptomyces avermitilis. Nat Biotechnol 21:526-531
19. Imhoff JF, Trüper HG (1977) Ectothiorhodospira halochloris sp. nov., a new extremely halophilic phototrophic bacterium containing bacteriochlorophyll b. Arch Microbiol 114:115-121
20. Ishikawa J, Yamashita A, Mikami Y, Hoshino Y, Kurita H, Hotta K, Shiba T, Hattori M (2004) The complete genomic sequence of Nocardia farcinica IFM 10152. Proc Natl Acad Sci USA 101:14925-14930
21. Kalyuzhnaya MG, Khmelenina VN, Eshinimaev BC, Suzina NE, Nikitin D, Solonin A, Lin JL, McDonald IR, Murrell JC, Trotsenko YA (2001) Taxonomic characterization of new alkaliphilic and alkalitolerant methanotrophs from soda lakes of the Southeastern Transbaikal region and description of Methylomicrobium buryatense sp. nov. Syst Appl Microbiol 24:166-176
22. Kalyuzhnaya MG, Khmelenina VN, Kotelnikova S, Holmquist L, Pedersen K, Trotsenko YA (1999) Methylomonas scandinavica sp. nov., a new methanotrophic psychrotrophic bacterium isolated from deep igneous rock ground water of Sweden. Syst Appl Microbiol 22:565-572
23. Kempf B, Bremer E (1998) Uptake and synthesis of compatible solutes as microbial stress responses to high-osmolality environments. Arch Microbiol 170:319-330
24. Khmelenina VN, Kalyuzhnaya MG, Starostina NG, Suzina NE, Trotsenko YA (1997) Isolation and characterization of halotolerant alkaliphilic methanotrophic bacteria from Tuva soda lakes. Curr Microbiol 35:257-261
25. Khmelenina VN, Kalyuzhnaya MG, Sakharovsky VG, Suzina NE, Trotsenko YA, Gottschalk G (1999) Osmoadaptation in halophilic and alkaliphilic methanotrophs. Arch Microbiol 172:321-329
26. Kraegeloh A, Kunte HJ (2002) Novel insights into the role of potassium for osmoregulation in Halomonas elongata. Extremophiles 6:453-462
27. Kuhlman AU, Bremer E (2002) Osmotically regulated synthesis of the compatible solute ectoine in Bacillus pasteurii and related Bacillus spp. Appl Environ Microbiol 68:772-783
28. Larsen PI, Sydne LK, Landfald B, Strøm AR (1987) Osmoregulation in Escherichia coli by accumulation of organic osmolytes: betaines, glutamic acid, and trehalose. Arch Microbiol 147:1-7
29. Louis P, Galinski EA (1997) Characterization of genes for the biosynthesis of the compatible solute ectoine from Marinococcus halophilus and osmoregulated expression in Escherichia coli. Microbiology 143:1141-1149
30. Makino K, Oshima K, Kurokawa K, Yokoyama K, Uda T, Tagomori K, Iijima Y, Najima M, Nakano M, Yamashita A, Kubota Y, Kimura S, Yasunaga T, Honda T, Shinagawa H, Hattori M, Iida T (2003) Genome sequence of Vibrio parahaemolyticus: a pathogenic mechanism distinct from that of Vibrio cholerae. Lancet 361(9359):743-749
31. Malashenko YR, Pinchuk GE, Sokolov IG (1987) The activity of Methylococcus thermophilus aspartate kinase regulated by amino acids of the aspartate family (English translation 56:659-665). Mikrobiologiya 56:740-744
32. Ono H, Sawada K, Khunajakr N, Toa T, Yamamoto M, Hiramoto M, Shinmyo A, Takano M, Murooka Y (1999) Characterization of biosynthetic enzymes for ectoine as a compatible solute in a moderately halophilic eubacterium, Halomonas elongata. J Bacteriol 181:91-99
33. Parkhill J, Sebaihia M, Preston A, Murphy LD, Thomson N, Harris DE, Holden MT, Churcher CM, Bentley SD, Mungall KL, Cerdeno-Tarraga AM, Temple L, James K, Harris B, Quail MA, Achtman M, Atkin R, Baker S, Basham D, Bason N, Cherevach I, Chillingworth T, Collins M, Cronin A, Davis P, Doggett J, Feltwell T, GobleA, Hamlin N, Hauser H, Holroyd S, Jagels K, Leather S, Moule S, Norberczak H, O'Neil S, Ormond D, Price C, Rabinowitsch E, Rutter S, Sanders M, Saunders D, Seeger K, Sharp S, Simmonds M, Skelton J, Squares R, Squares S, Stevens K, Unwin L, Whitehead S, Barrell BG, Maskell DJ (2003) Comparative analysis of the genome sequences of Bordetella pertussis, Bordetella parapertussis and Bordetella bronchiseptica. Nat Genet 35:32-40
34. Peters R, Galinski EA, Truper HG (1990) The biosynthesis of ectoine. FEMS Microbiol Lett 71:157-162
35. Pflughoeft KJ, Katharine K, Watnick PI (2003) Role of ectoine in Vibrio cholerae osmoadaptation. Appl Environ Microbiol 69:5919-5927
36. Prabhu J, Schauwecker F, Grammel N, Keller U, Bernhard M (2004) Functional expression of the ectoine hydroxylase gene (thpD) from Streptomyces chrysomallus in Halomonas elongata. Appl Environ Microbiol 70:3130-3132
37. Reshetnikov AS, Mustakhimov II, Khmelenina VN, Trotsenko YA (2005) Cloning, purification, and characterization of diaminobutyrate acetyltransferase from the halotolerant methanotroph Methylomicrobium alcaliphilum 20Z. Biochemistry (Moscow) 70:588-600
38. Ruby EG, Urbanowski M, Campbell JW, Dunn A, Faini MA, Gunsalus RP, Lostroh P, Lupp C, McCann JR, Millikan DS, Schaefer AL, Stabb EV, Stevens AM, Visick KL, Whistler CA, Greenberg EP (2005) Complete genome sequence of Vibrio fischeri: A symbiotic bacterium with pathogenic congeners. Proc Natl Acad Sci USA 102:3004-3009
39. Sambrook J, Russell DW (2001) Molecular cloning: a laboratory manual, 3rd edn. Cold Spring Harbor Laboratory, Cold Spring Harbor
40. Sanger F, Nicklen S, Coulson AR (1977) DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci USA 74:5463-5467
41. Severin J, Wohlfarth A, Galinski EA (1992) The predominant role of recently discovered tetrahydropyrimidines for the osmoadaptation of halophilic eubacteria. J Gen Microbiol 138:1629-1638
42. Sokolov AP, Trotsenko YA (1995) Methane consumption in (hyper)saline habitats of Crimea (Ukraine). FEMS Microbiol Ecol 18:299-304
43. Sorokin DY, Jones BE, Kuenen JG (2000) A novel obligately methylotrophic, methane-oxidizing Methylomicrobium species from a highly alkaline environment. Extremophiles 4:145-155
44. Srere PA (1969) Citrate synthase. In: JM Lowenstein (ed) Methods in enzymology, vol 13. Academic, London, pp 3-11
45. Takami H, Nakasone K, Takaki Y, Maeno G, Sasaki R, Masui N, Fuji F, Hirama C, Nakamura Y, Ogasawara N, Kuhara S, Horikoshi K (2000) Complete genome sequence of the alkaliphilic bacterium Bacillus halodurans and genomic sequence comparison with Bacillus subtilis. Nucleic Acids Res 28:4317-4331
46. Takami H, Takaki Y, Uchiyama I (2002) Genome sequence of Oceanobacillus iheyensis isolated from the Iheya Ridge and its unexpected adaptive capabilities to extreme environments. Nucleic Acids Res 30:3927-3935
47. Takeshita S, Sato M, Toba M, Masahashi W, Hashimoto-Gothoh T (1987) High copy-number and low copy-number plasmid vector for LacZ-complementation and chloramphenicol- and kanamycin-resistance selection. Gene 61:63-74
48. Thompson JD, Gibson TJ, Plewniak F, Jeanmaugin F, Higgins DG (1997) The Clustal X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25:4876-4882
49. Trotsenko YA, Khmelenina VN (2002a) Biology of extremophilic and extremotolerant methanotrophs. Arch Microbiol 177:123-131
50. Trotsenko YA, Khmelenina VN (2002b) The biology and osmoadaptation of haloalkaliphilic methanotrophs (English translation 71:149-159). Mikrobiologiya 71:123-132
51. Ventosa A, Nieto JJ, Oren A (1998) Biology of moderately halophilic aerobic bacteria. Microbiol Mol Biol Rev 62:504-544
52. Wampler DE, Westhead EW (1968) Two aspartokinases from Escherichia coli. Nature of the inhibition and molecular changes accompanying reversible inactivation. Biochemistry 7:1661-1671
53. Ward N, Larsen Q, Sakwa J, Bruseth L, Khouri H, Durkin AS, Dimitrow G, Jlang L, Scanlan D, Kang KH, Lewis M, Nelson KE, Methe B, Wu M, Heidelberg JF, Paulsen IT, Foutss D, Ravel J, Tettelin H, Ren Q, Read T, DeBoy R, Seshadri R, Salzberg SL, Jensen HB, Birkeland NK, Nelson WC, Dodson RJ, Dodson RJ, Grinhaug SH, Holt I, Eidhammer I, Jonasen I, Vanaken S, Utterback T, Feldblyum TV, Fraser TM, Lillehaug JR, Eisen JA (2004) Genomic insights into methanotrophy: the complete genome sequence of Methylococcus capsulatus (Bath). PLoS Biology 2:1616-1628
54. Wösten MMSM (1998) Eubacterial sigma-factors. FEMS Microbiol Rev 22:127-150