Enrichment and physiological characterization of a novel nitrospira-like bacterium obtained from a marine sponge

Applied and Environmental Microbiology

Volumn 76, Issue 14, 2010, Pages 4640-4646

  Off, Sandra ^a   Alawi, Mashal ^a,b   Spieck, Eva ^a  

^a UNIVERSITY OF HAMBURG   (Germany)

^b GFZ GERMAN RESEARCH CENTRE FOR GEOSCIENCES   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

16S RRNA GENE; APLYSINA AEROPHOBA; ENRICHMENT CULTURE; MARINE SPONGE; MICROAEROPHILIC CONDITION; NITRITE-OXIDIZING BACTERIA; NITROSPIRA; NORTH SEA; SEQUENCE ANALYSIS; SEQUENCE SIMILARITY; SUBSTRATE CONCENTRATIONS; SUBSTRATE RANGE; ULTRA STRUCTURE;

BACTERIOLOGY; CLONING; RNA; SCANNING ELECTRON MICROSCOPY;

BACTERIA;

BACTERIAL DNA; NITRITE; RIBOSOME DNA; RNA 16S; CULTURE MEDIUM;

BACTERIUM; ELECTRON MICROSCOPY; ENRICHMENT; GROWTH RATE; INCUBATION; MARINE ECOSYSTEM; MEDITERRANEAN WATER; NITRIFICATION; NITRITE; SEAWATER; SPONGE; SUBSTRATE; TAXONOMY; TEMPERATURE EFFECT;

AEROBIC METABOLISM; ANAEROBIC GROWTH; ANIMAL; ARTICLE; ATLANTIC OCEAN; BACTERIUM; CHEMISTRY; CLASSIFICATION; CLUSTER ANALYSIS; CULTURE MEDIUM; DNA SEQUENCE; GENETICS; ISOLATION AND PURIFICATION; METABOLISM; MICROBIOLOGY; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY; SPONGE (PORIFERA); TEMPERATURE; TRANSMISSION ELECTRON MICROSCOPY; ULTRASTRUCTURE; NORTH SEA;

AEROBIOSIS; ANAEROBIOSIS; ANIMALS; BACTERIA; CLUSTER ANALYSIS; CULTURE MEDIA; DNA, BACTERIAL; DNA, RIBOSOMAL; MICROSCOPY, ELECTRON, TRANSMISSION; MOLECULAR SEQUENCE DATA; NITRITES; NORTH SEA; PHYLOGENY; PORIFERA; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; TEMPERATURE;

ATLANTIC OCEAN; NORTH SEA;

APLYSINA AEROPHOBA; BACTERIA (MICROORGANISMS); NITROSPIRA; NITROSPIRA MARINA;

EID: 77954731912     PISSN: 00992240     EISSN: 10985336     Source Type: Journal    
DOI: 10.1128/AEM.00320-10     Document Type: Article

References (41)

1. Alawi, M. 2007. Diversitä Nitrit oxidierender Bakterien in Böden des nordsibirischen Fermafrostes und Sedimenten der Laptev-See. Ph.D. dissertation. University of Hamburg, Hamburg, Germany.
2. Alawi, M., A. Lipski, T. Sanders, E.-M. Pfeiffer, and E. Spieck. 2007. Cultivation of a novel cold-adapted nitrite oxidizing betaproteobacterium from the Siberian Arctic. ISME J. 1:256-264.
3. Altmann, D., P. Stief, R. Amann, D. De Beer, and A. Schramm. 2003. In situ distribution and activity of nitrifying bacteria in freshwater sediment. Environ. Microbiol. 5:798-803.
4. Altschul, S. F., W. Gish, W. Miller, E. W. Wyers, and D. J. Lipman. 1990. Basic local alignment search tool. J. Mol. Biol. 215:403-410.
5. Balch, W. E., G. E. Fox, L. J. Magrum, C. R. Woese, and R. S. Wolfe. 1979. Methanogens: reevaluation of a unique biological group. Microbiol. Rev. 43:260-296.
6. Bartosch, S., C. Hartwig, E. Spieck, and E. Back. 2002. Immunological detection of Nitrospira-like bacteria in various soils. Microb. Ecol. 43:26-33.
7. Bartosch, S., I. Wolgast, E. Spieck, and E. Bock. 1999. Identification of nitrite-oxidizing bacteria with monoclonal antibodies recognizing the nitrite oxidoreductase. Appl. Environ. Microbiol. 65:4126-4133.
8. Bayer, K., S. Schmitt, and U. Hentschel. 2008. Physiology, phytogeny and in situ evidence for bacterial and archaeal nitrifie is in the marine sponge Aplysina aerophoba. Environ. Microbiol. 10:2942-2955.
9. Brusca, R. C., and G. J. Brusca. 1990. Phylum Porifera: the sponges, p. 181-210. In A. D. Sinauer (ed.), Invertebrates. Sinauer Press, Sunderland, MA.
10. Corredor, J. E., C. R. Wilkinson, V. P. Vicente, J. M. Morell, and E. Otero. 1988. Nitrate release by Caribbean reef sponges. Limnol. Oceanogr. 33:114-120.
11. Diaz, M. C., D. Akob, and C. S. Cary. 2004. Denaturing gradient gel electrophoresis of nitrifying microbes associated with tropical sponges. Boll. Mus. 1st. Biol. Univ. Genova 68:279-289.
12. Ehrich, S., D. Behrens, E. Lebedeva, W. Ludwig, and E. Bock. 1995. A new obligately chemolithoautotrophic, nitrite oxidizing bacterium, Nitrospira moscoviensis sp. nov., and its phylogenetic relationship. Arch. Microbiol. 164:16-23.
13. Faulkner, D. J. 2000. Marine natural products. Nat. Prod. Rep. 17: 7-55.
14. Foesel, B. U., A. Gieseke, C. Schwermer, P. Stief, L. Koch, E. Cytryn, J. R. de la Torré, J. van Rijn, D. Minz, H. L. Drake, and A. Schramm. 2008. Nitrosomonas Nm143-like ammonia oxidizers and Nitrospira marina-li&e nitrite oxidizers dominate the nitrifier community in a marine aquaculture biofilm. FEMS Microbiol. Ecol. 63:192-204.
15. Friedrich, A. B., H. Merkert, T. Fendert, J. Hacker, P. Proksch, and U. Hentschel. 1999. Microbial diversity in the marine sponge Aplysina cavernicola (formerly Verongia cavemcola) analyzed by fluorescence in situ hybridization (FISH). Mar. Biol. 134:461-470.
16. Friedrich, A. B., I. Fischer, P. Proksch, J. Hacker, and U. Hentschel. 2001. Temporal variation of the microbial community associated with the Mediterranean sponge Aplysina aerophoba. FEMS Microbiol. Ecol. 38: 105-113.
17. Hentschel, U., J. Hopke, M. Horn, A. B. Friedrich, M. Wagner, J. Hacker, and B. S. Moore. 2002. Molecular evidence for a uniform microbial community in sponges from different oceans. Appl. Environ. Microbiol. 68:44314440.
18. Hoffmann, F., O. Larsen, V. Thiel, H. T. Rapp, T. Pape, W. Michaelis, and J. Reitner. 2005. An anaerobic world in sponges. Geomicrobiol. J. 22: 1-10.
19. Hoffmann, F., R. Radax, D. Woebken, M. Holtappels, G. Lavik, H. T. Rapp, M. L. Schläppy, C. Schleper, and M. M. Kuypers. 2009. Complex nitrogen cycling in the sponge Geodia barretti. Environ. Microbiol. 11: 2228-2243.
20. Hovanec, T. A., L. T. Taylor, A. Blakis, and E. DeLong. 1998. Nitrospira-like bacteria associated with nitrite oxidation in freshwater aquaria. Appl. Environ. Microbiol. 64:258-264.
21. Juretschko, S., G. Timmermann, M. Schmid, K.-H. Schleifer, A. Pommerening-Roser, H.-P. Koops, and M. Wagner. 1998. Combined molecular and conventional analyses of nitrifying bacterium diversity in activated sludge: Nitrosococcus mobilis and Nitrospira-like bacteria as dominant populations. Appl. Environ. Microbiol. 64:3042-3051.
22. Keeney, D. R., and D. W. Nelson. 1982. Nitrogen-inorganic forms, p. 643-693. In A. Page (ed.), Methods of soil analysis, part 2. Chemical and microbiological properties. American Society of Agronomy, Inc., Crop Science Society of America, Inc., and Soil Science Society of America, Inc., Madison, WI.
23. Lane, D. J. 1991. 16S/23S rRNA sequencing, p. 115-175. In E. Stackebrandt and M. Goodfellow (ed.), Nucleic acid techniques in bacterial systematics. Wiley, London, United Kingdom.
24. Lebedeva, E. V., M. Alawi, C. Fiencke, B. Namsaraev, E. Bock, and E. Spieck. 2005. Moderately thermophilic nitrifying bacteria from a hot spring of the Baikal rift zone. FEMS Microbiol. Ecol. 54:297-306.
25. Lebedeva, E. V., M. Alawi, F. Maixner, P. G. Jozsa, H. Daims, and E. Spieck. 2008. Physiological and phylogenetical characterization of a new lithoautotrophic nitrite-oxidizing bacterium 'Candidatus Nitrospira bockiana' sp. nov. Int. J. Syst. Evol. Microbiol. 58:242-150.
26. Ludwig, W., O. Strunk, R. Westram, L. Richter, H. Meier, K. Yadhu, A. Buchner, T. Lai, S. Steppi, G. Jobb, W. Forster, I. Brettske, S. Gerber, A. W. Ginhart, O. Gross, S. Grumann, S. Hermann, R. Jost, A. Konig, T. Liss, R. Lussmann, M. May, B. Nonhoff, B. Reichel, R. Strehlow, A. Stamatakis, N. Stuckmann, A. Vilbig, M. Lenke, T. Ludwig, A. Bode, and K.-H. Schleifer. 2004. ARB: a software environment for sequence data. Nucleic Acids Res. 32:1363-1371.
27. Maixner, F. 2009. The ecophysiology of nitrite-oxidizing bacteria in the genus Nitrospira: novel aspects and unique features. Ph.D. thesis. Universität Wien, Vienna, Austria.
28. Maixner, F., D. Noguera, B. Anneser, K. Stoecker, G. Wegl, M. Wagner, and H. Daims. 2006. Nitrite concentration influences the population structure of Nitrospira-like bacteria. Environ. Microbiol. 8:1487-1495.
29. Martiny, A. C., H.-J. Albrechtsen, E. Arvin, and S. Molin. 2005. Identification of bacteria in biofilm and bulk water samples from a nonchlorinated model drinking water distribution system: detection of a large nitrite-oxidizing population associated with Nitrospira spp. Appl. Environ. Microbiol. 71:8611-8617.
30. Meincke, M., E. Bock, D. Kastrau, and P. M. H. Kroneck. 1992. Nitrite oxidoreductase from Nitrobacter hamburgensis: redox centers and their catalytic role. Arch. Microbiol. 158:127-131.
31. Philips, S., H. J. Laanbroek, and W. Verstraete. 2002. Origin, causes, and effects of increased nitrite concentrations in aquatic environments. Rev. Environ. Sci. Biotechnol. 1:115-141.
32. Schmitt, S., J. B. Weisz, N. Lindquist, and U. Hentschel. 2007. Vertical transmission of a phylogenetically complex microbial consortium in the viviparous sponge Ircinia felix. Appl. Environ. Microbiol. 73:2067-2078.
33. Spieck, E., C. Hartwig, I. McCormack, F. Maixner, M. Wagner, A. Lipski, and H. Daims. 2006. Selective enrichment and molecular characterisation of a previously uncultured Nitrospira-like bacterium from activated sludge. Environ. Microbiol. 8:405-415.
34. Spurr, A. R. 1969. A low viscosity epoxy resin embedding medium of electron microscopy. J. Ultrastruct. Res. 26:31-43.
35. Taylor, M. W., R. Radax, D. Steger, and M. Wagner. 2007. Sponge-associated microorganisms: evolution, ecology, and biotechnological potential. Microbiol. Mol. Biol. Rev. 71:295-347.
36. Vacelet, J., and C. Donadey. 1977. Electron microscope study of the association between some sponges and bacteria. J. Exp. Mar. Ecol. 30: 301-314.
37. Watson, S. W., E. Bock, F. W. Valois, J. B. Waterbury, and U. Schlosser. 1986. Nitrospira marina gen. nov. sp. nov: a chemolithotrophic nitrite-oxidizing bacterium. Arch. Microbiol. 144:1-7.
38. Watson, S. W., E. Bock, H. Harms, H. P. Koops, and A. B. Hooper. 1989. Nitrifying bacteria, p. 1808-1834. In J. T. Stanley (ed.), Bergey's manual of systematic bacteriology, vol. 3. Williams & Wilkins, Baltimore, MD.
39. Webster, N. S., K. J. Wilson, L. L. Blackall, and R. T. Hill. 2001. Phylo- genetic diversity of bacteria associated with the marine sponge Rhopaloeides odorabile. Appl. Environ. Microbiol. 67:434-444.
40. Webster, N. S., R. S. Cobb, and A. P. Negri. 2008. Temperature thresholds for bacterial symbiosis with a sponge. ISME J. 2:830-842.
41. Wehrl, M., M. Steinert, and U. Hentschel. 2007. Bacterial uptake by the marine sponge Aplysina aerophoba. Microb. Ecol. 53:355-365.