Cultivation, growth physiology, and chemotaxonomy of nitrite-oxidizing bacteria

Methods in Enzymology

Volumn 486, Issue C, 2011, Pages 109-130

  Spieck, Eva ^a   Lipski, André ^b  

^a UNIVERSITY OF HAMBURG   (Germany)

^b UNIVERSITY OF BONN   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

FATTY ACID; NITRATE; NITRITE; SODIUM CHLORIDE;

ARTICLE; BACTERIAL GROWTH; BACTERIUM CULTURE; BACTERIUM ISOLATION; BIOFILTER; CHEMICAL ANALYSIS; CHEMOTAXONOMY; DENSITY GRADIENT CENTRIFUGATION; DILUTION; ELECTRON MICROSCOPY; HETEROTROPHY; NITRITE OXIDIZING BACTERIUM; NONHUMAN; PERMAFROST; PRIORITY JOURNAL; STORAGE;

BACTERIA (MICROORGANISMS); NITROBACTER; NITROCOCCUS; NITROSPINA; NITROSPIRA;

EID: 78650926330     PISSN: 00766879     EISSN: None     Source Type: Book Series    
DOI: 10.1016/B978-0-12-381294-0.00005-5     Document Type: Chapter

References (45)

1. M. Alawi, A. Lipski, T. Sanders, E.M. Pfeiffer, and E. Spieck Cultivation of a novel cold-adapted nitrite oxidizing betaproteobacterium from the Siberian Arctic ISME J. 1 2007 256 264
2. M. Alawi, S. Off, M. Kaya, and E. Spieck Temperature influences the population structure of nitrite-oxidizing bacteria in activated sludge Environ. Microbiol. Rep. 1 2009 184 190
3. E. Attard, F. Poly, C. Commeaux, F. Laurent, A. Terada, B.F. Smets, S. Recous, and X. Le Roux Shifts between Nitrospira- and Nitrobacter-like nitrite oxidizers underlie the response of soil potential nitrite oxidation to changes in tillage practice Environ. Microbiol. 12 2010 315 326
4. S. Bartosch, I. Wolgast, E. Spieck, and E. Bock Identification of nitrite-oxidizing bacteria with monoclonal antibodies recognizing the nitrite oxidoreductase Appl. Environ. Microbiol. 65 1999 4126 4133
5. R. Blackburne, V.M. Vadivelu, Z. Yuan, and J. Keller Kinetic characterization of an enriched Nitrospira culture with comparison to Nitrobacter Water Res. 41 2007 3033 3042
6. E. Bock, and H.P. Koops The genus Nitrobacter and related genera A. Balows, H.G. Trper, M. Dworkin, W. Harder, K.H. Schleifer, The Prokaryotes, Vol. 3 2nd edn. 1992 Springer-Verlag New York 2302 2309
7. E. Bock, H. Sundermeyer-Klinger, and E. Stackebrandt New facultative lithoautotrophic nitrite-oxidizing bacteria Arch. Microbiol. 136 1983 281 284
8. E. Bock, P.A. Wilderer, and A. Freitag Growth of Nitrobacter in the absence of dissolved oxygen Water Res. 22 1988 245 250
9. G.J. Both, and H.J. Laanbroek The effect of the incubation period on the result of MPN enumerations of nitrite-oxidizing bacteria: Theoretical considerations FEMS Microbiol. Ecol. 85 1991 335 344
10. H. Daims, S. Lcker, D. Le Paslier, and M. Wagner Diversity, environmental genomics and ecophysiology of nitrite-oxidizing bacteria B.B. Ward, D.J. Arp, M.G. Klotz, Nitrification 2010 ASM Press Washington, DC 978-1-55581-481-6
11. M.A. Dytczak, K.L. Londry, and J.A. Oleszkiewicz Activated sludge operational regime has significant impact on the type of nitrifying community and its nitrification rates Water Res. 42 2008 2320 2328
12. S. Ehrich, D. Behrens, E. Lebedeva, W. Ludwig, and E. Bock A new obligately chemolithoautotrophic, nitrite-oxidizing bacterium. Nitrospira moscoviensis sp. nov. and its phylogenetic relationship Arch. Microbiol. 164 1995 16 23
13. A. Freitag, M. Rudert, and E. Bock Growth of Nitrobacter by dissimilatoric nitrate reduction FEMS Microbiol. Lett. 48 1987 105 109
14. S.J. Hall, P. Hugenholtz, N. Siyambalapitiya, J. Keller, and L.L. Blackall The development and use of real-time PCR for the quantification of nitrifiers in activated sludge Water Sci. Technol. 46 12 2002 267 272
15. T.R. Hankinson, and E.L. Schmidt An acidophilic and a neutrophilic Nitrobacter strain isolated from the numerically predominant nitrite-oxidizing population of an acid forest soil Appl. Environ. Microbiol. 54 1988 1536 1540
16. P. Larsen, J.L. Nielsen, T.C. Svendsen, and P.H. Nielsen Adhesion characteristics of nitrifying bacteria in activated sludge Water Res. 42 2008 2814 2826
17. E.V. Lebedeva, M. Alawi, C. Fiencke, B. Namsaraev, E. Bock, and E. Spieck Moderately thermophilic nitrifying bacteria from a hot spring of the Baikal rift zone FEMS Microbiol. Ecol. 54 2005 297 306
18. E.V. Lebedeva, M. Alawi, F. Maixner, P.G. Jozsa, H. Daims, and E. Spieck Physiological and phylogenetic characterization of a novel lithoautotrophic nitrite-oxidizing bacterium, 'Candidatus Nitrospira bockiana' Int. J. Syst. Evol. Microbiol. 58 2008 242 250
19. Lebedeva, E. V., Off, S., Zumbrägel, S., Kruse, M., Shagzhina, A., Lcker, S., Maixner, F., Lipski, A., Daims, H., and Spieck, E. Isolation and characterization of a moderately thermophilic nitrite-oxidizing bacterium from a geothermal spring. FEMS Microbiol. Ecol. (in press)
20. A. Lipski, E. Spieck, A. Makolla, and K. Altendorf Fatty acid profiles of nitrite-oxidizing bacteria reflect their phylogenetic heterogeneity Syst. Appl. Microbiol. 24 2001 377 384
21. S. Lcker, M. Wagner, F. Maixner, E. Pelletier, H. Koch, B. Vacherie, T. Rattei, J.S. Sinninghe Damst, E. Spieck, D. Le Paslier, and H. Daims Nitrospira metagenome illuminates the physiology and evolution of globally important nitrite-oxidizing bacteria PNAS 107 2010 13479 13484
22. V.A. Matulewich, P.F. Strom, and M.S. Finstein Length of incubation for enumerating nitrifying bacteria present in various environments Appl. Microbiol. 29 1975 265 268
23. M. Meincke, E. Bock, D. Kastrau, and P.M.H. Kroneck Nitrite oxidoreductase from Nitrobacter hamburgensis: Redox centers and their catalytic role Arch. Microbiol. 158 1992 127 131
24. P.D. Nichols, J.B. Guckert, and D.C. White Determination of monounsaturated fatty acid double-bond position and geometry for microbial monocultures and complex consortia by capillary GCMS of their dimethyl disulphide adducts J. Microbiol. Methods 5 1986 49 55
25. S. Off, M. Alawi, and E. Spieck Enrichment and physiological characterization of a novel Nitrospira-like bacterium obtained from a marine sponge Appl. Environ. Microbiol. 76 2010 4640 4646
26. J.I. Prosser Autotrophic nitrification in bacteria A.H. Rose, D.W. Tempest, Advances in Microbial Physiology, Vol. 30 1989 Academic Press London, New York 125 181
27. T. Sanders Vergleichende Untersuchungen klteliebender nitrifizierender Bakterien aus Permafrostbden im Lena Delta, Sibirien 2006 Diplomarbeit Universitt Hamburg
28. M. Sasser Identification of bacteria through fatty acid analysis Z. Klement, K. Rudolph, D. Sands, Methods in Phytobacteriology 1990 Akademiai Kiado Budapest, Hungary 199 204
29. E.L. Schmidt, and L.W. Belser Autotrophic nitrifying bacteria R.W. Weaver, J.S. Angle, P.J. Bottomley, Methods of Soil Analysis. Part 2-Microbiological and Biochemical Properties 1994 Soil Science Society of America Madison, WI 159 177
30. A. Schramm, D. de Beer, J.C. van den Heuvel, S. Ottengraf, and R. Amann Microscale distribution of populations and activities of Nitrosospira and Nitrospira spp. along a macroscale gradient in a nitrifying bioreactor: Quantification by in situ hybridization and the use of microsensors Appl. Environ. Microbiol. 65 1999 3690 3696
31. D.Y. Sorokin, G. Muyzer, T. Brinkhoff, J.G. Kuenen, and M.S. Jetten Isolation and characterization of a novel facultatively alkaliphilic Nitrobacter species N. alkalicus sp. nov. Arch. Microbiol. 170 1998 345 352
32. E. Spieck, and E. Bock The lithoautotrophic nitrite-oxidizing bacteria G.M. Garrity, D.J. Brenner, N.R. Krieg, J.T. Staley, Bergey's Manual of Systematic Bacteriology, Vol. 2 2nd edn. 2005 Springer-Verlag New York 149 153
33. E. Spieck, S. Ehrich, J. Aamand, and E. Bock Isolation and immunocytochemical location of the nitrite-oxidizing system in Nitrospira moscoviensis Arch. Microbiol. 169 1998 225 230
34. E. Spieck, C. Hartwig, I. McCormack, F. Maixner, M. Wagner, A. Lipski, and H. Daims Selective enrichment and molecular characterization of a previously uncultured Nitrospira-like bacterium from activated sludge Environ. Microbiol. 8 2006 405 415
35. A.R. Spurr A low viscosity epoxy resin embedding medium of electron microscopy J. Ultrastruct. Res. 26 1969 31 43
36. S.R. Starkenburg, F.W. Larimer, L.Y. Stein, M.G. Klotz, P.S. Chain, L.A. Sayavedra-Soto, A.T. Poret-Peterson, M.E. Gentry, D.J. Arp, B. Ward, and P.J. Bottomley Complete genome sequence of Nitrobacter hamburgensis X14 and comparative genomic analysis of species within the genus Nitrobacter Appl. Environ. Microbiol. 74 2008 2852 2863
37. S.R. Starkenburg, D.J. Arp, and P.J. Bottomley Expression of a putative nitrite reductase and the reversible inhibition of nitrite-dependent respiration by nitric oxide in Nitrobacter winogradskyi Nb-255 Environ. Microbiol. 10 2008 3036 3042
38. S.R. Starkenburg, E. Spieck, and P.J. Bottomley Metabolism and genomics of nitrite oxidizing bacteria: Emphasis on pure culture studies and Nitrobacter species B. Ward, D.J. Arp, M.G. Klotz, Nitrification 2010 ASM Press Washington, DC 978-1-55581-481-6
39. W. Steinmller, and E. Bock Growth of Nitrobacter in the presence of organic matter. I. Mixotrophic growth Arch. Microbiol. 108 1976 299 304
40. H. Sundermeyer-Klinger, W. Meyer, B. Warninghoff, and E. Bock Membrane-bound nitrite oxidoreductase of Nitrobacter: Evidence for a nitrate reductase system Arch. Microbiol. 140 1984 153 158
41. S.W. Tighe, P. de Lajudie, K. Dipietro, K. Lindstrm, G. Nick, and B.D.W. Jarvis Analysis of cellular fatty acids and phenotypic relationships of Agrobacterium, Bradyrhizobium, Mesorhizobium, Rhizobium and Sinorhizobium species using the Sherlock Microbial Identification System Int. J. Syst. Evol. Microbiol. 50 2000 787 801
42. S.W. Watson, and J.B. Waterbury Characteristics of two marine nitrite oxidizing bacteria, Nitrospina gracilis, nov. gen. nov. sp. and Nitrococcus mobilis nov. gen. nov. sp Arch. Microbiol. 77 1971 203 230
43. S.W. Watson, E. Bock, F.W. Valois, J.B. Waterbury, and U. Schlosser Nitrospira marina gen. nov. sp. nov: A chemolithotrophic nitrite-oxidizing bacterium Arch. Microbiol. 144 1986 1 7
44. S.W. Watson, E. Bock, H. Harms, H.P. Koops, and A.B. Hooper Nitrifying bacteria J.T. Staley, M.P. Bryant, N. Pfennig, J.G. Holt, Bergey's Manual of Systematic Bacteriology, Vol. 3 1989 Williams and Wilkins Baltimore, MD 1808 1834
45. V.W. Woldendorp, and H.J. Laanbroek Activity of nitrifiers in relation to nitrogen nutrition of plants in natural ecosystems Plant Soil 115 1989 217 228