Development of batch-culture enrichment coupled to molecular detection for screening of natural and man-made environments in search of anammox bacteria for N-removal bioreactors systems

Chemosphere

Volumn 75, Issue 2, 2009, Pages 169-179

  Sànchez Melsió, Alexandre ^a   Cáliz, Joan ^a   Balaguer, M Dolors ^a   Colprim, Jesús ^a   Vila, Xavier ^a  

^a UNIVERSITY OF GIRONA   (Spain)

Author keywords

Candidatus "Brocadia anammoxidans"; Enrichment cultures; FISH; PCR; Sediment; Sludge

Indexed keywords

16S RRNA SEQUENCES; ANAMMOX; ANNEALING TEMPERATURES; BACTERIAL POPULATIONS; BATCH CULTURES; BIOLOGICAL REACTORS; CANDIDATUS 'BROCADIA ANAMMOXIDANS'; ENRICHMENT CULTURES; INCUBATION PERIODS; INOCULA; MOLECULAR ANALYSIS; MOLECULAR DETECTIONS; MOLECULAR TECHNIQUES; NESTED PCR; OPTIMAL RESULTS; ORIGINAL SAMPLES; PCR; POLYMERASE CHAIN REACTIONS; POTENTIAL ACTIVITIES; SLUDGE; SPECIFIC PRIMERS; START-UP;

AMPLIFICATION; BACTERIA; BACTERIOLOGY; BATCH CELL CULTURE; CHEMICAL REACTORS; COSMIC RAYS; COUPLED CIRCUITS; NITROGEN REMOVAL; NUCLEIC ACIDS; PUMPS; SEDIMENTOLOGY;

WASTEWATER TREATMENT;

BACTERIUM; BIOREACTOR; DETECTION METHOD; MOLECULAR ANALYSIS; POLYMERASE CHAIN REACTION; REMOVAL EXPERIMENT;

BACTERIA; BIOREACTORS; IN SITU HYBRIDIZATION, FLUORESCENCE; MOLECULAR SEQUENCE DATA; POLYMERASE CHAIN REACTION; SEWAGE;

BACTERIA (MICROORGANISMS); CANDIDATUS BROCADIA ANAMMOXIDANS;

EID: 61849166704     PISSN: 00456535     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.chemosphere.2008.12.017     Document Type: Article

References (50)

1. Altschul S.F., Gish W., Miller W., Myers E.W., and Lipman D.J. Basic local alignment search tool. J. Mol. Biol. 215 (1990) 403-410
2. Amann R.I., Ludwig W., and Schleifer K.H. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol. Rev. 59 (1995) 143-169
3. Amano T., Yoshinaga I., Okada K., Yamagishi T., Ueda S., Obuchi A., Sako Y., and Suwa Y. Detection of anammox activity and diversity of anammox related 16S rRNA genes in coastal marine sediments in Japan. Microbes Environ. 22 (2007) 232-242
4. APHA, 1995. Standard Methods for the Examination of Water and Wastewater, 19th ed., American Public Health Association, Washington, DC, USA.
5. Chamchoi N., and Nitisoravut S. Anammox enrichment from different conventional sludges. Chemosphere 66 (2007) 2225-2232
6. Dalsgaard T., and Thamdrup B. Factors controlling anaerobic ammonium oxidation with nitrite in marine sediments. Appl. Environ. Microb. 68 (2002) 3802-3808
7. Dalsgaard T., Thamdrup B., and Canfield D.E. Anaerobic ammonium oxidation (anammox) in the marine environment. Res. Microbiol. 156 (2005) 457-464
8. Dapena-Mora A., Campos J.L., Mosquera-Corral A., Jetten M.S., and Mendez R. Stability of the ANAMMOX process in a gas-lift reactor and a SBR. J. Biotechnol. 110 (2004) 159-170
9. Egli K., Fanger U., Alvarez P.J., Siegrist H., van der Meer J.R., and Zehnder A.J. Enrichment and characterization of an anammox bacterium from a rotating biological contactor treating ammonium-rich leachate. Arch. Microbiol. 175 (2001) 198-207
10. Engström P., Dalsgaard T., Hulth S., and Aller R.C. Anaerobic ammonium oxidation by nitrite (anammox): implications for N2 production in coastal marine sediments. Geochim. Cosmochim. Acta 69 (2005) 2057-2065
11. Fujii T., Sugino H., Rouse J.D., and Furukawa K. Characterization of the microbial community in an anaerobic ammonium-oxidizing biofilm cultured on a non-woven biomass carrier. J. Biosci. Bioeng. 94 (2002) 412-418
12. Furukawa K., Rouse J.D., Yoshida N., and Hatanaka H. Mass cultivation of anaerobic ammonium-oxidizing sludge using a novel nonwoven biomass carrier. J. Chem. Eng. Jpn. 36 (2003) 1163-1169
13. Ganigué R., Lopez H., Balaguer M.D., and Colprim J. Partial ammonium oxidation to nitrite of high ammonium content urban Landfill leachates. Water Res. 41 (2007) 3317-3326
14. Jetten M.S., Sliekers O., Kuypers M., Dalsgaard T., van Niftrik L., Cirpus I., van de Pas-Schoonen K., Lavik G., Thamdrup B., Le Paslier D., Op den Camp H.J., Hulth S., Nielsen L.P., Abma W., Third K., Engstrom P., Kuenen J.G., Jorgensen B.B., Canfield D.E., Sinninghe Damste J.S., Revsbech N.P., Fuerst J., Weissenbach J., Wagner M., Schmidt I., Schmid M., and Strous M. Anaerobic ammonium oxidation by marine and freshwater planctomycete-like bacteria. Appl. Microbiol. Biotechnol. 63 (2003) 107-114
15. Juretschko S., Timmermann G., Schmid M., Schleifer K.H., Pommerening-Roser A., Koops H.P., and Wagner M. 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 (1998) 3042-3051
16. Kartal B., Rattray J., van Niftrik L.A., van de Vossenberg J., Schmid M.C., Webb R.I., Schouten S., Fuerst J.A., Damste J.S., Jetten M.S., and Strous M. Candidatus Anammoxoglobus propionicus a new propionate oxidizing species of anaerobic ammonium oxidizing bacteria. Syst. Appl. Microbiol. 30 (2006) 39-49
17. Kartal B., van Niftrik L., Rattray J., van de Vossenberg J.L., Schmid M.C., Sinninghe Damste J.S., Jetten M.S., and Strous M. Candidatus 'Brocadia fulgida': an autofluorescent anaerobic ammonium oxidizing bacterium. FEMS Microbiol. Ecol. 63 (2008) 46-55
18. Kuenen J.G., and Jetten M.S. Extraordinary anaerobic ammonium oxidising bacteria. ASM News 64 (2001) 456-463
19. Kuypers M.M., Lavik G., Woebken D., Schmid M., Fuchs B.M., Amann R., Jorgensen B.B., and Jetten M.S. Massive nitrogen loss from the Benguela upwelling system through anaerobic ammonium oxidation. Proc. Natl. Acad. Sci. USA 102 (2005) 6478-6483
20. Kuypers M.M., Sliekers A.O., Lavik G., Schmid M., Jorgensen B.B., Kuenen J.G., Sinninghe Damste J.S., Strous M., and Jetten M.S. Anaerobic ammonium oxidation by anammox bacteria in the Black Sea. Nature 422 (2003) 608-611
21. Lane D.J. 16/23S rRNA sequencing. Nucleic Acid Techniques in Bacterial Systematics (1991), John Wiley and Sons, Chichester pp. 177-204
22. Lodhi A.M. A simple and efficient method for DNA extraction from gravepine cultivars and Vitis species. Plant. Mol. Biol. Rep. 12 (1994) 6-13
23. Lopez H., Puig S., Ganigué R., Ruscalleda M., Balaguer M.D., and Colprim J. Start-up and enrichment of a granular anammox SBR to treat high nitrogen load wastewaters. J. Chem. Technol. Biotechnol 63 (2008) 233-241
24. Ludwig W., Strunk O., Westram R., Richter L., Meier H., Yadhukumar, Buchner A., Lai T., Steppi S., Jobb G., Forster W., Brettske I., Gerber S., Ginhart A.W., Gross O., Grumann S., Hermann S., Jost R., Konig A., Liss T., Lussmann R., May M., Nonhoff B., Reichel B., Strehlow R., Stamatakis A., Stuckmann N., Vilbig A., Lenke M., Ludwig T., Bode A., and Schleifer K.H. ARB: a software environment for sequence data. Nucleic Acids Res. 32 (2004) 1363-1371
25. Maidak B.L., Olsen G.J., Larsen N., Overbeek R., McCaughey M.J., and Woese C.R. The RDP (Ribosomal Database Project). Nucleic Acids Res. 25 (1997) 109-111
26. Metcalf, and Eddy. Wastewater Engineering (2004), McGraw-Hill, Singapore
27. Mulder A., van de Graaf A.A., Robertson L.A., and Kuenen J.G. Anaerobic ammonium oxidation discovered in a denitrifying fluidized-bed reactor. FEMS Microbiol. Ecol. 16 (1995) 177-183
28. Muyzer G., de Waal E.C., and Uitterlinden A.G. Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA. Appl. Environ. Microbiol. 59 (1993) 695-700
29. Neef A., Amann R., Schlesner H., and Schleifer K.H. Monitoring a widespread bacterial group: in situ detection of planctomycetes with 16S rRNA-targeted probes. Microbiol-UK 144 (1998) 3257-3266
30. Penton C.R., Devol A.H., and Tiedje J.M. Molecular evidence for the broad distribution of anaerobic ammonium-oxidizing bacteria in freshwater and marine sediments. Appl. Environ. Microbiol. 72 (2006) 6829-6832
31. Risgaard-Petersen N., Meyer R.L., Schmid M.C., Jetten M.S., Enrich-Prast A., Rysgaard S., and Revsbech N.P. Anaerobic ammonium oxidation in an estuarine sediment. Aquat. Microbiol. Ecol. 36 (2004) 293-304
32. Schmid M., Maas B., Dapena A., van de Pas-Schoonen K., van de Vossenberg J., Kartal B., van Niftrik L., Schmidt I., Cirpus I., Kuenen J.G., Wagner M., Sinninghe Damste J.S., Kuypers M., Revsbech N.P., Mendez R., Jetten M.S., and Strous M. Biomarkers for in situ detection of anaerobic ammonium-oxidizing (anammox) bacteria. Appl. Environ. Microbiol. 71 (2005) 1677-1684
33. Schmid M., Schmid-Esser S., Jetten M.S., and Wagner M. 16S-23S intergenic spacer and 23S rDNA of anaerobic ammonium-oxidizing bacteria: implications for phylogeny an in situ detection. Environ. Microbiol. 3 (2001) 450-459
34. Schmid M., Twatchmann U., Klein M., Strous M., Juretschko S., Jetten M.S., Metzger J., Schleifer K.-H., and Wagner M. Molecular evidence for genus level diversity of bacteria capable of catalyzing anaerobic ammonium oxidation. Syst. Appl. Microbiol. 23 (2000) 93-106
35. Schmid M., Walsh K., Webb R., Rijpstra W.I., van de Pas-Schoonen K., Verbruggen M.J., Hill T., Moffett B., Fuerst J., Schouten S., Damste J.S., Harris J., Shaw P., Jetten M., and Strous M. Candidatus Scalindua brodae, sp. nov., Candidatus Scalindua wagneri, sp. nov., two new species of anaerobic ammonium oxidizing bacteria. Syst. Appl. Microbiol. 26 (2003) 529-538
36. Schubert C.J., Durisch-Kaiser E., Wehrli B., Thamdrup B., Lam P., and Kuypers M.M. Anaerobic ammonium oxidation in a tropical freshwater system (Lake Tanganyika). Environ. Microbiol. 8 (2006) 1857-1863
37. Sinninghe Damste J.S., Strous M., Rijpstra W.I., Hopmans E.C., Geenevasen J.A., van Duin A.C., van Niftrik L.A., and Jetten M.S. Linearly concatenated cyclobutane lipids form a dense bacterial membrane. Nature 419 (2002) 708-712
38. Strous M., Fuerst J.A., Kramer E.H., Logemann S., Muyzer G., van de Pas-Schoonen K.T., Webb R., Kuenen J.G., and Jetten M.S. Missing lithotroph identified as new planctomycete. Nature 400 (1999) 446-449
39. Strous M., Heijnen J.J., Kuenen J.G., and Jetten M.S. The sequencing batch reactor as a powerful tool for the study of slowly growing anaerobic ammonium-oxidizing microorganisms. Appl. Microbiol. Biotechnol. 50 (1998) 589-596
40. Strous M., Kuenen J.G., and Jetten M.S. Key physiology of anaerobic ammonium oxidation. Appl. Environ. Microbiol. 65 (1999) 3248-3250
41. Strous M., Pelletier E., Mangenot S., Rattei T., Lehner A., Taylor M.W., Horn M., Daims H., Bartol-Mavel D., Wincker P., Barbe V., Fonknechten N., Vallenet D., Segurens B., Schenowitz-Truong C., Medigue C., Collingro A., Snel B., Dutilh B.E., Op den Camp H.J., van der Drift C., Cirpus I., van de Pas-Schoonen K.T., Harhangi H.R., van Niftrik L., Schmid M., Keltjens J., van de Vossenberg J., Kartal B., Meier H., Frishman D., Huynen M.A., Mewes H.W., Weissenbach J., Jetten M.S., Wagner M., and Le Paslier D. Deciphering the evolution and metabolism of an anammox bacterium from a community genome. Nature 440 (2006) 790-794
42. Tal Y., Watts J.E., and Schreier H.J. Anaerobic ammonia-oxidizing bacteria and related activity in Baltimore inner harbor sediment. Appl. Environ. Microbiol. 71 (2005) 1816-1821
43. 2 through anaerobic ammonium oxidation coupled to nitrate reduction in marine sediments. Appl. Environ. Microbiol. 68 (2002) 1312-1318
44. Toh S.K., and Ashbolt N.J. Adaptation of anaerobic ammonium-oxidising consortium to synthetic coke-ovens wastewater. Appl. Microbiol. Biotechnol. 59 (2002) 344-352
45. Toh S.K., Webb R.I., and Ashbolt N.J. Enrichment of autotrophic anaerobic ammonium-oxidizing consortia from various wastewaters. Microbial Ecol. 43 (2002) 154-167
46. Tsushima I., Kindaichi T., and Okabe S. Quantification of anaerobic ammonium-oxidizing bacteria in enrichment cultures by real-time PCR. Water Res. 41 (2007) 785-794
47. Tsushima I., Ogasawara Y., Kindaichi T., Satoh H., and Okabe S. Development of high-rate anaerobic ammonium-oxidizing (anammox) biofilm reactors. Water Res. 41 (2007) 1623-1634
48. Van de Graaf A.A., de Bruijn P., Robertson L.A., Jetten M.S.M., and Kuenen J.G. Autotrophic growth of anaerobic ammonium-oxidizing bacteria micro-organisms in a fluidized bed reactor. Microbiol-UK 142 (1996) 2187-2196
49. Van de Graaf A.A., de Bruijn P., Robertson L.A., Jetten M.S., and van Loosdrecht M.C.M. Metabolic pathway of anaerobic ammonium oxidation on the basis of N-15 studies in a fluidized bed reactor. Microbiology 143 (1997) 2415-2421
50. Van Niftrik L.A., Fuerst J.A., Damste J.S.S., Kuenen J.G., Jetten M.S., and Strous M. The anammoxosome: an intracytoplasmic compartment in anammox bacteria. FEMS Microbiol. Lett. 233 (2004) 7-13