Responses of ammonia-oxidizing archaeal and betaproteobacterial populations to wastewater salinity in a full-scale municipal wastewater treatment plant

Journal of Bioscience and Bioengineering

Volumn 115, Issue 4, 2013, Pages 424-432

  Wu, Yi Ju ^a   Whang, Liang Ming ^a   Fukushima, Toshikazu ^a   Chang, Shao Hsiung ^a  

^a NATIONAL CHENG KUNG UNIVERSITY   (Taiwan)

Author keywords

Abundance; AmoA genes; Conductivity; Real time quantitative PCR; Terminal restriction fragment length polymorphism

Indexed keywords

ABUNDANCE; AMMONIA OXIDIZING BACTERIA; AMMONIA-OXIDIZING ARCHAEA; AMMONIA-OXIDIZING BACTERIA AND ARCHAEA; MUNICIPAL WASTEWATER TREATMENT PLANTS; QUANTITATIVE POLYMERASE CHAIN REACTION; REAL-TIME QUANTITATIVE PCR; TERMINAL RESTRICTION FRAGMENT LENGTH POLYMORPHISMS;

BACTERIA; ELECTRIC CONDUCTIVITY; GENES; MARINAS; POLYMERASE CHAIN REACTION; SALINITY MEASUREMENT; SEAWATER; SEWAGE PUMPING PLANTS; UREA; WATER TREATMENT PLANTS;

AMMONIA;

AMOA PROTEIN; BACTERIAL PROTEIN; SEA WATER; UNCLASSIFIED DRUG; AMMONIA; AMMONIA MONOOXYGENASE; OXIDOREDUCTASE; WASTE WATER;

AMMONIA OXIDIZING ARCHAEON; ARTICLE; BETAPROTEOBACTERIA; CONTROLLED STUDY; GENE EXPRESSION; GENE SEQUENCE; MOLECULAR CLONING; NITROSOMONAS MARINA; NITROSOMONAS UREA; NUCLEOTIDE SEQUENCE; PHYLOGENY; POLYMERASE CHAIN REACTION; REAL TIME POLYMERASE CHAIN REACTION; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; SALINITY; TERMINAL SEQUENCE; THAUMARCHEOTA; WASTE WATER MANAGEMENT; ARCHAEON; BIOREACTOR; CHEMISTRY; CLASSIFICATION; GENETICS; ISOLATION AND PURIFICATION; METABOLISM; MICROBIOLOGY; MOLECULAR GENETICS; NITROSOMONAS; OXIDATION REDUCTION REACTION; WASTE DISPOSAL FACILITY; WASTE WATER;

ARCHAEA; BETAPROTEOBACTERIA; NITROSOMONADALES; NITROSOMONAS; NITROSOMONAS MARINA;

AMMONIA; ARCHAEA; BETAPROTEOBACTERIA; BIOREACTORS; MOLECULAR SEQUENCE DATA; NITROSOMONAS; OXIDATION-REDUCTION; OXIDOREDUCTASES; PHYLOGENY; SALINITY; WASTE DISPOSAL FACILITIES; WASTE WATER;

EID: 84875262186     PISSN: 13891723     EISSN: 13474421     Source Type: Journal    
DOI: 10.1016/j.jbiosc.2012.11.005     Document Type: Article

References (46)

1. Venter J.C., Remington K., Heidelberg J.F., Halpern A.L., Rusch D., Eisen J.A., Wu D., Paulsen I., Nelson K.E., Nelson W. Environmental genome shotgun sequencing of the Sargasso Sea. Science 2004, 304:66-74. other 13 authors.
2. Francis C.A., Roberts K.J., Beman J.M., Santoro A.E., Oakley B.B. Ubiquity and diversity of ammonia-oxidizing archaea in water columns and sediments of the ocean. Proc. Natl. Acad. Sci. USA 2005, 102:14683-14688.
3. Leininger S., Urich T., Schloter M., Schwark L., Qi J., Nicol G.W., Prosser J.I., Schuster S.C., Schleper C. Archaea predominate among ammonia-oxidizing prokaryotes in soils. Nature 2006, 442:806-809.
4. Moin N.S., Nelson K.A., Bush A., Bernhard A.E. Distribution and diversity of archaeal and bacterial ammonia oxidizers in salt marsh sediments. Appl. Environ. Microbiol. 2009, 75:7461-7468.
5. Beman J.M., Popp B.N., Francis C.A. Molecular and biogeochemical evidence for ammonia oxidation by marine Crenarchaeota in the Gulf of California. ISME J. 2008, 2:429-441.
6. Mincer T.J., Church M.J., Taylor L.T., Preston C., Karl D.M., DeLong E.F. Quantitative distribution of presumptive archaeal and bacterial nitrifiers in Monterey Bay and the North Pacific Subtropical Gyre. Environ. Microbiol. 2007, 9:1162-1175.
7. Wuchter C., Abbas B., Coolen M.J.L., Herfort L., van Bleijswijk J., Timmers P., Strous M., Teira E., Herndl G.J., Middelburg J.J., Schouten S., Sinninghe Damste J.S. Archaeal nitrification in the ocean. Proc. Natl. Acad. Sci. USA 2006, 103:12317-12322.
8. Beman J.M., Francis C.A. Diversity of ammonia-oxidizing archaea and bacteria in the sediments of a hypernutrified subtropical estuary: Bahía del Tóbari, Mexico. Appl. Environ. Microbiol. 2006, 72:7767-7777.
9. Caffrey J.M., Bano N., Kalanetra K., Hollibaugh J.T. Ammonia oxidation and ammonia-oxidizing bacteria and archaea from estuaries with differing histories of hypoxia. ISME J. 2007, 1:660-662.
10. Santoro A.E., Francis C.A., Sieyes N.R.d., Boehm A.B. Shifts in the relative abundance of ammonia-oxidizing bacteria and archaea across physicochemical gradients in a subterranean estuary. Environ. Microbiol. 2008, 10:1068-1079.
11. Bernhard A.E., Bollmann A. Estuarine nitrifiers: new players, patterns and processes. Estuar. Coast. Shelf Sci. 2010, 88:1-11.
12. Erguder T.H., Boon N., Wittebolle L., Marzorati M., Verstraete W. Environmental factors shaping the ecological niches of ammonia-oxidizing archaea. FEMS Microbiol. Rev. 2009, 33:855-869.
13. You J., Das A., Dolan E.M., Hu Z. Ammonia-oxidizing archaea involved in nitrogen removal. Water Res. 2009, 43:1801-1809.
14. Prosser J.I., Nicol G.W. Relative contributions of archaea and bacteria to aerobic ammonia oxidation in the environment. Environ. Microbiol. 2008, 10:2931-2941.
15. Urakawa H., Tajima Y., Numata Y., Tsuneda S. Low temperature decreases the phylogenetic diversity of ammonia-oxidizing archaea and bacteria in aquarium biofiltration systems. Appl. Environ. Microbiol. 2008, 74:894-900.
16. Limpiyakorn T., Sonthiphand P., Rongsayamanont C., Polprasert C. Abundance of amoA genes of ammonia-oxidizing archaea and bacteria in activated sludge of full-scale wastewater treatment plants. Bioresour. Technol. 2011, 102:3694-3701.
17. Park H.-D., Wells G.F., Bae H., Criddle C.S., Francis C.A. Occurrence of ammonia-oxidizing archaea in wastewater treatment plant bioreactors. Appl. Environ. Microbiol. 2006, 72:5643-5647.
18. Zhang T., Jin T., Yan Q., Shao M., Wells G., Criddle C., Fang H.H.P. Occurrence of ammonia-oxidizing Archaea in activated sludges of a laboratory scale reactor and two wastewater treatment plants. J. Appl. Microbiol. 2009, 107:970-977.
19. Koops H.-P., Pommerening-Roser A. Distribution and ecophysiology of the nitrifying bacteria emphasizing cultured species. FEMS Microbiol. Ecol. 2001, 37:1-9.
20. Konneke M., Bernhard A.E., de la Torre J.R., Walker C.B., Waterbury J.B., Stahl D.A. Isolation of an autotrophic ammonia-oxidizing marine archaeon. Nature 2005, 437:543-546.
21. Tourna M., Stieglmeier M., Spang A., Könneke M., Schintlmeister A., Urich T., Engel M., Schloter M., Wagner M., Richter A., Schleper C. Nitrososphaera viennensis, an ammonia oxidizing archaeon from soil. Proc. Natl. Acad. Sci. USA 2011, 108:8420-8425.
22. Martens-Habbena W., Berube P.M., Urakawa H., de la Torre J.R., Stahl D.A. Ammonia oxidation kinetics determine niche separation of nitrifying Archaea and Bacteria. Nature 2009, 461:976-979.
23. APHA, AWWA, WEF Standard methods for the examination of water and wastewater 1995, American Public Health Association, Washington, DC. 19 ed.
24. Rotthauwe J.H., Witzel K.P., Liesack W. The ammonia monooxygenase structural gene amoA as a functional marker: molecular fine-scale analysis of natural ammonia-oxidizing populations. Appl. Environ. Microbiol. 1997, 63:4704-4712.
25. Tamura K., Dudley J., Nei M., Kumar S. MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol. Biol. Evol. 2007, 24:1596-1599.
26. Schloss P.D., Handelsman J. Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness. Appl. Environ. Microbiol. 2005, 71:1501-1506.
27. Whang L.-M., Chien I.C., Yuan S.-L., Wu Y.-J. Nitrifying community structures and nitrification performance of full-scale municipal and swine wastewater treatment plants. Chemosphere 2009, 75:234-242.
28. Purkhold U., Pommerening-Roser A., Juretschko S., Schmid M.C., Koops H.-P., Wagner M. Phylogeny of all recognized species of ammonia oxidizers based on comparative 16S rRNA and amoA sequence analysis: implications for molecular diversity surveys. Appl. Environ. Microbiol. 2000, 66:5368-5382.
29. Francis C.A., O'Mullan G.D., Ward B.B. Diversity of ammonia monooxygenase (amoA) genes across environmental gradients in Chesapeake Bay sediments. Geobiology 2003, 1:129-140.
30. Pester M., Schleper C., Wagner M. The Thaumarchaeota: an emerging view of their phylogeny and ecophysiology. Curr. Opin. Microbiol. 2011, 14:300-306.
31. Bernhard A.E., Donn T., Giblin A.E., Stahl D.A. Loss of diversity of ammonia-oxidizing bacteria correlates with increasing salinity in an estuary system. Environ. Microbiol. 2005, 7:1289-1297.
32. Dang H., Zhang X., Sun J., Li T., Zhang Z., Yang G. Diversity and spatial distribution of sediment ammonia-oxidizing crenarchaeota in response to estuarine and environmental gradients in the Changjiang Estuary and East China Sea. Microbiology 2008, 154:2084-2095.
33. Mosier A.C., Francis C.A. Relative abundance and diversity of ammonia-oxidizing archaea and bacteria in the San Francisco Bay estuary. Environ. Microbiol. 2008, 10:3002-3016.
34. Sahan E., Muyzer G. Diversity and spatio-temporal distribution of ammonia-oxidizing Archaea and Bacteria in sediments of the Westerschelde estuary. FEMS Microbiol. Ecol. 2008, 64:175-186.
35. Schleper C., Jurgens G., Jonuscheit M. Genomic studies of uncultivated archaea. Nature reviews. Microbiology 2005, 3:479-488.
36. Hatzenpichler R., Lebedeva E.V., Spieck E., Stoecker K., Richter A., Daims H., Wagner M. A moderately thermophilic ammonia-oxidizing crenarchaeote from a hot spring. Proc. Natl. Acad. Sci. USA 2008, 105:2134-2139.
37. Torre J.R.d.l., Walker C.B., Ingalls A.E., Koneke M., Stahl D.A. Cultivation of a thermophilic ammonia oxidizing archaeon synthesizing crenarchaeol. Environ. Microbiol. 2008, 10:810-818.
38. Wells G.F., Park H.-D., Yeung C.-H., Eggleston B., Francis C.A., Criddle C.S. Ammonia-oxidizing communities in a highly aerated full-scale activated sludge bioreactor: betaproteobacterial dynamics and low relative abundance of Crenarchaeae. Environ. Microbiol. 2009, 11:2310-2328.
39. Baek J.-G., Park J., Kim T.-S., Park H.-D. Analysis of the time dependency of ammonia-oxidizing bacterial community dynamics in an activated sludge bioreactor. J. Biosci. Bioeng. 2011, 112:166-169.
40. Siripong S., Rittmann B.E. Diversity study of nitrifying bacteria in full-scale municipal wastewater treatment plants. Water Res. 2007, 41:1110-1120.
41. Limpiyakorn T., Shinohara Y., Kurisu F., Yagi O. Communities of ammonia-oxidizing bacteria in activated sludge of various sewage treatment plants in Tokyo. FEMS Microbiol. Ecol. 2005, 54:205-217.
42. de Bie M.J.M., Speksnijder A.G.C.L., Kowalchuk G.A., Schuurman T., Zwart G., Stephen J.R., Diekmann O.E., Laanbroek H.J. Shifts in the dominant populations of ammoniaoxidizing β-subclass Proteobacteria along the eutrophic Schelde estuary. Aquat. Microb. Ecol. 2001, 23:225-236.
43. Bollmann A., Laanbroek H.J. Influence of oxygen partial pressure and salinity on the community composition of ammonia-oxidizing bacteria in the Schelde estuary. Aquat. Microb. Ecol. 2002, 28:239-247.
44. Coci M., Riechmann D., Bodelier P.L.E., Stefani S., Zwart G., Laanbroek H.J. Effect of salinity on temporal and spatial dynamics of ammonia-oxidising bacteria from intertidal freshwater sediment. FEMS Microbiol. Ecol. 2005, 53:359-368.
45. Spang A., Hatzenpichler R., Brochier-Armanet C., Rattei T., Tischler P., Spieck E., Streit W., Stahl D.A., Wagner M., Schleper C. Distinct gene set in two different lineages of ammonia-oxidizing archaea supports the phylum Thaumarchaeota. Trends Microbiol. 2010, 18:331-340.
46. Jin T., Zhang T., Yan Q. Characterization and quantification of ammonia-oxidizing archaea (AOA) and bacteria (AOB) in a nitrogen-removing reactor using T-RFLP and qPCR. Appl. Microbiol. Biotechnol. 2010, 87:1167-1176.