Anaerobic ammonia oxidation in a fertilized paddy soil

ISME Journal

Volumn 5, Issue 12, 2011, Pages 1905-1912

  Zhu, Guibing ^a   Wang, Shanyun ^a   Wang, Yu ^a   Wang, Chaoxu ^a   Risgaard Petersen, Nils ^b   Jetten, Mike Sm ^c   Yin, Chengqing ^a  

^a RESEARCH CENTER FOR ECO ENVIRONMENTAL SCIENCES   (China)

^b AARHUS UNIVERSITY   (Denmark)

^c RADBOUD UNIVERSITY NIJMEGEN   (Netherlands)

Author keywords

[No Author keywords available]

Indexed keywords

AMMONIA; NITRITE; QUATERNARY AMMONIUM DERIVATIVE; RNA 16S;

AGRICULTURAL SOIL; AMMONIA; ANOXIC CONDITIONS; DENITRIFICATION; GENE EXPRESSION; MANURE; MICROBIAL ACTIVITY; NITRIFYING BACTERIUM; NITRITE; OXIDATION; PADDY FIELD; SLURRY; SOIL HORIZON; SOIL MICROORGANISM; SOIL NITROGEN;

ANAEROBIC GROWTH; ARCHAEON; ARTICLE; BACTERIUM; CHEMOAUTOTROPHY; CHINA; CLASSIFICATION; GENETICS; METABOLISM; MICROBIOLOGY; OXIDATION REDUCTION REACTION; PHYLOGENY;

AMMONIA; ANAEROBIOSIS; ARCHAEA; BACTERIA; CHEMOAUTOTROPHIC GROWTH; CHINA; NITRITES; OXIDATION-REDUCTION; PHYLOGENY; QUATERNARY AMMONIUM COMPOUNDS; RNA, RIBOSOMAL, 16S; SOIL MICROBIOLOGY;

CHINA;

ARCHAEA; BACTERIA (MICROORGANISMS); CANDIDATUS JETTENIA; KUENENIA;

EID: 81855194039     PISSN: 17517362     EISSN: 17517370     Source Type: Journal    
DOI: 10.1038/ismej.2011.63     Document Type: Article

References (45)

1. Bao SD. (ed.). (2000). Chemical Analysis for Agricultural Soil. China Agriculture Press: Beijing.
2. Bartlett R, Mortimer RJG, Morris K. (2008). Anoxic nitrification: evidence from humber Estuary sediments (UK). Chem Geol 250: 29-39.
3. Dalsgaard T, Canfield DE, Petersen J, Thamdrup B, Acũna-Gonzalez J. (2003). N2 production by the anammox reaction in the anoxic water of Golfo Dulce, Costa Rica. Nature 422: 606-608. (Pubitemid 36460411)
4. Dalsgaard T, Thamdrup B, Canfield DE. (2005). Anaerobic ammonium oxidation (anammox) in the marine environment. Res Microbiol 156: 457-464. (Pubitemid 40615411)
5. Dale OR, Tobias CR, Song B. (2009). Biogeographical distribution of diverse anaerobic ammonium oxidizing (anammox) bacteria in Cape Fear River Estuary. Environ Microbiol 11: 1194-1207.
6. De Datta SK, Buresh RJ, Samaon MI, Obcemea WN, Real JG. (1991). Direct measurement of ammonia and denitrification fluxes from urea applied to rice. Soil Sci Soc Am J 55: 543-548.
7. Engström P, Dalsgaard T, Hulth S, Aller RC. (2005). Anaerobic ammonium oxidation by nitrite (anammox): implications for N2 production in coastal marine sediments. Geochim Cosmochim Acta 69: 2057-2065. (Pubitemid 40549401)
8. Erler DV, Eyre BD, Davison L. (2008). The contribution of anammox and denitrification to sediment N2 production in a surface flow constructed wetland. Environ Sci Technol 42: 9144-9150.
9. Fan G, Zhu G, Wang Y, Wang C, Yin C. (2010). New functional microorganisms in nitrogen cycle restoration of river riparian ecosystems. Acta Scientiae Circumstantiae 30: 1558-1563.
10. Gundersen JK, Ramsing NB, Glud RN. (1998). Predicting the signal of O2 microsensors from physical dimensions, temperature, salinity, and O2 concentration. Limnol Oceanogr 43: 1932-1937. (Pubitemid 29014772)
11. Hamersley MR, Lavik G, Woebken D, Rattray JE, Lam P, Hopmans EC et al. (2007). Anaerobic ammonium oxidation in the Peruvian oxygen minimum zone. Limnol Oceanogr 52: 923-933. (Pubitemid 46827143)
12. Humbert S, Tarnawski S, Fromin N, Mallet MP, Aragno M, Zopfi J. (2010). Molecular detection of anammox bacteria in terrestrial ecosystems: distribution and diversity. ISME J 4: 450-454.
13. Hu BL, Rush D, van der Biezen E, Zheng P, van Mullekom M, Schouten S et al. (2011). A new anaerobic ammonium-oxidizing community enriched from peat soil. Appl Environ Microbiol 77: 966-971.
14. Jetten MSM, Op den Camp HJM, Kuenen JG, Strous M. (2010). Description of the order Brocadiales. In: Krieg NR, Staley JT, Hedlund BP, Paster BJ, Ward N, Ludwig W and Whitman WB (eds). Bergey's Manual of Systematic Bacteriology, vol. 4. Springer: Heidelberg, Germany. pp 506-603.
15. Juretschko S, Timmermann G, Schmid M, Schleifer KH, Pommerening- Röser A, Koops HP et al. (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. (Pubitemid 28363182)
16. Kartal B, Keltjens JT, Jetten MSM. (2008). Metabolism of Anammox. In: Encyclopedia of Life Sciences (ELS). John Wiley & Sons, Ltd: Chichester. pp 1-9, doi:10.1002/9780470015902.a0021315.
17. Kartal B, Rattray J, van Niftrik L, van de Vossenberg J, Schmid MC, Webb RI et al. (2007). Candidatus 'Anammoxoglobus propionicus' a new propionate oxidizing species of anaerobic ammonium oxidizing bacteria. Syst Appl Microbiol 30: 39-49. (Pubitemid 44969479)
18. Kögel-Knabner I, Amelung W, Cao Z, Fiedler S, Frenzel P, Jahn R et al. (2010). Biogeochemistry of paddy soils. Geoderma 157: 1-14.
19. Kurola J, Salkinoja-Salonen M, Aarnio T, Hultman J, Romantschuk M. (2005). Activity, diversity and population size of ammonia-oxidising bacteria in oilcontaminated landfarming soil. FEMS Microbiol Lett 250: 33-38. (Pubitemid 41138152)
20. Kuypers M.M.M, Lavik G, Wöbken D, Schmid M, Fuchs BM, Amann R. (2005). Massive nitrogen loss from the Benguela upwelling system through anaerobic ammonium oxidation. Proc Natl Acad Sci USA 102: 6478-6483. (Pubitemid 40617468)
21. Kuypers MMM, Sliekers AO, Lavik G, Schmid M, Jorgensen BB, Kuenen JG et al. (2003). Anaerobic ammonium oxidation by anammox bacteria in Black Sea. Nature 422: 608-611. (Pubitemid 36460412)
22. Lam P, Jensen MM, Lavik G, McGinnis DF, Müller B, Schubert CJ, et al. (2007). Linking crenarchaeal and bacterial nitrification to anammox in the Black Sea. Proc Natl Acad Sci USA 102: 6478-6483.
23. Lam P, Lavik G, Jensen MM, van de Vossenberg J, Schmid M, Woebken D et al. (2009). Revising the nitrogen cycle in the Peruvian oxygen minimum zone. Proc Natl Acad Sci USA 106: 4752-4757.
24. Neef A, Amann R, Schlesner H, Schleifer KH. (1998). Monitoring a widespread bacterial group: in situ detection of planctomycetes with 16S rRNA-targeted probes. Microbiology 144: 3257-3266. (Pubitemid 29011955)
25. Nicolaisen MH, Risgaard-Petersen N, Revsbech NP, Reichardt W, Ramsing NB. (2004). Nitrification-denitrification dynamics and community structure of ammonia oxidizing bacteria in a high yield irrigated Philippine rice field. FEMS Microbiol Ecol 49: 359-369. (Pubitemid 39119594)
26. Quan ZX, Rhee SK, Zuo JE, Yang Y, Bae JW, Park JR et al. (2008). Diversity of ammonium-oxidizing bacteria in a granular sludge anaerobic ammonium-oxidizing (anammox) reactor. Environ Microbiol 10: 3130-3139.
27. Rich JJ, Dale OR, Song B, Ward BB. (2008). Anaerobic ammonium oxidation (Anammox) in Chesapeake Bay sediments. Microb Ecol 55: 311-320. (Pubitemid 351171471)
28. Risgaard-Petersen N, Meyer RL, Schmidt M, Jetten MSM, Prast AE, Rysgaard S et al. (2004). Anaerobic ammonia oxidation in an estuarine sediment. Aquat Microb Ecol 36: 293-304. (Pubitemid 39393898)
29. Schmid MC, Maas B, Dapena A, de Pas-Schoonen KV, de Vossenberg JV, Kartal B et al. (2005). Biomarkers for in situ detection of anaerobic ammonium-oxidizing (anammox) bacteria. Appl Environ Microbiol 71: 1677-1684. (Pubitemid 40552872)
30. Schmid MC, Risgaard-Petersen N, van de Vossenberg J, Kuypers MMM, Lavik G, Petersen J et al. (2007). Anaerobic ammonium-oxidizing bacteria in marine environments: widespread occurrence but low diversity. Environ Microbiol 9: 1476-1484. (Pubitemid 46763528)
31. Schmid M, Walsh K, Webb R, Rijpstra WIC, van de Pas-Schoonen K, Verbruggen MJ et al. (2003). Candidatus Scalindua brodae, sp. nov Candidatus Scalindua wagneri, sp. nov., two new species of anaerobic ammonium oxidizing bacteria. Syst Appl Microbiol 26: 529-538. (Pubitemid 37486511)
32. Schubert CJ, Durisch-Kaiser E, Wehrli B, Thamdrup B, Lam P, Kuypers MMM. (2006). Anaerobic ammonium oxidation in a tropical freshwater system (Lake Tanganyika). Environ Microbiol 8: 1857-1863. (Pubitemid 44326477)
33. Sliekers AO, Derwort N, Gomez JLC, Strous M, Kuenen JG, Jetten MSM. (2002). Completely autotrophic nitrogen removal over nitrite in one single reactor. Water Res 36: 2475-2482. (Pubitemid 34575598)
34. Strous M, Fuerst JA, Kramer EH, Logemann S, Muyzer G, van de Pas-Schoonen KT et al. (1999a). Missing lithotroph identified as new planctomycete. Nature 400: 446-449. (Pubitemid 29361796)
35. Tamura K, Dudley J, Nei M, Kumar S. (2007). MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol 24: 1596-1599. (Pubitemid 47236692)
36. Thamdrup B, Dalsgaard T. (2002). Production of N2 through anaerobic ammonium oxidation coupled to nitrate reduction in marine sediments. Appl Environ Microbiol 68: 1312-1318. (Pubitemid 34205371)
37. Trimmer M, Nicholls JC. (2009). Production of nitrogen gas via anammox and denitrification in intact sediment cores along a continental shelf to slope transect in the North Atlantic. Limnol Oceanogr 54: 577-589.
38. Zhang Y, Ruan XH, Op den Camp HJM, Smits TJM, Jetten MSM, Schmid MC. (2007). Diversity and abundance of aerobic and anaerobic ammonium-oxidizing bacteria in freshwater sediments of the Xinyi River (China). Environ Microbiol 9: 2375-2382. (Pubitemid 47222126)
39. Wang S, Wang Y, Feng X, Zhai L, Zhu G. (2011). Quantitative analyses of ammonia-oxidizing archaea and bacteria in the sediments of four nitrogen-rich wetlands in China. Appl Microbiol Biotechnol 90: 779-787.
40. Woebken D, Fuchs BM, Kuypers MMM, Amann R. (2007). Potential interactions of particle-associated anammox bacteria with bacterial and archaeal partners in the Namibian Upwelling System. Appl Environ Microbiol 73: 4648-4657. (Pubitemid 47122610)
41. Xing GX, Zhu ZL. (2000). An assessment of N loss from agricultural fields to the environment in China. Nutr Cycl Agroecosyst 57: 67-73. (Pubitemid 30427479)
42. Yan J, Op den Camp HJM, Jetten MSM, Hu YY, Haaijer SCM. (2010). Induced cooperation between marine nitrifiers and anaerobic ammonium-oxidizing bacteria by incremental exposure to oxygen. Syst Appl Microbiol 33: 407-415.
43. Zhao X, Xie Y, Xiong Z, Yan X, Xing G, Zhu Z. (2009). Nitrogen fate and environmental consequence in paddy soil under rice-wheat rotation in the Taihu lake region, China. Plant Soil 319: 225-234.
44. Zhu G, Jetten MSM, Kuschk P, Ettwig K, Yin C. (2010). Potential roles of anaerobic ammonia and methane oxidation in the nitrogen cycle of freshwater wetland ecosystems. Appl Microbiol Biotechnol 86: 1043-1055.
45. Zhu G, Peng Y, Li B, Guo J, Yang Q, Wang S. (2008). Biological nitrogen removal from wastewater. Rev Environ Contam Toxicol 192: 159-195.