Abundance of Ammonia-oxidizing Archaea and Bacteria Along an Estuarine Salinity Gradient in Relation to Potential Nitrification Rates

Overview

Journal Appl Environ Microbiol

Specialties Environmental Health
Microbiology

Date 2009 Dec 30

PMID 20038706

Citations 61

Authors

Anne E Bernhard

Zachary C Landry

Alison Blevins

Jose R de la Torre

Anne E Giblin

David A Stahl

Affiliations

Soon will be listed here.

Abstract

Abundance of ammonia-oxidizing Archaea (AOA) was found to be always greater than that of ammonia-oxidizing Bacteria along an estuarine salinity gradient, and AOA abundance was highest at intermediate salinity. However, AOA abundance did not correlate with potential nitrification rates. This lack of correlation may be due to methodological limitations or alternative energy sources.

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References

Bernhard A, Tucker J, Giblin A, Stahl D . Functionally distinct communities of ammonia-oxidizing bacteria along an estuarine salinity gradient. Environ Microbiol. 2007; 9(6):1439-47. DOI: 10.1111/j.1462-2920.2007.01260.x. View

Caffrey J, Bano N, Kalanetra K, Hollibaugh J . Ammonia oxidation and ammonia-oxidizing bacteria and archaea from estuaries with differing histories of hypoxia. ISME J. 2007; 1(7):660-2. DOI: 10.1038/ismej.2007.79. View

Mosier A, Francis C . Relative abundance and diversity of ammonia-oxidizing archaea and bacteria in the San Francisco Bay estuary. Environ Microbiol. 2008; 10(11):3002-16. DOI: 10.1111/j.1462-2920.2008.01764.x. View

Leininger S, Urich T, Schloter M, Schwark L, Qi J, Nicol G . Archaea predominate among ammonia-oxidizing prokaryotes in soils. Nature. 2006; 442(7104):806-9. DOI: 10.1038/nature04983. View

Nelson K, Moin N, Bernhard A . Archaeal diversity and the prevalence of Crenarchaeota in salt marsh sediments. Appl Environ Microbiol. 2009; 75(12):4211-5. PMC: 2698360. DOI: 10.1128/AEM.00201-09. View

Park H, Wells G, Bae H, Criddle C, Francis C . Occurrence of ammonia-oxidizing archaea in wastewater treatment plant bioreactors. Appl Environ Microbiol. 2006; 72(8):5643-7. PMC: 1538709. DOI: 10.1128/AEM.00402-06. View

Michael Beman J, Popp B, Francis C . Molecular and biogeochemical evidence for ammonia oxidation by marine Crenarchaeota in the Gulf of California. ISME J. 2008; 2(4):429-41. DOI: 10.1038/ismej.2007.118. View

Dunning A, Talmud P, Humphries S . Errors in the polymerase chain reaction. Nucleic Acids Res. 1988; 16(21):10393. PMC: 338893. DOI: 10.1093/nar/16.21.10393. View

Ouverney C, Fuhrman J . Marine planktonic archaea take up amino acids. Appl Environ Microbiol. 2000; 66(11):4829-33. PMC: 92387. DOI: 10.1128/AEM.66.11.4829-4833.2000. View

10.

Francis C, Roberts K, Michael Beman J, Santoro A, Oakley B . Ubiquity and diversity of ammonia-oxidizing archaea in water columns and sediments of the ocean. Proc Natl Acad Sci U S A. 2005; 102(41):14683-8. PMC: 1253578. DOI: 10.1073/pnas.0506625102. View

11.

Michael Beman J, Roberts K, Wegley L, Rohwer F, Francis C . Distribution and diversity of archaeal ammonia monooxygenase genes associated with corals. Appl Environ Microbiol. 2007; 73(17):5642-7. PMC: 2042080. DOI: 10.1128/AEM.00461-07. View

12.

Weidler G, Dornmayr-Pfaffenhuemer M, Gerbl F, Heinen W, Stan-Lotter H . Communities of archaea and bacteria in a subsurface radioactive thermal spring in the Austrian Central Alps, and evidence of ammonia-oxidizing Crenarchaeota. Appl Environ Microbiol. 2006; 73(1):259-70. PMC: 1797131. DOI: 10.1128/AEM.01570-06. View

13.

Treusch A, Leininger S, Kletzin A, Schuster S, Klenk H, Schleper C . Novel genes for nitrite reductase and Amo-related proteins indicate a role of uncultivated mesophilic crenarchaeota in nitrogen cycling. Environ Microbiol. 2005; 7(12):1985-95. DOI: 10.1111/j.1462-2920.2005.00906.x. View

14.

Somville M . Use of nitrifying activity measurements for describing the effect of salinity on nitrification in the Scheldt estuary. Appl Environ Microbiol. 1984; 47(2):424-6. PMC: 239687. DOI: 10.1128/aem.47.2.424-426.1984. View

15.

de la Torre J, Walker C, Ingalls A, Konneke M, Stahl D . Cultivation of a thermophilic ammonia oxidizing archaeon synthesizing crenarchaeol. Environ Microbiol. 2008; 10(3):810-8. DOI: 10.1111/j.1462-2920.2007.01506.x. View

16.

Ludwig W, Strunk O, Westram R, Richter L, Meier H, Yadhukumar . ARB: a software environment for sequence data. Nucleic Acids Res. 2004; 32(4):1363-71. PMC: 390282. DOI: 10.1093/nar/gkh293. View

17.

Jia Z, Conrad R . Bacteria rather than Archaea dominate microbial ammonia oxidation in an agricultural soil. Environ Microbiol. 2009; 11(7):1658-71. DOI: 10.1111/j.1462-2920.2009.01891.x. View

18.

Moin N, Nelson K, Bush A, Bernhard A . Distribution and diversity of archaeal and bacterial ammonia oxidizers in salt marsh sediments. Appl Environ Microbiol. 2009; 75(23):7461-8. PMC: 2786404. DOI: 10.1128/AEM.01001-09. View

19.

Bedard C, Knowles R . Physiology, biochemistry, and specific inhibitors of CH4, NH4+, and CO oxidation by methanotrophs and nitrifiers. Microbiol Rev. 1989; 53(1):68-84. PMC: 372717. DOI: 10.1128/mr.53.1.68-84.1989. View

20.

Hallam S, Mincer T, Schleper C, Preston C, Roberts K, Richardson P . Pathways of carbon assimilation and ammonia oxidation suggested by environmental genomic analyses of marine Crenarchaeota. PLoS Biol. 2006; 4(4):e95. PMC: 1403158. DOI: 10.1371/journal.pbio.0040095. View