journal article Sep 01, 2016

A New Perspective on Microbes Formerly Known as Nitrite-Oxidizing Bacteria

Trends in Microbiology Vol. 24 No. 9 pp. 699-712 · Elsevier BV
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References
108
[1]
Winogradsky "Contributions a la morphologie des organismes de la nitrification" Arch. Sci. Biol. (St. Petersb.) (1892)
[2]
Dworkin "Sergei Winogradsky: a founder of modern microbiology and the first microbial ecologist" FEMS Microbiol. Rev. (2012) 10.1111/j.1574-6976.2011.00299.x
[3]
Bock "Oxidation of inorganic nitrogen compounds as an energy source" (2001)
[4]
Kowalchuk "Ammonia-oxidizing bacteria: a model for molecular microbial ecology" Annu. Rev. Microbiol. (2001) 10.1146/annurev.micro.55.1.485
[5]
Isolation of an autotrophic ammonia-oxidizing marine archaeon

Martin Könneke, Anne E. Bernhard, José R. de la Torre et al.

Nature 2005 10.1038/nature03911
[6]
Gruber "The marine nitrogen cycle: Overview and challenges" (2008)
[7]
Lewis "Toxicity of nitrite to fish: A review" Trans. Am. Fish. Soc. (1986) 10.1577/1548-8659(1986)115<183:tontf>2.0.co;2
[8]
Castellani "Factors affecting the bacteriostatic action of sodium nitrite" Appl. Environ. Microbiol. (1955) 10.1128/aem.3.3.154-159.1955
[9]
Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes

Mads Albertsen, Philip Hugenholtz, Adam Skarshewski et al.

Nature Biotechnology 2013 10.1038/nbt.2579
[10]
Wilmes "A decade of metaproteomics: where we stand and what the future holds" Proteomics (2015) 10.1002/pmic.201500183
[11]
Wagner "Single-cell ecophysiology of microbes as revealed by Raman microspectroscopy or secondary ion mass spectrometry imaging" Annu. Rev. Microbiol. (2009) 10.1146/annurev.micro.091208.073233
[12]
Single cell genomics: an individual look at microbes

Ramunas Stepanauskas

Current Opinion in Microbiology 2012 10.1016/j.mib.2012.09.001
[13]
Isolation of &lt;i&gt;Nitrospira&lt;/i&gt; belonging to Sublineage II from a Wastewater Treatment Plant

Norisuke Ushiki, Hirotsugu Fujitani, Yoshiteru Aoi et al.

Microbes and environments 2013 10.1264/jsme2.me13042
[14]
Vekeman "A generally applicable cryopreservation method for nitrite-oxidizing bacteria" Syst. Appl. Microbiol. (2013) 10.1016/j.syapm.2013.07.002
[15]
Griffin "Nitrite, an electron donor for anoxygenic photosynthesis" Science (2007) 10.1126/science.1139478
[16]
Hemp "Genomics of a phototrophic nitrite oxidizer: insights into the evolution of photosynthesis and nitrification" ISME J. (2016) 10.1038/ismej.2016.56
[17]
Diversification and niche adaptations of Nitrospina-like bacteria in the polyextreme interfaces of Red Sea brines

David Kamanda Ngugi, Jochen Blom, Ramunas Stepanauskas et al.

The ISME Journal 2016 10.1038/ismej.2015.214
[18]
Sorokin "Nitrification expanded: discovery, physiology, and genomics of a nitrite-oxidizing bacterium from the phylum Chloroflexi" ISME J. (2012) 10.1038/ismej.2012.70
[19]
Füssel "Nitrite oxidation in the Namibian oxygen minimum zone" ISME J. (2012) 10.1038/ismej.2011.178
[20]
Jorgensen "Correlating microbial community profiles with geochemical data in highly stratified sediments from the Arctic Mid-Ocean Ridge" Proc. Natl. Acad. Sci. U.S.A. (2012) 10.1073/pnas.1207574109
[21]
Beman "Nitrite oxidation in the upper water column and oxygen minimum zone of the eastern tropical North Pacific Ocean" ISME J. (2013) 10.1038/ismej.2013.96
[22]
Nunoura "Hadal biosphere: insight into the microbial ecosystem in the deepest ocean on Earth" Proc. Natl. Acad. Sci. U.S.A. (2015) 10.1073/pnas.1421816112
[23]
Daims "In situ characterization of Nitrospira-like nitrite-oxidizing bacteria active in wastewater treatment plants" Appl. Environ. Microbiol. (2001) 10.1128/aem.67.11.5273-5284.2001
[24]
Lebedeva "Physiological and phylogenetical characterization of a new lithoautotrophic nitrite-oxidizing bacterium ‘Candidatus Nitrospira bockiana’ sp. nov" Int. J. Syst. Evol. Microbiol. (2008) 10.1099/ijs.0.65379-0
[25]
Lebedeva "Isolation and characterization of a moderately thermophilic nitrite-oxidizing bacterium from a geothermal spring" FEMS Microbiol. Ecol. (2011) 10.1111/j.1574-6941.2010.01006.x
[26]
Edwards "Cultivation and characterization of thermophilic Nitrospira species from geothermal springs in the US Great Basin, China, and Armenia" FEMS Microbiol. Ecol. (2013) 10.1111/1574-6941.12117
[27]
Marks "Nitrospira-dominated biofilm within a thermal artesian spring: a case for nitrification-driven primary production in a geothermal setting" Geobiology (2012) 10.1111/j.1472-4669.2012.00335.x
[28]
Nowka "Improved isolation strategies allowed the phenotypic differentiation of two Nitrospira strains from widespread phylogenetic lineages" FEMS Microbiol. Ecol. (2014)
[29]
Levipan "Nitrospina-like bacteria are the main drivers of nitrite oxidation in the seasonal upwelling area of the Eastern South Pacific (Central Chile ∼36°S)" Environ. Microbiol. Rep. (2014) 10.1111/1758-2229.12158
[30]
Vanparys "The phylogeny of the genus Nitrobacter based on comparative rep-PCR, 16S rRNA and nitrite oxidoreductase gene sequence analysis" Syst. Appl. Microbiol. (2007) 10.1016/j.syapm.2006.11.006
[31]
Poly "First exploration of Nitrobacter diversity in soils by a PCR cloning-sequencing approach targeting functional gene nxrA" FEMS Microbiol. Ecol. (2008) 10.1111/j.1574-6941.2007.00404.x
[32]
Pester "NxrB encoding the beta subunit of nitrite oxidoreductase as functional and phylogenetic marker for nitrite-oxidizing Nitrospira" Environ. Microbiol. (2014) 10.1111/1462-2920.12300
[33]
Gruber-Dorninger "Functionally relevant diversity of closely related Nitrospira in activated sludge" ISME J. (2015) 10.1038/ismej.2014.156
[34]
Juretschko "Combined molecular and conventional analyses of nitrifying bacterium diversity in activated sludge: Nitrosococcus mobilis and Nitrospira-like bacteria as dominant populations" Appl. Environ. Microbiol. (1998) 10.1128/aem.64.8.3042-3051.1998
[35]
Kruse "The nitrite-oxidizing community in activated sludge from a municipal wastewater treatment plant determined by fatty acid methyl ester-stable isotope probing" Syst. Appl. Microbiol. (2013) 10.1016/j.syapm.2013.06.007
[36]
Alawi "Temperature influences the population structure of nitrite-oxidizing bacteria in activated sludge" Environ. Microbiol. Rep. (2009) 10.1111/j.1758-2229.2009.00029.x
[37]
Lücker "Nitrotoga-like bacteria are previously unrecognized key nitrite oxidizers in full-scale wastewater treatment plants" ISME J. (2015) 10.1038/ismej.2014.158
[38]
Saunders "The activated sludge ecosystem contains a core community of abundant organisms" ISME J. (2016) 10.1038/ismej.2015.117
[39]
Hüpeden "Relative abundance of Nitrotoga in a biofilter of a cold freshwater aquaculture plant appears to be stimulated by slightly acidic pH" Appl. Environ. Microbiol. (2016) 10.1128/aem.03163-15
[40]
Alawi "Cultivation of a novel cold-adapted nitrite oxidizing betaproteobacterium from the Siberian Arctic" ISME J. (2007) 10.1038/ismej.2007.34
[41]
Spieck "Selective enrichment and molecular characterization of a previously uncultured Nitrospira-like bacterium from activated sludge" Environ. Microbiol. (2006) 10.1111/j.1462-2920.2005.00905.x
[42]
Park "Nitrospira community composition in nitrifying reactors operated with two different dissolved oxygen levels" J. Microbiol. Biotechnol. (2008)
[43]
Kalvelage "Nitrogen cycling driven by organic matter export in the South Pacific oxygen minimum zone" Nat. Geosci. (2013) 10.1038/ngeo1739
[44]
Casciotti "Insights on the marine microbial nitrogen cycle from isotopic approaches to nitrification" Front. Microbiol. (2012) 10.3389/fmicb.2012.00356
[45]
Lam "Microbial nitrogen cycling processes in oxygen minimum zones" Annu. Rev. Mar. Sci. (2011) 10.1146/annurev-marine-120709-142814
[46]
Kim "Effect of nitrite concentration on the distribution and competition of nitrite-oxidizing bacteria in nitratation reactor systems and their kinetic characteristics" Water Res. (2006) 10.1016/j.watres.2005.12.023
[47]
Simonin "Coupling between and among ammonia oxidizers and nitrite oxidizers in grassland mesocosms submitted to elevated CO2 and nitrogen supply" Microb. Ecol. (2015) 10.1007/s00248-015-0604-9
[48]
Maixner "Nitrite concentration influences the population structure of Nitrospira-like bacteria" Environ. Microbiol. (2006) 10.1111/j.1462-2920.2006.01033.x
[49]
Daebeler "Interactions between Thaumarchaea, Nitrospira and methanotrophs modulate autotrophic nitrification in volcanic grassland soil" ISME J. (2014) 10.1038/ismej.2014.81
[50]
Arp "Nitrifiers: more than 100 years from isolation to genome sequences" Microbe (2006)

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Published
Sep 01, 2016
Vol/Issue
24(9)
Pages
699-712
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Cite This Article
Holger Daims, Sebastian Lücker, Michael Wagner (2016). A New Perspective on Microbes Formerly Known as Nitrite-Oxidizing Bacteria. Trends in Microbiology, 24(9), 699-712. https://doi.org/10.1016/j.tim.2016.05.004
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