Daims H, Lücker S, Wagner M. A new perspective on microbes formerly known as nitrite-oxidizing bacteria. Trends Microbiol. 2016;24:699–712.
Google Scholar
Ehrich S, Behrens D, Lebedeva E, Ludwig W, Bock E. A new obligately chemolithoautotrophic, nitrite-oxidizing bacterium, Nitrospira moscoviensis sp. nov. and its phylogenetic relationship. Arch Microbiol. 1995;164:16–23.
Google Scholar
Koch H, Galushko A, Albertsen M, Schintlmeister A, Gruber-Dorninger C, Lücker S, et al. Growth of nitrite-oxidizing bacteria by aerobic hydrogen oxidation. Science. 2014;345:1052–4.
Google Scholar
Koch H, Lücker S, Albertsen M, Kitzinger K, Herbold C, Spieck E, et al. Expanded metabolic versatility of ubiquitous nitrite-oxidizing bacteria from the genus Nitrospira. Proc Natl Acad Sci USA. 2015;112:11371–6.
Google Scholar
Daims H, Lebedeva EV, Pjevac P, Han P, Herbold C, Albertsen M, et al. Complete nitrification by Nitrospira bacteria. Nature. 2015;528:504–9.
Google Scholar
van Kessel MAHJ, Speth DR, Albertsen M, Nielsen PH, Op den Camp HJM, Kartal B, et al. Complete nitrification by a single microorganism. Nature. 2015;528:555–9.
Google Scholar
Lücker S, Wagner M, Maixner F, Pelletier E, Koch H, Vacherie B, et al. A Nitrospira metagenome illuminates the physiology and evolution of globally important nitrite-oxidizing bacteria. Proc Natl Acad Sci USA. 2010;107:13479–84.
Google Scholar
Mundinger AB, Lawson CE, Jetten MSM, Koch H, Lücker S. Cultivation and transcriptional analysis of a canonical Nitrospira under stable growth conditions. Front Microbiol. 2019;10:1325.
Morita RY. Is H2 the universal energy source for long-term survival? Micro Ecol. 1999;38:307–20.
Google Scholar
Bay SK, Dong X, Bradley JA, Leung PM, Grinter R, Jirapanjawat T, et al. Trace gas oxidizers are widespread and active members of soil microbial communities. Nat Microbiol. 2021;6:246–56.
Google Scholar
Constant P, Poissant L, Villemur R. Isolation of Streptomyces sp. PCB7, the first microorganism demonstrating high-affinity uptake of tropospheric H2. ISME J. 2008;2:1066–76.
Google Scholar
Greening C, Carere CR, Rushton-Green R, Harold LK, Hards K, Taylor MC, et al. Persistence of the dominant soil phylum Acidobacteria by trace gas scavenging. Proc Natl Acad Sci USA. 2015;112:10497–502.
Google Scholar
Islam ZF, Cordero PRF, Feng J, Chen Y-J, Bay SK, Jirapanjawat T, et al. Two Chloroflexi classes independently evolved the ability to persist on atmospheric hydrogen and carbon monoxide. ISME J. 2019;13:1801.
Google Scholar
Islam ZF, Welsh C, Bayly K, Grinter R, Southam G, Gagen EJ, et al. A widely distributed hydrogenase oxidises atmospheric H2 during bacterial growth. ISME J. 2020;14:2649–58.
Google Scholar
Schmitz RA, Pol A, Mohammadi SS, Hogendoorn C, van Gelder AH, Jetten MSM, et al. The thermoacidophilic methanotroph Methylacidiphilum fumariolicum SolV oxidizes subatmospheric H2 with a high-affinity, membrane-associated [NiFe] hydrogenase. ISME J. 2020;14:1223–32.
Google Scholar
Ortiz M, Leung PM, Shelley G, Jirapanjawat T, Nauer PA, Van Goethem M, et al. Multiple energy sources and metabolic strategies sustain microbial diversity in Antarctic desert soils. Proc Natl Acad Sci. 2021;118:e2025322118.
Google Scholar
Greening C, Berney M, Hards K, Cook GM, Conrad R. A soil actinobacterium scavenges atmospheric H2 using two membrane-associated, oxygen-dependent [NiFe] hydrogenases. Proc Natl Acad Sci USA. 2014;111:4257–61.
Google Scholar
Myers MR, King GMY. Isolation and characterization of Acidobacterium ailaaui sp. nov., a novel member of Acidobacteria subdivision 1, from a geothermally heated Hawaiian microbial mat. Int J Syst Evol Microbiol. 2016;66:5328–35.
Google Scholar
Cordero PRF, Grinter R, Hards K, Cryle MJ, Warr CG, Cook GM, et al. Two uptake hydrogenases differentially interact with the aerobic respiratory chain during mycobacterial growth and persistence. J Biol Chem. 2019;294:18980–91.
Google Scholar
Sander R. Compilation of Henry’s law constants (version 4.0) for water as solvent. Atmos Chem Phys. 2015;15:4399–981.
Google Scholar
Cox J, Mann M. MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification. Nat Biotechnol. 2008;26:1367–72.
Google Scholar
Cox J, Neuhauser N, Michalski A, Scheltema RA, Olsen JV, Mann M. Andromeda: a peptide search engine integrated into the MaxQuant environment. J Proteome Res. 2011;10:1794–805.
Google Scholar
Shah AD, Goode RJA, Huang C, Powell DR, Schittenhelm RB. LFQ-Analyst: an easy-to-use interactive web platform to analyze and visualize label-free proteomics data preprocessed with MaxQuant. J Proteome Res. 2020;19:204–11.
Google Scholar
Nowka B, Daims H, Spieck E. Comparative oxidation kinetics of nitrite-oxidizing bacteria: nitrite availability as key factor for niche differentiation. Appl Environ Microbiol. 2014;81:745–53.
Thauer RK, Jungermann K, Decker K. Energy conservation in chemotrophic anaerobic bacteria. Bacteriol Rev. 1977;41:809.
Google Scholar
Greening C, Villas-Bôas SG, Robson JR, Berney M, Cook GM. The growth and survival of Mycobacterium smegmatis is enhanced by co-metabolism of atmospheric H2. PLoS ONE. 2014;9:e103034.
Google Scholar
Constant P, Chowdhury SP, Pratscher J, Conrad R. Streptomycetes contributing to atmospheric molecular hydrogen soil uptake are widespread and encode a putative high-affinity [NiFe]-hydrogenase. Environ Microbiol. 2010;12:821–9.
Google Scholar
Häring V, Conrad R. Demonstration of two different H2-oxidizing activities in soil using an H2 consumption and a tritium exchange assay. Biol Fertil Soils. 1994;17:125–8.
Google Scholar
Yang Y, Daims H, Liu Y, Herbold CW, Pjevac P, Lin J-G, et al. Activity and metabolic versatility of complete ammonia oxidizers in full-scale wastewater treatment systems. mBio. 2020;11:e03175–19.
Chadwick GL, Hemp J, Fischer WW, Orphan VJ. Convergent evolution of unusual complex I homologs with increased proton pumping capacity: energetic and ecological implications. ISME J. 2018;12:2668–80.
Google Scholar
Alberty RA. Standard apparent reduction potentials of biochemical half reactions and thermodynamic data on the species involved. Biophys Chem. 2004;111:115–22.
Google Scholar
Burns LC, Stevens RJ, Smith RV, Cooper JE. The occurrence and possible sources of nitrite in a grazed, fertilized, grassland soil. Soil Biol Biochem. 1995;27:47–59.
Google Scholar
Zhang M, Yuan D, Chen G, Li Q, Zhang Z, Liang Y. Simultaneous determination of nitrite and nitrate at nanomolar level in seawater using on-line solid phase extraction hyphenated with liquid waveguide capillary cell for spectrophotometric detection. Microchim Acta. 2009;165:427–35.
Google Scholar
Daims H, Nielsen JL, Nielsen PH, Schleifer K-H, Wagner M. In situ characterization of Nitrospira-like nitrite-oxidizing bacteria active in wastewater treatment plants. Appl Environ Microbiol. 2001;67:5273–84.
Google Scholar
Lebedeva EV, Alawi M, Maixner F, Jozsa P-G, Daims H, Spieck E. Physiological and phylogenetic characterization of a novel lithoautotrophic nitrite-oxidizing bacterium, ‘Candidatus Nitrospira bockiana’. Int J Syst Evol Microbiol. 2008;58:242–50.
Google Scholar
Lebedeva EV, Off S, Zumbrägel S, Kruse M, Shagzhina A, Lücker S, et al. Isolation and characterization of a moderately thermophilic nitrite-oxidizing bacterium from a geothermal spring. FEMS Microbiol Ecol. 2011;75:195–204.
Google Scholar
Watson SW, Bock E, Valois FW, Waterbury JB, Schlosser U. Nitrospira marina gen. nov. sp. nov.: a chemolithotrophic nitrite-oxidizing bacterium. Arch Microbiol. 1986;144:1–7.
Google Scholar
Maixner F, Noguera DR, Anneser B, Stoecker K, Wegl G, Wagner M, et al. Nitrite concentration influences the population structure of Nitrospira-like bacteria. Environ Microbiol. 2006;8:1487–95.
Google Scholar
Sorokin DY, Lucker S, Vejmelkova D, Kostrikina NA, Kleerebezem R, Rijpstra WIC, et al. Nitrification expanded: discovery, physiology and genomics of a nitrite-oxidizing bacterium from the phylum Chloroflexi. ISME J. 2012;6:2245–56.
Google Scholar
Greening C, Biswas A, Carere CR, Jackson CJ, Taylor MC, Stott MB, et al. Genomic and metagenomic surveys of hydrogenase distribution indicate H2 is a widely utilised energy source for microbial growth and survival. ISME J. 2016;10:761–77.
Google Scholar
Daebeler A, Kitzinger K, Koch H, Herbold CW, Steinfeder M, Schwarz J, et al. Exploring the upper pH limits of nitrite oxidation: diversity, ecophysiology, and adaptive traits of haloalkalitolerant. Nitrospira ISME J. 2020;14:2967–79.
Google Scholar
Suarez C, Sedlacek CJ, Gustavsson DJI, Eiler A, Modin O, Hermansson M, et al. Disturbance-based management of ecosystem services and disservices in partial nitritation anammox biofilms. 2021. https://www.biorxiv.org/content/10.1101/2021.07.05.451122v1.
Source: Ecology - nature.com
