| [1] |
Kuypers MMM, Marchant HK, Kartal B. 2018. The microbial nitrogen-cycling network. |
| [2] |
van Kessel MAHJ, Speth DR, Albertsen M, Nielsen PH, Op den Camp HJM, et al. 2015. Complete nitrification by a single microorganism. |
| [3] |
Daims H, Lebedeva EV, Pjevac P, Han P, Herbold C, et al. 2015. Complete nitrification by Nitrospira bacteria. |
| [4] |
Duan P, Zhang Q, Xiong Z. 2020. Temperature decouples ammonia and nitrite oxidation in greenhouse vegetable soils. |
| [5] |
Beeckman F, Motte H, Beeckman T. 2018. Nitrification in agricultural soils: impact, actors and mitigation. |
| [6] |
Rohe L, Apelt B, Vogel HJ, Well R, Wu GM, et al. 2021. Denitrification in soil as a function of oxygen availability at the microscale. |
| [7] |
Qin H, Xing X, Tang Y, Zhu B, Wei X, et al. 2020. Soil moisture and activity of nitrite- and nitrous oxide-reducing microbes enhanced nitrous oxide emissions in fallow paddy soils. |
| [8] |
Deng J, Kang D, Zhang Y, Chen B, Xia C, et al. 2024. Genome-resolved metagenomics reveals the nitrifiers enrichment and species succession in activated sludge under extremely low dissolved oxygen. |
| [9] |
Guisasola A, Jubany I, Baeza JA, Carrera J, Lafuente J. 2005. Respirometric estimation of the oxygen affinity constants for biological ammonium and nitrite oxidation. |
| [10] |
Norton J, Ouyang Y. 2019. Controls and adaptive management of nitrification in agricultural soils. |
| [11] |
Jung MY, Sedlacek CJ, Kits KD, Mueller AJ, Rhee SK, et al. 2022. Ammonia-oxidizing archaea possess a wide range of cellular ammonia affinities. |
| [12] |
Liu R, Hayden HL, Suter H, Hu H, Lam SK, et al. 2017. The effect of temperature and moisture on the source of N2O and contributions from ammonia oxidizers in an agricultural soil. |
| [13] |
Hastings RC, Butler C, Singleton I, Saunders JR, McCarthy AJ. 2000. Analysis of ammonia-oxidizing bacteria populations in acid forest soil during conditions of moisture limitation. |
| [14] |
Nguyen LTT, Osanai Y, Anderson IC, Bange MP, Braunack M, et al. 2018. Impacts of waterlogging on soil nitrification and ammonia-oxidizing communities in farming system. |
| [15] |
Gao W, Fu Y, Fan C, Zhang W, Wang Y, et al. 2023. Factors predictive of the biogeographic distribution of comammox Nitrospira in terrestrial ecosystems. |
| [16] |
Chisholm C, Di HJ, Cameron K, Podolyan A, Shah A, et al. 2023. Soil moisture is a primary driver of comammox Nitrospira abundance in New Zealand soils. |
| [17] |
Di Capua F, Iannacone F, Sabba F, Esposito G. 2022. Simultaneous nitrification–denitrification in biofilm systems for wastewater treatment: key factors, potential routes, and engineered applications. |
| [18] |
Sharif Shourjeh M, Kowal P, Lu X, Xie L, Drewnowski J. 2021. Development of strategies for AOB and NOB competition supported by mathematical modeling in terms of successful deammonification implementation for energy-efficient WWTPs. |
| [19] |
Strickland JDH, Parsons TR. 1972. A Practical Handbook of Seawater Analysis. Ottawa, Canada: Fisheries Research Board of Canada. doi: 10.25607/OBP-1791 |
| [20] |
Miranda KM, Espey MG, Wink DA. 2001. A rapid, simple spectrophotometric method for simultaneous detection of nitrate and nitrite. |
| [21] |
Kandeler E, Gerber H. 1988. Short-term assay of soil urease activity using colorimetric determination of ammonium. |
| [22] |
Larionov A, Krause A, Miller W. 2005. A standard curve based method for relative real time PCR data processing. |
| [23] |
Glasel JA. 1995. Validity of nucleic acid purities monitored by 260nm/280nm absorbance ratios. BioTechniques 18:62−63 |
| [24] |
Cheng Y, Wang J, Wang SQ, Zhang JB, Cai ZC. 2014. Effects of soil moisture on gross N transformations and N2O emission in acid subtropical forest soils. |
| [25] |
Zheng W, Wu Q, Guo X, Zhou P, Wu J, et al. 2024. Rocky desertification succession alters soil microbial communities and survival strategies in the karst context. |
| [26] |
Morris KA, Saetre P, Norton U, Stark JM. 2022. Plant community effects on soil moisture and nitrogen cycling in a semi-arid ecosystem. |
| [27] |
Wang H, Yan Z, Ju X, Song X, Zhang J, et al. 2023. Quantifying nitrous oxide production rates from nitrification and denitrification under various moisture conditions in agricultural soils: laboratory study and literature synthesis. |
| [28] |
Mekala C, Nambi IM. 2017. Understanding the hydrologic control of N cycle: effect of water filled pore space on heterotrophic nitrification, denitrification and dissimilatory nitrate reduction to ammonium mechanisms in unsaturated soils. |
| [29] |
Pan B, Xia L, Lam SK, Wang E, Zhang Y, et al. 2022. A global synthesis of soil denitrification: driving factors and mitigation strategies. |
| [30] |
Bello MO, Thion C, Gubry-Rangin C, Prosser JI. 2019. Differential sensitivity of ammonia oxidising archaea and bacteria to matric and osmotic potential. |
| [31] |
Liang D, Ouyang Y, Tiemann L, Robertson GP. 2020. Niche differentiation of bacterial versus archaeal soil nitrifiers induced by ammonium inhibition along a management gradient. |
| [32] |
Ren B, Wang W, Shen L, Yang W, Yang Y, et al. 2023. Nitrogen fertilization rate affects communities of ammonia-oxidizing archaea and bacteria in paddy soils across different climatic zones of China. |
| [33] |
Fujitani H, Momiuchi K, Ishii K, Nomachi M, Kikuchi S, et al. 2020. Genomic and physiological characteristics of a novel nitrite-oxidizing Nitrospira strain isolated from a drinking water treatment plant. |
| [34] |
Ushiki N, Jinno M, Fujitani H, Suenaga T, Terada A, et al. 2017. Nitrite oxidation kinetics of two Nitrospira strains: the quest for competition and ecological niche differentiation. |
| [35] |
Yin Q, Sun Y, Li B, Feng Z, Wu G. 2022. The r/K selection theory and its application in biological wastewater treatment processes. |
| [36] |
Lücker S, Nowka B, Rattei T, Spieck E, Daims H. 2013. The genome of Nitrospina gracilis illuminates the metabolism and evolution of the major marine nitrite oxidizer. |
| [37] |
Sun H, Zhang H, Zhang F, Yang H, Lu J, et al. 2022. Response of substrate kinetics and biological mechanisms to various pH constrains for cultured Nitrobacter and Nitrospira in nitrifying bioreactor. |
| [38] |
Winkler MH, Boets P, Hahne B, Goethals P, Volcke EIP. 2017. Effect of the dilution rate on microbial competition: r-strategist can win over k-strategist at low substrate concentration. |
| [39] |
Giguere AT, Taylor AE, Suwa Y, Myrold DD, Bottomley PJ. 2017. Uncoupling of ammonia oxidation from nitrite oxidation: impact upon nitrous oxide production in non-cropped Oregon soils. |
| [40] |
Su Z, Liu T, Guo J, Zheng M. 2023. Nitrite oxidation in wastewater treatment: microbial adaptation and suppression challenges. |
| [41] |
Le LT, Lee S, Bui XT, Jahng D. 2020. Suppression of nitrite-oxidizing bacteria under the combined conditions of high free ammonia and low dissolved oxygen concentrations for mainstream partial nitritation. |
| [42] |
Daims H, Lücker S, Wagner M. 2016. A new perspective on microbes formerly known as nitrite-oxidizing bacteria. |
| [43] |
Pold G, Bonilla-Rosso G, Saghaï A, Strous M, Jones CM, et al. 2024. Phylogenetics and environmental distribution of nitric oxide-forming nitrite reductases reveal their distinct functional and ecological roles. |
| [44] |
Sun H, Jiang S. 2022. A review on nirS-type and nirK-type denitrifiers via a scientometric approach coupled with case studies. |
| [45] |
Leininger S, Urich T, Schloter M, Schwark L, Qi J, et al. 2006. Archaea predominate among ammonia-oxidizing prokaryotes in soils. |
| [46] |
Schauss K, Focks A, Leininger S, Kotzerke A, Heuer H, et al. 2009. Dynamics and functional relevance of ammonia-oxidizing archaea in two agricultural soils. |
| [47] |
Rotthauwe JH, Witzel KP, Liesack W. 1997. The ammonia monooxygenase structural gene amoA as a functional marker: molecular fine-scale analysis of natural ammonia-oxidizing populations. |
| [48] |
Vanparys B, Spieck E, Heylen K, Wittebolle L, Geets J, et al. 2007. The phylogeny of the genus Nitrobacter based on comparative rep-PCR, 16S rRNA and nitrite oxidoreductase gene sequence analysis. |
| [49] |
Pester M, Maixner F, Berry D, Rattei T, Koch H, et al. 2014. NxrB encoding the beta subunit of nitrite oxidoreductase as functional and phylogenetic marker for nitrite-oxidizing Nitrospira. |
| [50] |
Wang M, Huang G, Zhao Z, Dang C, Liu W, et al. 2018. Newly designed primer pair revealed dominant and diverse comammox amoA gene in full-scale wastewater treatment plants. |
| [51] |
Yan T, Fields MW, Wu L, Zu Y, Tiedje JM, et al. 2003. Molecular diversity and characterization of nitrite reductase gene fragments (nirK and nirS) from nitrate- and uranium-contaminated groundwater. |