The DOI matches its Crossref record; 50 of the 50 references it cites were found in a registry or an index.
Fungal denitrification and nitric oxide reductase cytochrome P450nor
Open accessAbstract
We have shown that many fungi (eukaryotes) exhibit distinct denitrifying activities, although occurrence of denitrification was previously thought to be restricted to bacteria (prokaryotes), and have characterized the fungal denitrification system. It comprises NirK (copper-containing nitrite reductase) and P450nor (a cytochrome P450 nitric oxide (NO) reductase (Nor)) to reduce nitrite to nitrous oxide (N(2)O). The system is localized in mitochondria functioning during anaerobic respiration. Some fungal systems further contain and use dissimilatory and assimilatory nitrate reductases to denitrify nitrate. Phylogenetic analysis of nirK genes showed that the fungal-denitrifying system has the same ancestor as the bacterial counterpart and suggested a possibility of its proto-mitochondrial origin. By contrast, fungi that have acquired a P450 from bacteria by horizontal transfer of the gene, modulated its function to give a Nor activity replacing the original Nor with P450nor. P450nor receives electrons directly from nicotinamide adenine dinucleotide to reduce NO to N(2)O. The mechanism of this unprecedented electron transfer has been extensively studied and thoroughly elucidated. Fungal denitrification is often accompanied by a unique phenomenon, co-denitrification, in which a hybrid N(2) or N(2)O species is formed upon the combination of nitrogen atoms of nitrite with a nitrogen donor (amines and imines). Possible involvement of NirK and P450nor is suggested.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
In the citing paper
“Importantly, multiple fungal species, including the ubiquitous Candida, contain a fungal nitrate reductase enzyme and are known nitrate-reducers in the environment[229,230].”
From Enterosalivary nitrate metabolism and the microbiome: Intersection of microbial metabolism, nitric oxide and diet in cardiac and pulmonary vascular health (2017) · cites this paper as [230]
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
Cell biology and molecular basis of denitrification
Zumft, W. G. (1997) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.61.4.533-616.1997 · Cited by 3,560
Missing lithotroph identified as new planctomycete
Strous, M., Fuerst, J. A., Kramer, E. H. M., Logemann, S., Gerard Muyzer, C., van de Pas-Schoonen, K. T., Webb, R. I., Kuenen, J. G., & Jetten, M. S. M. (1999) · Nature · doi:10.1038/22749 · Cited by 1,578
Berks, B. C., Ferguson, S. J., Moir, J. W. B., & Richardson, D. J. (1995) · Biochimica et Biophysica Acta (BBA) - Bioenergetics · doi:10.1016/0005-2728(95)00092-5 · Cited by 596
Dissimilatory Nitrite and Nitric Oxide Reductases
Averill, B. A. (1996) · Chemical Reviews · doi:10.1021/cr950056p · Cited by 545
Evidence for Fungal Dominance of Denitrification and Codenitrification in a Grassland Soil
Laughlin, R. J., & Stevens, R. J. (2002) · Soil Science Society of America Journal · doi:10.2136/sssaj2002.1540 · Cited by 425
Shoun, H., Kim, D., Uchiyama, H., & Sugiyama, J. (1992) · FEMS Microbiology Letters · doi:10.1111/j.1574-6968.1992.tb05331.x · Cited by 422
Mitochondria as we don't know them
Tielens, A. G. M., Rotte, C., van Hellemond, J. J., & Martin, W. F. (2002) · Trends in Biochemical Sciences · doi:10.1016/s0968-0004(02)02193-x · Cited by 375
Shoun, H., & Tanimoto, T. (1991) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(18)99130-1 · Cited by 254
Nakahara, K., Tanimoto, T., Hatano, K., Usuda, K., & Shoun, H. (1993) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(18)53102-1 · Cited by 249
Spectroscopic and Kinetic Studies on Reaction of Cytochrome P450nor with Nitric Oxide
Shiro, Y., Fujii, M., Iizuka, T., Adachi, S., Tsukamoto, K., Nakahara, K., & Shoun, H. (1995) · Journal of Biological Chemistry · doi:10.1074/jbc.270.4.1617 · Cited by 205
Crystal structure of nitric oxide reductase from denitrifying fungus Fusarium oxysporum
Park, S., Shimizu, H., Adachi, S., Nakagawa, A., Tanaka, I., Nakahara, K., Shoun, H., OBAYASHI, E., Nakamura, H., lizuka, T., et al. (1997) · Nature Structural Biology · doi:10.1038/nsb1097-827 · Cited by 188
Isotopologue fractionation during N 2 O production by fungal denitrification
Sutka, R. L., Adams, G. C., Ostrom, N. E., & Ostrom, P. H. (2008) · Rapid Communications in Mass Spectrometry · doi:10.1002/rcm.3820 · Cited by 184
Denitrification, a Novel Type of Respiratory Metabolism in Fungal Mitochondrion
Kobayashi, M., Matsuo, Y., Takimoto, A., Suzuki, S., Maruo, F., & Shoun, H. (1996) · Journal of Biological Chemistry · doi:10.1074/jbc.271.27.16263 · Cited by 184
Ferguson, S. J. (1998) · Current Opinion in Chemical Biology · doi:10.1016/s1367-5931(98)80059-8 · Cited by 174
Ammonia Fermentation, a Novel Anoxic Metabolism of Nitrate by Fungi
Zhou, Z., Takaya, N., Nakamura, A., Yamaguchi, M., Takeo, K., & Shoun, H. (2002) · Journal of Biological Chemistry · doi:10.1074/jbc.m109096200 · Cited by 149
Lehnert, N., Praneeth, V. K. K., & Paulat, F. (2006) · Journal of Computational Chemistry · doi:10.1002/jcc.20400 · Cited by 121
Kizawa, H., Tomura, D., Oda, M., Fukamizu, A., Hoshino, T., Gotoh, O., Yasui, T., & Shoun, H. (1991) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(18)99270-7 · Cited by 121
Anaerobic denitrification in fungi from the coastal marine sediments off Goa, India
Manohar, C. S., & Raghukumar, C. (2008) · Mycological Research · doi:10.1016/j.mycres.2008.08.009 · Cited by 114
Structural diversity of cytochrome P450 enzyme system
Omura, T. (2010) · The Journal of Biochemistry · doi:10.1093/jb/mvq001 · Cited by 112
Usuda, K., Toritsuka, N., Matsuo, Y., Kim, D. H., & Shoun, H. (1995) · Applied and Environmental Microbiology · doi:10.1128/aem.61.3.883-889.1995 · Cited by 107
Proton Delivery in NO Reduction by Fungal Nitric-oxide Reductase
Shimizu, H., OBAYASHI, E., Gomi, Y., Arakawa, H., Park, S., Nakamura, H., Adachi, S., Shoun, H., & Shiro, Y. (2000) · Journal of Biological Chemistry · doi:10.1074/jbc.275.7.4816 · Cited by 107
Kobayashi, M., & Shoun, H. (1995) · Journal of Biological Chemistry · doi:10.1074/jbc.270.8.4146 · Cited by 94
Co-denitrification by the denitrifying system of the fungusFusarium oxysporum
Tanimoto, T., Hatano, K.-I., Kim, D.-H., Uchiyama, H., & Shoun, H. (1992) · FEMS Microbiology Letters · doi:10.1111/j.1574-6968.1992.tb05086.x · Cited by 90
Isotope effects and intermediates in the reduction of NO by P450NOR
Daiber, A., Nauser, T., Takaya, N., Kudo, T., Weber, P. B., Hultschig, C., Shoun, H., & Ullrich, V. (2002) · Journal of Inorganic Biochemistry · doi:10.1016/s0162-0134(01)00386-5 · Cited by 90
Uchimura, H., Enjoji, H., Seki, T., Taguchi, A., Tsakaya, N., & Shoun, H. (2002) · The Journal of Biochemistry · doi:10.1093/oxfordjournals.jbchem.a003137 · Cited by 84
Structural Evidence for Direct Hydride Transfer from NADH to Cytochrome P450nor
Oshima, R., Fushinobu, S., Su, F., Li, Z., Takaya, N., & Shoun, H. (2004) · Journal of Molecular Biology · doi:10.1016/j.jmb.2004.07.009 · Cited by 83
Identification ofHistoplasma capsulatumTranscripts Induced in Response to Reactive Nitrogen Species
Nittler, M. P., Murray, D. H., Foo, C. K., & Sil, A. (2005) · Molecular Biology of the Cell · doi:10.1091/mbc.e05-05-0434 · Cited by 80
Kumon, Y., Sasaki, Y., Kato, I., Takaya, N., Shoun, H., & Beppu, T. (2002) · Journal of Bacteriology · doi:10.1128/jb.184.11.2963-2968.2002 · Cited by 70
Takaya, N., Suzuki, S., Kuwazaki, S., Shoun, H., Maruo, F., Yamaguchi, M., & Takeo, K. (1999) · Archives of Biochemistry and Biophysics · doi:10.1006/abbi.1999.1499 · Cited by 69
Denitrification by yeasts and occurrence of cytochrome P450nor in Trichosporon cutaneum
Tsuruta, S., Takaya, N., Zhang, L., Shoun, H., Kimura, K., Hamamoto, M., & Nakase, T. (1998) · FEMS Microbiology Letters · doi:10.1111/j.1574-6968.1998.tb13262.x · Cited by 69
Kim, S.-W., Fushinobu, S., Zhou, S., Wakagi, T., & Shoun, H. (2009) · Applied and Environmental Microbiology · doi:10.1128/aem.02536-08 · Cited by 64
Purification and Properties of a Cyotchrome P-450 of a Fungus, Fusarium oxysporum
Shoun, H., Sudo, Y., Seto, Y., & Beppu, T. (1983) · The Journal of Biochemistry · doi:10.1093/oxfordjournals.jbchem.a134467 · Cited by 63
Kudo, T., Tomura, D., Liu, D. L., Dai, X. Q., & Shoun, H. (1996) · Biochimie · doi:10.1016/s0300-9084(97)82538-2 · Cited by 51
Soluble, nitrate/nitrite‐inducible cytochrome P‐450 of the fungus, Fusarium oxysporum
Shoun, H., Suyama, W., & Yasui, T. (1989) · FEBS Letters · doi:10.1016/0014-5793(89)81151-2 · Cited by 49
Takaya, N., & Shoun, H. (2000) · Molecular and General Genetics MGG · doi:10.1007/s004380051177 · Cited by 49
Hybrid Respiration in the Denitrifying Mitochondria of Fusarium oxysporum
Takaya, N. (2003) · The Journal of Biochemistry · doi:10.1093/jb/mvg060 · Cited by 47
Soil Formate Regulates the Fungal Nitrous Oxide Emission Pathway
K., W., Farrell, R. E., & Siciliano, S. D. (2008) · Applied and Environmental Microbiology · doi:10.1128/aem.00797-08 · Cited by 45
Kudo, T., Takaya, N., Park, S., Shiro, Y., & Shoun, H. (2001) · Journal of Biological Chemistry · doi:10.1074/jbc.m007244200 · Cited by 43
Nakahara, K., & Shoun, H. (1996) · The Journal of Biochemistry · doi:10.1093/oxfordjournals.jbchem.a021525 · Cited by 38
Denitrification of Nitrate by the FungusCylindrocarpon tonkinense
Watsuji, T., Takaya, N., Nakamura, A., & Shoun, H. (2003) · Bioscience Biotechnology and Biochemistry · doi:10.1271/bbb.67.1115 · Cited by 35
Multi-Energy Metabolic Mechanisms of the FungusFusarium oxysporumin Low Oxygen Environments
Zhou, Z., Takaya, N., & Shoun, H. (2010) · Bioscience Biotechnology and Biochemistry · doi:10.1271/bbb.100482 · Cited by 33
Nitrous Oxide-forming Codenitrification Catalyzed by Cytochrome P450nor
Su, F., Takaya, N., & Shoun, H. (2004) · Bioscience Biotechnology and Biochemistry · doi:10.1271/bbb.68.473 · Cited by 30
The B′ Helix Determines Cytochrome P450nor Specificity for the Electron Donors NADH and NADPH
Li, Z., Kudo, T., Takaya, N., & Shoun, H. (2002) · Journal of Biological Chemistry · doi:10.1074/jbc.m203923200 · Cited by 30
Sang-Wan, K. I. M., Fushinobu, S., Zhou, S., Wakagi, T., & Shoun, H. (2010) · Bioscience Biotechnology and Biochemistry · doi:10.1271/bbb.100071 · Cited by 21
Umemura, M., Su, F., Takaya, N., Shiro, Y., & Shoun, H. (2004) · European Journal of Biochemistry · doi:10.1111/j.1432-1033.2004.04206.x · Cited by 15
Formate-forming Fungal Catabolic Pathway to Supply Electrons to Nitrate Respiration
Kuwazaki, S., Takaya, N., Nakamura, A., & Shoun, H. (2003) · Bioscience Biotechnology and Biochemistry · doi:10.1271/bbb.67.937 · Cited by 15
Co-denitrification by the denitrifying system of the fungus Fusarium oxysporum
Tanimoto, T. (1992) · FEMS Microbiology Letters · doi:10.1016/0378-1097(92)90525-s · Cited by 12
Watsuji, T., Takaya, N., Nakamura, A., & Shoun, H. (2003) · Bioscience Biotechnology and Biochemistry · doi:10.1271/bbb.67.1109 · Cited by 11
Involvement of a Glu71–Arg64 Couple in the Access Channel for NADH in Cytochrome P450nor
Su, F., Fushinobu, S., Takaya, N., & Shoun, H. (2004) · Bioscience Biotechnology and Biochemistry · doi:10.1271/bbb.68.1156 · Cited by 8
Kubota, Y., Takaya, N., & Shoun, H. (1999) · Archives of Microbiology · doi:10.1007/s002030050701 · Cited by 7
Cited by
Sorted by citations
The microbial nitrogen-cycling network
Kuypers, M. M. M., Marchant, H. K., & Kartal, B. (2018) · Nature Reviews Microbiology · doi:10.1038/nrmicro.2018.9 · Cited by 4,563
Hu, H., Chen, D., & He, J. (2015) · FEMS Microbiology Reviews · doi:10.1093/femsre/fuv021 · Cited by 825
“to N2O (Shoun et al. 2012).”
Genomics and Ecology of Novel N2O-Reducing Microorganisms
Hallin, S., Philippot, L., Löffler, F. E., Sanford, R. A., & Jones, C. M. (2017) · Trends in Microbiology · doi:10.1016/j.tim.2017.07.003 · Cited by 655
Fungal traits that drive ecosystem dynamics on land
Treseder, K. K., & Lennon, J. T. (2015) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.00001-15 · Cited by 625
Role of organic amendment application on greenhouse gas emission from soil
Thangarajan, R., Bolan, N. S., Tian, G., Naidu, R., & Kunhikrishnan, A. (2013) · The Science of The Total Environment · doi:10.1016/j.scitotenv.2013.01.031 · Cited by 533
“In general, more than 60 genera of bacteria, Archaea, fungi, and yeast can perform denitrification (Cabello et al., 2004; Philippot et al., 2007; Shoun et al., 2012; Watanabe et al., 2009) with most soil denitrifiers falling under four major genera: Pseudomonas, Bacillus, Alcaligenes, and Flavobacterium (Tiedje, 1988).”
Background
Metadata
- Authors
- Shoun, H., Fushinobu, S., Jiang, L., Kim, S.-W., & Wakagi, T.
- Affiliations
- The University of Tokyo (JP)
- Department of Biotechnology, Graduate School of Agricultural and Life Sciences, The University of Tokyo, Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan
- Venue
- Philosophical Transactions of the Royal Society B Biological Sciences
- Publisher
- The Royal Society
- Published
- 2012-05-05
- Volume
- 367
- Issue
- 1593
- Pages
- 1186-1194
- ISSN
- 0962-8436 (ISSN-L)
- 1471-2970
- PMC
- PMC3306627
- OpenAlex
- W2127344845
- Cited by
- 256
- References
- 50
- Citations by year
- 2026: 17 · 2025: 14 · 2024: 22 · 2023: 20 · 2022: 20 · 2021: 24 · 2020: 17 · 2019: 23 · 2018: 19 · 2017: 14 · 2016: 26 · 2015: 15 · 2014: 10 · 2013: 13 · 2012: 2
- FWCI
- 1.14
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- Philosophical Transactions of the Royal Society B Biological Sciences (publishedVersion)
- Europe PMC (PubMed Central) (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Funders
- University of Tokyo
- University of Tsukuba
- Chiba University
- Universität Konstanz
- Japan Society for the Promotion of Science (20248009)
- Topics
- Physical Sciences › Environmental Science › Pollution › Wastewater Treatment and Nitrogen Removal
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Fungal and yeast genetics research
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Microbial metabolism and enzyme function
- Keywords
- fungal denitrification, nitric oxide reductase, nirK, nitrite reductase, nitrous oxide, anaerobic respiration, mitochondrial electron transport chain, horizontal gene transfer, phylogenetic analysis, nitrate reductase
- MeSH terms
- Cytochrome P-450 Enzyme System, Fungi, Models, Molecular, Nitric Oxide, Nitrite Reductases, Nitrous Oxide, Denitrification
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
