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Isolation and survey of novel fluoroacetate-degrading bacteria belonging to the phylum Synergistetes

Davis, Carl K., Webb, Richard I., Sly, Lindsay I., Denman, Stuart E., McSweeney, Chris S.·2012·FEMS Microbiology Ecology
DOI 10.1111/j.1574-6941.2012.01338.x
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Abstract

Microbial dehalogenation of chlorinated compounds in anaerobic environments is well known, but the degradation of fluorinated compounds under similar conditions has rarely been described. Here, we report on the isolation of a bovine rumen bacterium that metabolizes fluoroacetate under anaerobic conditions, the mode of degradation and its presence in gut ecosystems. The bacterium was identified using 16S rRNA gene sequence analysis as belonging to the phylum Synergistetes and was designated strain MFA1. Growth was stimulated by amino acids with greater quantities of amino acids metabolized in the presence of fluoroacetate, but sugars were not fermented. Acetate, formate, propionate, isobutryate, isovalerate, ornithine and H(2) were end products of amino acid metabolism. Acetate was the primary end product of fluoroacetate dehalogenation, and the amount produced correlated with the stoichiometric release of fluoride which was confirmed using fluorine nuclear magnetic resonance ((19) F NMR) spectroscopy. Hydrogen and formate produced in situ were consumed during dehalogenation. The growth characteristics of strain MFA1 indicated that the bacterium may gain energy via reductive dehalogenation. This is the first study to identify a bacterium that can anaerobically dehalogenate fluoroacetate. Nested 16S rRNA gene-specific PCR assays detected the bacterium at low numbers in the gut of several herbivore species.

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Research works printed but not linked: 64

  1. Allison, 1990, Detection of ruminal bacteria that degrade toxic dihydroxypyridine compounds produced from mimosine, Appl Environ Microbiol, 56, 590, 10.1128/AEM.56.3.590-594.1990 · DOI
  2. Allison, 1992, Synergistes jonesii, gen. nov., sp. nov.: a rumen bacterium that degrades toxic pyridinediols, Syst Appl Microbiol, 15, 522, 10.1016/S0723-2020(11)80111-6 · DOI
  3. Altschul, 1990, Basic local alignment search tool, J Mol Biol, 215, 403, 10.1016/S0022-2836(05)80360-2 · DOI · Paper page
  4. Aplin, 1971, Distribution of alkaloids in some Western Australian plants, Econ Bot, 25, 366, 10.1007/BF02985203 · DOI
  5. Axley, 1990, Escherichia coli formate-hydrogen lyase - purification and properties of the selenium-dependent formate dehydrogenase component, J Biol Chem, 265, 18213, 10.1016/S0021-9258(17)44740-5 · DOI
  6. Baena, 1999, Aminomonas paucivorans gen. nov., sp. nov., a mesophilic anaerobic, amino-acid-utilizing bacterium, Int J Syst Bacteriol, 49, 975, 10.1099/00207713-49-3-975 · DOI
  7. Baron, 1987, Detection and measurement of fluoroacetate in plant-extracts by 19F NMR, Phytochemistry, 26, 2293, 10.1016/S0031-9422(00)84704-4 · DOI · Paper page
  8. Bhatt, 2007, Biodegradation of chlorinated compounds - a review, Crit Rev Environ Sci Technol, 37, 165, 10.1080/10643380600776130 · DOI
  9. Brosius, 1978, Complete nucleotide sequence of a 16S ribosomal RNA gene from Escherichia coli, P Natl Acad Sci USA, 75, 4801, 10.1073/pnas.75.10.4801 · DOI
  10. Bryant, 1972, Commentary on Hungate technique for culture of anaerobic bacteria, Am J Clin Nutr, 25, 1324, 10.1093/ajcn/25.12.1324 · DOI
  11. Cole, 2009, The Ribosomal Database Project: improved alignments and new tools for rRNA analysis, Nucleic Acids Res, 37, D141, 10.1093/nar/gkn879 · DOI
  12. Davis, 2011, Development of a colorimetric colony-screening assay for detection of defluorination by microorganisms, Lett Appl Microbiol, 53, 417, 10.1111/j.1472-765X.2011.03123.x · DOI
  13. DeSantis, 2006a, Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB, Appl Environ Microbiol, 72, 5069, 10.1128/AEM.03006-05 · DOI · Paper page
  14. DeSantis, 2006b, NAST: a multiple sequence alignment server for comparative analysis of 16S rRNA genes, Nucleic Acids Res, 34W, 394, 10.1093/nar/gkl244 · DOI
  15. Donnelly, 2009, Purification and properties of fluoroacetate dehalogenase from Pseudomonas fluorescens DSM 8341, Biotechnol Lett, 31, 245, 10.1007/s10529-008-9849-4 · DOI · Paper page
  16. Faudon, 1995, Peptide and amino-acid oxidation in the presence of thiosulfate by members of the genus Thermoanaerobacter, Curr Microbiol, 31, 152, 10.1007/BF00293546 · DOI
  17. Fetzner, 1998, Bacterial dehalogenation, Appl Microbiol Biotechnol, 50, 633, 10.1007/s002530051346 · DOI
  18. Ganesan, 2008, Cloacibacillus evryensis gen. nov., sp nov., a novel asaccharolytic, mesophilic, amino-acid-degrading bacterium within the phylum ‘Synergistetes’, isolated from an anaerobic sludge digester, Int J Syst Evol Microbiol, 58, 2003, 10.1099/ijs.0.65645-0 · DOI
  19. Godon, 2005, Rarity associated with specific ecological niches in the bacterial world: the ‘Synergistes’ example, Environ Microbiol, 7, 213, 10.1111/j.1462-2920.2004.00693.x · DOI
  20. Gregg, 1994, Detoxification of the plant toxin fluoroacetate by a genetically-modified rumen bacterium, Nat Biotechnol, 12, 1361, 10.1038/nbt1294-1361 · DOI
  21. Gregg, 1998, Genetically modified ruminal bacteria protect sheep from fluoroacetate poisoning, Appl Environ Microbiol, 64, 3496, 10.1128/AEM.64.9.3496-3498.1998 · DOI
  22. Harper, 2003, Natural Production of Organohalogen Compounds, 141, 10.1007/b10454 · DOI
  23. Hart, 1977, Mimosine, mimosinamine and 3,4-dihydroxypyridine, Heterocycles, 7, 265, 10.3987/S-1977-01-0265 · DOI
  24. Hordijk, 1990, Trace determination of lower volatile fatty-acids in sediments by gas-chromatography with chemically bonded FFAP columns, J Chromatogr, 511, 317, 10.1016/S0021-9673(01)93294-7 · DOI
  25. Horz, 2006, Synergistes group organisms of human origin, J Clin Microbiol, 44, 2914, 10.1128/JCM.00568-06 · DOI
  26. Huber, 2004, Bellerophon: a program to detect chimeric sequences in multiple sequence alignments, Bioinformatics, 20, 2317, 10.1093/bioinformatics/bth226 · DOI
  27. Hungate, 1969, Methods in Microbiology, 117
  28. Ichiyama, 2004, Reactivity of asparagine residue at the active site of the D105N mutant of fluoroacetate dehalogenase from Moraxella sp B, Biochim Biophys Acta, 1698, 27, 10.1016/j.bbapap.2003.10.002 · DOI
  29. Innis, 1990, Optimization of PCRs, 10.1016/B978-0-12-372180-8.50005-6 · DOI
  30. Janssen, 1989, Cloning of 1,2-dichloroethane degradation genes of Xanthobacter autotrophicus GJ10 and expression and sequencing of the dhlA gene, J Bacteriol, 171, 6791, 10.1128/jb.171.12.6791-6799.1989 · DOI
  31. Jumas-Bilak, 2007, Jonquetella anthropi gen. nov., sp. nov., the first member of the candidate phylum ‘Synergistetes’ isolated from man, Int J Syst Evol Microbiol, 57, 2743, 10.1099/ijs.0.65213-0 · DOI
  32. Kim, 2000, Biodegradability of trifluoroacetic acid, Environ Eng Sci, 17, 337, 10.1089/ees.2000.17.337 · DOI · Paper page
  33. King, 1996, The tolerance of Mallee fowl Leipoa ocellata to 1080, Emu, 96, 198, 10.1071/MU9960198 · DOI
  34. Kovarova, 2008, Perfluorinated compounds: occurrence and risk profile, Neuro Endocrinol Lett, 29, 599
  35. Kromer, 2005, In vivo quantification of intracellular amino acids and intermediates of the methionine pathway in Corynebacterium glutamicum, Anal Biochem, 340, 171, 10.1016/j.ab.2005.01.027 · DOI
  36. Kurihara, 2003, Purification, characterization, and gene cloning of a novel fluoroacetate dehalogenase from Burkholderia sp. FA1, J Mol Catal B Enzym, 23, 347, 10.1016/S1381-1177(03)00098-5 · DOI · Paper page
  37. Liu, 1998, Reaction mechanism of fluoroacetate dehalogenase from Moraxella sp. B, J Biol Chem, 273, 30897, 10.1074/jbc.273.47.30897 · DOI · Paper page
  38. Loffler, 2006, Harnessing microbial activities for environmental cleanup, Curr Opin Biotechnol, 17, 274, 10.1016/j.copbio.2006.05.001 · DOI
  39. Ludwig, 2004, ARB: a software environment for sequence data, Nucleic Acids Res, 32, 1363, 10.1093/nar/gkh293 · DOI
  40. Marchandin, 2010, Phylogeny, diversity and host specialization in the phylum Synergistetes with emphasis on strains and clones of human origin, Res Microbiol, 161, 91, 10.1016/j.resmic.2009.12.008 · DOI
  41. McIlroy, 1982, The sensitivity of Australian animals to 1080 poison. 3. Marsupial and eutherian herbivores, Aust Wildl Res, 9, 487, 10.1071/WR9820487 · DOI
  42. McSweeney, 1993, Amino-acid utilization by the ruminal bacterium Synergistes jonesii strain 78-1, Arch Microbiol, 159, 131, 10.1007/BF00250272 · DOI
  43. McSweeney, 2005, Methods in gut microbial ecology for ruminants, 23, 10.1007/1-4020-3791-0_2 · DOI
  44. Murphy, 2007, The application of 19F nuclear magnetic resonance to investigate microbial biotransformations of organofluorine compounds, OMICS, 11, 314, 10.1089/omi.2007.0002 · DOI
  45. Natarajan, 2005, Microbial cleavage of C-F bond, J Fluorine Chem, 126, 425, 10.1016/j.jfluchem.2004.12.001 · DOI
  46. Nwude, 1977, Nigerian plants that may cause poisoning in livestock, Vet Bull, 47, 811
  47. Padmanabha, 2004, Protection of cattle from fluoroacetate poisoning by genetically modified ruminal bacteria, Anim Prod Aust, 25, 293
  48. Peters, 1953, Biochemistry of fluoroacetate poisoning - the isolation and some properties of the fluorotricarboxylic acid inhibitor of citrate metabolism, P Roy Soc Lond B Biol Sci, 140, 497, 10.1098/rspb.1953.0004 · DOI
  49. Plugge, 2001, Arginine catabolism by Thermanaerovibrio acidaminovorans, FEMS Microbiol Lett, 195, 259, 10.1111/j.1574-6968.2001.tb10530.x · DOI
  50. Postgate, 1984, The sulfate-reducing bacteria
  51. Rees, 1997, Anaerobaculum thermoterrenum gen. nov., sp. nov., a novel, thermophilic bacterium which ferments citrate, Int J Syst Bacteriol, 47, 150, 10.1099/00207713-47-1-150 · DOI
  52. Skoog, 1996, Fundamentals of Analytical Chemistry, 850
  53. Slater, 1997, Microbial dehalogenation of halogenated alkanoic acids, alcohols and alkanes, Adv Microb Physiol, 38, 133, 10.1016/S0065-2911(08)60157-5 · DOI
  54. Stamatakis, 2008, A rapid bootstrap algorithm for the RAxML web servers, Syst Biol, 57, 758, 10.1080/10635150802429642 · DOI · Paper page
  55. Stams, 1984, Fermentation of glutamate and other compounds by Acidaminobacter hydrogenoformans gen. nov., sp. nov., an obligate anaerobe isolated from black mud - studies with pure cultures and mixed cultures with sulfate-reducing and methanogenic bacteria, Arch Microbiol, 137, 329, 10.1007/BF00410730 · DOI
  56. Surkov, 2001, Dethiosulfovibrio russensis sp. nov., Dethiosulfovibrio marinus sp. nov. and Dethiosulfovibrio acidaminovorans sp. nov., novel anaerobic, thiosulfate- and sulfur-reducing bacteria isolated from ‘Thiodendron’ sulfur mats in different saline environments, Int J Syst Evol Microbiol, 51, 327, 10.1099/00207713-51-2-327 · DOI
  57. Twigg, 1991, The impact of fluoroacetate-bearing vegetation on native-australian fauna - a review, Oikos, 61, 412, 10.2307/3545249 · DOI
  58. Twigg, 1988, Tolerance to, and metabolism of, fluoroacetate in the emu, Aust Wildl Res, 15, 239, 10.1071/WR9880239 · DOI
  59. Visscher, 1994, Degradation of trifluoroacetate in oxic and anoxic sediments, Nature, 369, 729, 10.1038/369729a0 · DOI · Paper page
  60. Weisburg, 1991, 16S ribosomal DNA amplification for phylogenetic study, J Bacteriol, 173, 697, 10.1128/jb.173.2.697-703.1991 · DOI
  61. Yoshida, 2005, Phylogenetic characterization of a polychlorinated-dioxin-dechlorinating microbial community by use of microcosm studies, Appl Environ Microbiol, 71, 4325, 10.1128/AEM.71.8.4325-4334.2005 · DOI
  62. Zehnder, 1976, Titanium(III) citrate as a nontoxic oxidation-reduction buffering system for culture of obligate anaerobes, Science, 194, 1165, 10.1126/science.793008 · DOI
  63. Zhang, 2004, Homology modeling and SN2 displacement reaction of fluoroacetate dehalogenase from Burkholderia sp. FA1, Biochem Biophys Res Commun, 325, 414, 10.1016/j.bbrc.2004.10.044 · DOI · Paper page
  64. Zindel, 1988, Eubacterium acidaminophilum sp. nov., a versatile amino acid-degrading anaerobe producing or utilizing H2 or formate-description and enzymatic studies, Arch Microbiol, 150, 254, 10.1007/BF00407789 · DOI

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Metadata

Authors
Davis, C. K., Webb, R. I., Sly, L. I., Denman, S. E., & McSweeney, C. S.
Affiliations
  • Centre for Microscopy and Microanalysis; University of Queensland; St Lucia; Qld; Australia
  • School of Chemistry and Molecular Biosciences; University of Queensland; St Lucia; Qld; Australia
  • CSIRO Livestock Industries; Queensland Bioscience Precinct; St Lucia; Qld; Australia
Venue
FEMS Microbiology Ecology
Publisher
Oxford University Press (OUP)
Published
2012-03-20
Volume
80
Issue
3
Pages
671-684
ISSN
0168-6496
DOI
10.1111/j.1574-6941.2012.01338.x
Cited by
61
References
0
Language
en

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CoChat. (2026). Citation check: Isolation and survey of novel fluoroacetate-degrading bacteria belonging to the phylum Synergistetes. https://app.cochat.ai/papers/10.1111/j.1574-6941.2012.01338.x
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Davis, C. K., Webb, R. I., Sly, L. I., Denman, S. E., & McSweeney, C. S. (2012). Isolation and survey of novel fluoroacetate-degrading bacteria belonging to the phylum Synergistetes. FEMS Microbiology Ecology. https://doi.org/10.1111/j.1574-6941.2012.01338.x