Identification and widespread environmental distribution of a gene cassette implicated in anaerobic dichloromethane degradation

Murdoch, Robert W.; Chen, Gao; Murdoch, Fadime Kara; Mack, E. Erin; Villalobos Solis, Manuel I.; Hettich, Robert L.; Löffler, Frank E.

doi:10.1111/gcb.16068

Title: Identification and widespread environmental distribution of a gene cassette implicated in anaerobic dichloromethane degradation

Journal Article · 29 December 2021 · Global Change Biology

DOI: https://doi.org/10.1111/gcb.16068 · OSTI ID:1843692

Murdoch, Robert W. ^[1]; Chen, Gao ^[1]; Murdoch, Fadime Kara ^[2]; Mack, E. Erin ^[3]; Villalobos Solis, Manuel I. ^[4];

^[4];

^[2]

Univ. of Tennessee, Knoxville, TN (United States)
Univ. of Tennessee, Knoxville, TN (United States); Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
Corteva Agriscience, Wilmington, DE (United States)
Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)

Anthropogenic activities and natural processes release dichloromethane (DCM, methylene chloride), a toxic chemical with substantial ozone-depleting capacity. Specialized anaerobic bacteria metabolize DCM; however, the genetic basis for this process has remained elusive. Comparative genomics of the three known anaerobic DCM-degrading bacterial species revealed a homologous gene cluster, designated the methylene chloride catabolism (mec) gene cassette, comprising 8–10 genes encoding proteins with 79.6%–99.7% amino acid identities. Functional annotation identified genes encoding a corrinoid-dependent methyltransferase system, and shotgun proteomics applied to two DCM-catabolizing cultures revealed high expression of proteins encoded on the mec gene cluster during anaerobic growth with DCM. In a DCM-contaminated groundwater plume, the abundance of mec genes strongly correlated with DCM concentrations (R² = 0.71–0.85) indicating their potential value as process-specific bioremediation biomarkers. mec gene clusters were identified in metagenomes representing peat bogs, the deep subsurface, and marine ecosystems including oxygen minimum zones (OMZs), suggesting a capacity for DCM degradation in diverse habitats. Here, the broad distribution of anaerobic DCM catabolic potential infers a role for DCM as an energy source in various environmental systems, and implies that the global DCM flux (i.e., the rate of formation minus the rate of consumption) might be greater than emission measurements suggest.

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Research Organization:: Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States)

Sponsoring Organization:: USDOE

Grant/Contract Number:: AC05-00OR22725

OSTI ID:: 1843692

Journal Information:: Global Change Biology, Journal Name: Global Change Biology Journal Issue: 7 Vol. 28; ISSN 1354-1013

Publisher:: WileyCopyright Statement

Country of Publication:: United States

Language:: English

References (98)

Vanadium Chloroperoxidases: The Missing Link in the Formation of Chlorinated Compounds and Chloroform in the Terrestrial Environment? Wever, Ron; Barnett, Phil Chemistry - An Asian Journal, Vol. 12, Issue 16 https://doi.org/10.1002/asia.201700420	journal	July 2017
Anaerobic methane oxidation is an important sink for methane in the ocean's largest oxygen minimum zone Thamdrup, Bo; Steinsdóttir, Herdís G. R.; Bertagnolli, Anthony D. Limnology and Oceanography, Vol. 64, Issue 6 https://doi.org/10.1002/lno.11235	journal	May 2019
Volatile organic compounds in solfataric gases Isidorov, V. A.; Zenkevich, I. G.; Ioffe, B. V. Journal of Atmospheric Chemistry, Vol. 10, Issue 3 https://doi.org/10.1007/BF00053867	journal	April 1990
Isolation and characterization of Dehalobacterium formicoaceticum gen. nov. sp. nov., a strictly anaerobic bacterium utilizing dichloromethane as source of carbon and energy Mägli, Andreas; Wendt, Matthias; Leisinger, T. Archives of Microbiology, Vol. 166, Issue 2 https://doi.org/10.1007/s002030050362	journal	August 1996
Methane, hydrogen chloride and oxygen form a wide range of chlorinated organic species in the temperature range 400°C–950°C Eklund, Göran; Pedersen, Jörgen R.; Strömberg, Birgitta Chemosphere, Vol. 17, Issue 3 https://doi.org/10.1016/0045-6535(88)90032-X	journal	January 1988
Thermal and catalysed halogenation in combustion reactions Kanters, Jacqueline; Louw, Robert Chemosphere, Vol. 32, Issue 1 https://doi.org/10.1016/0045-6535(95)00230-8	journal	January 1996
An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database Eng, Jimmy K.; McCormack, Ashley L.; Yates, John R. Journal of the American Society for Mass Spectrometry, Vol. 5, Issue 11 https://doi.org/10.1016/1044-0305(94)80016-2	journal	November 1994
Terrestrial sources and sinks of halomethanes near Cape Grim, Tasmania Cox, Michelle L.; Fraser, Paul J.; Sturrock, Georgina A. Atmospheric Environment, Vol. 38, Issue 23 https://doi.org/10.1016/J.ATMOSENV.2004.03.050	journal	July 2004
Determination of chloromethane and dichloromethane in a tropical terrestrial mangrove forest in Brazil by measurements and modelling Kolusu, S. R.; Schlünzen, K. H.; Grawe, D. Atmospheric Environment, Vol. 173 https://doi.org/10.1016/J.ATMOSENV.2017.10.057	journal	January 2018
Distribution of glutathione transferases in Gram-positive bacteria and Archaea Allocati, Nerino; Federici, Luca; Masulli, Michele Biochimie, Vol. 94, Issue 3 https://doi.org/10.1016/J.BIOCHI.2011.09.008	journal	March 2012
A new purge and trap headspace technique to analyze low volatile compounds from fluid inclusions of rocks and minerals Mulder, Ines; Huber, Stefan G.; Krause, Torsten Chemical Geology, Vol. 358 https://doi.org/10.1016/J.CHEMGEO.2013.09.003	journal	November 2013
Siberian gas venting and the end-Permian environmental crisis Svensen, Henrik; Planke, Sverre; Polozov, Alexander G. Earth and Planetary Science Letters, Vol. 277, Issue 3-4 https://doi.org/10.1016/J.EPSL.2008.11.015	journal	January 2009
Integral membrane proteins in proteomics. How to break open the black box? Vit, O.; Petrak, J. Journal of Proteomics, Vol. 153 https://doi.org/10.1016/J.JPROT.2016.08.006	journal	February 2017
Dichloromethane in the Indian Ocean: Evidence for in-situ production in seawater Ooki, Atsushi; Yokouchi, Yoko Marine Chemistry, Vol. 124, Issue 1-4 https://doi.org/10.1016/J.MARCHEM.2011.01.001	journal	March 2011
Dichloromethane-degrading bacteria in the genomic age Muller, Emilie E. L.; Bringel, Françoise; Vuilleumier, Stéphane Research in Microbiology, Vol. 162, Issue 9 https://doi.org/10.1016/J.RESMIC.2011.01.008	journal	November 2011
Global wetlands: Potential distribution, wetland loss, and status Hu, Shengjie; Niu, Zhenguo; Chen, Yanfen Science of The Total Environment, Vol. 586 https://doi.org/10.1016/J.SCITOTENV.2017.02.001	journal	May 2017
Kinetic properties of NhaB, a Na+/H+ antiporter from Escherichia coli Pinner, E.; Padan, E.; Schuldiner, S. Journal of Biological Chemistry, Vol. 269, Issue 42 https://doi.org/10.1016/S0021-9258(18)47190-6	journal	October 1994
Basic local alignment search tool Altschul, Stephen F.; Gish, Warren; Miller, Webb Journal of Molecular Biology, Vol. 215, Issue 3, p. 403-410 https://doi.org/10.1016/S0022-2836(05)80360-2	journal	October 1990
Basic local alignment search tool Altschul, Stephen F.; Gish, Warren; Miller, Webb Journal of Molecular Biology, Vol. 215, Issue 3 https://doi.org/10.1016/S0022‐2836(05)80360‐2	journal	October 1990
Natural Production Of Chloroform By Fungi Hoekstra, Eddo J.; Verhagen, Frank J. M.; Field, Jim A. Phytochemistry, Vol. 49, Issue 1 https://doi.org/10.1016/S0031-9422(97)00984-9	journal	September 1998
Enrichment, Cultivation, and Detection of Reductively Dechlorinating Bacteria Löffler, Frank E.; Sanford, Robert A.; Ritalahti, Kirsti M. Methods in Enzymology https://doi.org/10.1016/S0076-6879(05)97005-5	book	January 2005
Biogenic fluxes of halomethanes from Irish peatland ecosystems Dimmer, Claudia H.; Simmonds, Peter G.; Nickless, Graham Atmospheric Environment, Vol. 35, Issue 2 https://doi.org/10.1016/S1352-2310(00)00151-5	journal	January 2001
Terrestrial sources and sinks of halomethanes near Cape Grim, Tasmania Cox, Michelle L.; Fraser, Paul J.; Sturrock, Georgina A. Atmospheric Environment, Vol. 38, Issue 23 https://doi.org/10.1016/j.atmosenv.2004.03.050	journal	July 2004
Determination of chloromethane and dichloromethane in a tropical terrestrial mangrove forest in Brazil by measurements and modelling Kolusu, S. R.; Schlünzen, K. H.; Grawe, D. Atmospheric Environment, Vol. 173 https://doi.org/10.1016/j.atmosenv.2017.10.057	journal	January 2018
Distribution of glutathione transferases in Gram-positive bacteria and Archaea Allocati, Nerino; Federici, Luca; Masulli, Michele Biochimie, Vol. 94, Issue 3 https://doi.org/10.1016/j.biochi.2011.09.008	journal	March 2012
A new purge and trap headspace technique to analyze low volatile compounds from fluid inclusions of rocks and minerals Mulder, Ines; Huber, Stefan G.; Krause, Torsten Chemical Geology, Vol. 358 https://doi.org/10.1016/j.chemgeo.2013.09.003	journal	November 2013
Siberian gas venting and the end-Permian environmental crisis Svensen, Henrik; Planke, Sverre; Polozov, Alexander G. Earth and Planetary Science Letters, Vol. 277, Issue 3-4 https://doi.org/10.1016/j.epsl.2008.11.015	journal	January 2009
BlastKOALA and GhostKOALA: KEGG Tools for Functional Characterization of Genome and Metagenome Sequences Kanehisa, Minoru; Sato, Yoko; Morishima, Kanae Journal of Molecular Biology, Vol. 428, Issue 4 https://doi.org/10.1016/j.jmb.2015.11.006	journal	February 2016
Integral membrane proteins in proteomics. How to break open the black box? Vit, O.; Petrak, J. Journal of Proteomics, Vol. 153 https://doi.org/10.1016/j.jprot.2016.08.006	journal	February 2017
Dichloromethane in the Indian Ocean: Evidence for in-situ production in seawater Ooki, Atsushi; Yokouchi, Yoko Marine Chemistry, Vol. 124, Issue 1-4 https://doi.org/10.1016/j.marchem.2011.01.001	journal	March 2011
Quantitative real-time PCR (qPCR) detection chemistries affect enumeration of the Dehalococcoides 16S rRNA gene in groundwater Hatt, Janet K.; Löffler, Frank E. Journal of Microbiological Methods, Vol. 88, Issue 2 https://doi.org/10.1016/j.mimet.2011.12.005	journal	February 2012
Dichloromethane-degrading bacteria in the genomic age Muller, Emilie E. L.; Bringel, Françoise; Vuilleumier, Stéphane Research in Microbiology, Vol. 162, Issue 9 https://doi.org/10.1016/j.resmic.2011.01.008	journal	November 2011
Global wetlands: Potential distribution, wetland loss, and status Hu, Shengjie; Niu, Zhenguo; Chen, Yanfen Science of The Total Environment, Vol. 586 https://doi.org/10.1016/j.scitotenv.2017.02.001	journal	May 2017
‘ Candidatus Dichloromethanomonas elyunquensis’ gen. nov., sp. nov., a dichloromethane-degrading anaerobe of the Peptococcaceae family Kleindienst, Sara; Higgins, Steven A.; Tsementzi, Despina Systematic and Applied Microbiology, Vol. 40, Issue 3 https://doi.org/10.1016/j.syapm.2016.12.001	journal	April 2017
Volcanogenic Halocarbons Jordan, Armin; Harnisch, Jochen; Borchers, Reinhard Environmental Science & Technology, Vol. 34, Issue 6 https://doi.org/10.1021/ES990838Q	journal	February 2000
Dual Carbon–Chlorine Isotope Analysis Indicates Distinct Anaerobic Dichloromethane Degradation Pathways in Two Members of Peptococcaceae Chen, Gao; Shouakar-Stash, Orfan; Phillips, Elizabeth Environmental Science & Technology, Vol. 52, Issue 15 https://doi.org/10.1021/acs.est.8b01583	journal	June 2018
Measurement of Henry's law constants for C1 and C2 chlorinated hydrocarbons Gossett, James M. Environmental Science & Technology, Vol. 21, Issue 2 https://doi.org/10.1021/es00156a012	journal	February 1987
Halogen Retention, Organohalogens, and the Role of Organic Matter Decomposition on Halogen Enrichment in Two Chilean Peat Bogs Biester, H.; Keppler, F.; Putschew, A. Environmental Science & Technology, Vol. 38, Issue 7 https://doi.org/10.1021/es0348492	journal	April 2004
Volcanogenic Halocarbons Jordan, Armin; Harnisch, Jochen; Borchers, Reinhard Environmental Science & Technology, Vol. 34, Issue 6 https://doi.org/10.1021/es990838q	journal	February 2000
Atmospheric histories of halocarbons from analysis of Antarctic firn air: Methyl bromide, methyl chloride, chloroform, and dichloromethane: LAW DOME FIRN RECORD OF HALOMETHANES Trudinger, C. M.; Etheridge, D. M.; Sturrock, G. A. Journal of Geophysical Research: Atmospheres, Vol. 109, Issue D22 https://doi.org/10.1029/2004JD004932	journal	November 2004
A biological role for prokaryotic ClC chloride channels Iyer, Ramkumar; Iverson, Tina M.; Accardi, Alessio Nature, Vol. 419, Issue 6908 https://doi.org/10.1038/nature01000	journal	October 2002
Full-length transcriptome assembly from RNA-Seq data without a reference genome Grabherr, Manfred G.; Haas, Brian J.; Yassour, Moran Nature Biotechnology, Vol. 29, Issue 7 https://doi.org/10.1038/nbt.1883	journal	May 2011
Near-optimal probabilistic RNA-seq quantification Bray, Nicolas L.; Pimentel, Harold; Melsted, Páll Nature Biotechnology, Vol. 34, Issue 5 https://doi.org/10.1038/nbt.3519	journal	April 2016
Discovery and characterization of a marine bacterial SAM-dependent chlorinase Eustáquio, Alessandra S.; Pojer, Florence; Noel, Joseph P. Nature Chemical Biology, Vol. 4, Issue 1 https://doi.org/10.1038/nchembio.2007.56	journal	December 2007
Reconstructing a hydrogen-driven microbial metabolic network in Opalinus Clay rock Bagnoud, Alexandre; Chourey, Karuna; Hettich, Robert L. Nature Communications, Vol. 7, Issue 1 https://doi.org/10.1038/ncomms12770	journal	October 2016
The increasing threat to stratospheric ozone from dichloromethane Hossaini, Ryan; Chipperfield, Martyn P.; Montzka, Stephen A. Nature Communications, Vol. 8, Issue 1 https://doi.org/10.1038/ncomms15962	journal	June 2017
Semi-supervised learning for peptide identification from shotgun proteomics datasets Käll, Lukas; Canterbury, Jesse D.; Weston, Jason Nature Methods, Vol. 4, Issue 11 https://doi.org/10.1038/nmeth1113	journal	October 2007
Mineralization versus fermentation: evidence for two distinct anaerobic bacterial degradation pathways for dichloromethane Chen, Gao; Fisch, Alexander R.; Gibson, Caleb M. The ISME Journal, Vol. 14, Issue 4 https://doi.org/10.1038/s41396-019-0579-5	journal	January 2020
Novel dichloromethane-fermenting bacteria in the Peptococcaceae family Holland, Sophie I.; Ertan, Haluk; Montgomery, Kate The ISME Journal, Vol. 15, Issue 6 https://doi.org/10.1038/s41396-020-00881-y	journal	January 2021
The deep-subsurface sulfate reducer Desulfotomaculum kuznetsovii employs two methanol-degrading pathways Sousa, Diana Z.; Visser, Michael; van Gelder, Antonie H. Nature Communications, Vol. 9, Issue 1 https://doi.org/10.1038/s41467-017-02518-9	journal	January 2018
Rapid increase in dichloromethane emissions from China inferred through atmospheric observations An, Minde; Western, Luke M.; Say, Daniel Nature Communications, Vol. 12, Issue 1 https://doi.org/10.1038/s41467-021-27592-y	journal	December 2021
Wildfires, Global Climate Change, and Human Health Xu, Rongbin; Yu, Pei; Abramson, Michael J. New England Journal of Medicine, Vol. 383, Issue 22 https://doi.org/10.1056/NEJMsr2028985	journal	November 2020
Mechanism of ligand-gated potassium efflux in bacterial pathogens Roosild, T. P.; Castronovo, S.; Healy, J. Proceedings of the National Academy of Sciences, Vol. 107, Issue 46 https://doi.org/10.1073/pnas.1012716107	journal	November 2010
A corrinoid-dependent catabolic pathway for growth of a Methylobacterium strain with chloromethane Vannelli, T.; Messmer, M.; Studer, A. Proceedings of the National Academy of Sciences, Vol. 96, Issue 8 https://doi.org/10.1073/pnas.96.8.4615	journal	April 1999
MEDS and PocR are novel domains with a predicted role in sensing simple hydrocarbon derivatives in prokaryotic signal transduction systems Anantharaman, V.; Aravind, L. Bioinformatics, Vol. 21, Issue 12 https://doi.org/10.1093/bioinformatics/bti418	journal	April 2005
Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences Li, W.; Godzik, A. Bioinformatics, Vol. 22, Issue 13 https://doi.org/10.1093/bioinformatics/btl158	journal	May 2006
trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses Capella-Gutierrez, S.; Silla-Martinez, J. M.; Gabaldon, T. Bioinformatics, Vol. 25, Issue 15 https://doi.org/10.1093/bioinformatics/btp348	journal	June 2009
genoPlotR: comparative gene and genome visualization in R Guy, L.; Roat Kultima, J.; Andersson, S. G. E. Bioinformatics, Vol. 26, Issue 18 https://doi.org/10.1093/bioinformatics/btq413	journal	July 2010
Interactive microbial genome visualization with GView Petkau, Aaron; Stuart-Edwards, Matthew; Stothard, Paul Bioinformatics, Vol. 26, Issue 24 https://doi.org/10.1093/bioinformatics/btq588	journal	October 2010
Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data Kearse, M.; Moir, R.; Wilson, A. Bioinformatics, Vol. 28, Issue 12 https://doi.org/10.1093/bioinformatics/bts199	journal	April 2012
Trimmomatic: a flexible trimmer for Illumina sequence data Bolger, Anthony M.; Lohse, Marc; Usadel, Bjoern Bioinformatics, Vol. 30, Issue 15 https://doi.org/10.1093/bioinformatics/btu170	journal	April 2014
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability Katoh, K.; Standley, D. M. Molecular Biology and Evolution, Vol. 30, Issue 4 https://doi.org/10.1093/molbev/mst010	journal	January 2013
The COG database: a tool for genome-scale analysis of protein functions and evolution Tatusov, R. L. Nucleic Acids Research, Vol. 28, Issue 1 https://doi.org/10.1093/nar/28.1.33	journal	January 2000
TIGRFAMs and Genome Properties in 2013 Haft, Daniel H.; Selengut, Jeremy D.; Richter, Roland A. Nucleic Acids Research, Vol. 41, Issue D1 https://doi.org/10.1093/nar/gks1234	journal	November 2012
KEGG: new perspectives on genomes, pathways, diseases and drugs Kanehisa, Minoru; Furumichi, Miho; Tanabe, Mao Nucleic Acids Research, Vol. 45, Issue D1 https://doi.org/10.1093/nar/gkw1092	journal	November 2016
Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees Letunic, Ivica; Bork, Peer Nucleic Acids Research, Vol. 44, Issue W1 https://doi.org/10.1093/nar/gkw290	journal	April 2016
IMG/M v.5.0: an integrated data management and comparative analysis system for microbial genomes and microbiomes Chen, I-Min A.; Chu, Ken; Palaniappan, Krishna Nucleic Acids Research, Vol. 47, Issue D1 https://doi.org/10.1093/nar/gky901	journal	October 2018
The Pfam protein families database in 2019 El-Gebali, Sara; Mistry, Jaina; Bateman, Alex Nucleic Acids Research, Vol. 47, Issue D1 https://doi.org/10.1093/nar/gky995	journal	October 2018
Growth inhibition of Escherichia coli by dichloromethane in cells expressing dichloromethane dehalogenase/glutathione S-transferase Evans, Gareth J.; Ferguson, Gail P.; Booth, Ian R. Microbiology, Vol. 146, Issue 11 https://doi.org/10.1099/00221287-146-11-2967	journal	November 2000
Isolation and characterization of Dehalobacter sp. strain UNSWDHB capable of chloroform and chlorinated ethane respiration : Isolation and characterization of Wong, Yie K.; Holland, Sophie I.; Ertan, Haluk Environmental Microbiology, Vol. 18, Issue 9 https://doi.org/10.1111/1462-2920.13287	journal	April 2016
Mutualistic interaction between dichloromethane- and chloromethane-degrading bacteria in an anaerobic mixed culture: Mutualistic degradation of chlorinated methanes Chen, Gao; Kleindienst, Sara; Griffiths, Daniel R. Environmental Microbiology, Vol. 19, Issue 11 https://doi.org/10.1111/1462-2920.13945	journal	October 2017
Deep peat warming increases surface methane and carbon dioxide emissions in a black spruce-dominated ombrotrophic bog Gill, Allison L.; Giasson, Marc-André; Yu, Rieka Global Change Biology, Vol. 23, Issue 12 https://doi.org/10.1111/gcb.13806	journal	July 2017
Chloroform respiration to dichloromethane by a Dehalobacter population: Growth-linked reductive dechlorination of chloroform Grostern, Ariel; Duhamel, Melanie; Dworatzek, Sandra Environmental Microbiology, Vol. 12, Issue 4 https://doi.org/10.1111/j.1462-2920.2009.02150.x	journal	January 2010
Expanding Oxygen-Minimum Zones in the Tropical Oceans Stramma, L.; Johnson, G. C.; Sprintall, J. Science, Vol. 320, Issue 5876 https://doi.org/10.1126/science.1153847	journal	May 2008
Methyl chloride transferase: a carbocation route for biosynthesis of halometabolites Wuosmaa, A.; Hager, L. Science, Vol. 249, Issue 4965 https://doi.org/10.1126/science.2371563	journal	July 1990
Metagenomics as a Public Health Risk Assessment Tool in a Study of Natural Creek Sediments Influenced by Agricultural and Livestock Runoff: Potential and Limitations Suttner, Brittany; Johnston, Eric R.; Orellana, Luis H. Applied and Environmental Microbiology, Vol. 86, Issue 6 https://doi.org/10.1128/AEM.02525-19	journal	March 2020
Proteogenomics Reveals Novel Reductive Dehalogenases and Methyltransferases Expressed during Anaerobic Dichloromethane Metabolism Kleindienst, Sara; Chourey, Karuna; Chen, Gao Applied and Environmental Microbiology, Vol. 85, Issue 6 https://doi.org/10.1128/AEM.02768-18	journal	January 2019
Dichloromethane Fermentation by a Dehalobacter sp. in an Enrichment Culture Derived from Pristine River Sediment Justicia-Leon, Shandra D.; Ritalahti, Kirsti M.; Mack, E. Erin Applied and Environmental Microbiology, Vol. 78, Issue 4 https://doi.org/10.1128/AEM.07325-11	journal	December 2011
Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA. Muyzer, G.; de Waal, E. C.; Uitterlinden, A. G. Applied and Environmental Microbiology, Vol. 59, Issue 3 https://doi.org/10.1128/AEM.59.3.695-700.1993	journal	January 1993
Metabolism of Dichloromethane by the Strict Anaerobe Dehalobacterium formicoaceticum Mägli, Andreas; Messmer, Michael; Leisinger, Thomas Applied and Environmental Microbiology, Vol. 64, Issue 2 https://doi.org/10.1128/AEM.64.2.646-650.1998	journal	January 1998
Chloromethane Utilization Gene Cluster fromHyphomicrobium chloromethanicum Strain CM2T and Development of Functional Gene Probes To Detect Halomethane-Degrading Bacteria McAnulla, Craig; Woodall, Claire A.; McDonald, Ian R. Applied and Environmental Microbiology, Vol. 67, Issue 1 https://doi.org/10.1128/AEM.67.1.307-316.2001	journal	January 2001
Quantitative PCR Targeting 16S rRNA and Reductive Dehalogenase Genes Simultaneously Monitors Multiple Dehalococcoides Strains Ritalahti, K. M.; Amos, B. K.; Sung, Y. Applied and Environmental Microbiology, Vol. 72, Issue 4 https://doi.org/10.1128/AEM.72.4.2765-2774.2006	journal	April 2006
The Trimethylamine Methyltransferase Gene and Multiple Dimethylamine Methyltransferase Genes of Methanosarcina barkeri Contain In-Frame and Read-Through Amber Codons Paul, L.; Ferguson, D. J.; Krzycki, J. A. Journal of Bacteriology, Vol. 182, Issue 9 https://doi.org/10.1128/JB.182.9.2520-2529.2000	journal	May 2000
Draft Genome Sequence of a Strictly Anaerobic Dichloromethane-Degrading Bacterium Kleindienst, Sara; Higgins, Steven A.; Tsementzi, Despina Genome Announcements, Vol. 4, Issue 2 https://doi.org/10.1128/genomeA.00037-16	journal	March 2016
Complete Genome Sequence of Dehalobacterium formicoaceticum Strain DMC, a Strictly Anaerobic Dichloromethane-Degrading Bacterium Chen, Gao; Murdoch, Robert W.; Mack, E. Erin Genome Announcements, Vol. 5, Issue 37 https://doi.org/10.1128/genomeA.00897-17	journal	September 2017
Identification of dcmR, the regulatory gene governing expression of dichloromethane dehalogenase in Methylobacterium sp. strain DM4 La Roche, S. D.; Leisinger, T. Journal of Bacteriology, Vol. 173, Issue 21 https://doi.org/10.1128/jb.173.21.6714-6721.1991	journal	November 1991
Anaerobic Microbial Metabolism of Dichloroacetate Chen, Gao; Jiang, Nannan; Villalobos Solis, Manuel I. mBio, Vol. 12, Issue 2 https://doi.org/10.1128/mBio.00537-21	journal	April 2021
The Azospirillum brasilense Core Chemotaxis Proteins CheA1 and CheA4 Link Chemotaxis Signaling with Nitrogen Metabolism Ganusova, Elena E.; Vo, Lam T.; Abraham, Paul E. mSystems, Vol. 6, Issue 1 https://doi.org/10.1128/mSystems.01354-20	journal	February 2021
WebMGA: a customizable web server for fast metagenomic sequence analysis Wu, Sitao; Zhu, Zhengwei; Fu, Liming BMC Genomics, Vol. 12, Issue 1 https://doi.org/10.1186/1471-2164-12-444	journal	September 2011
Clostridium thermocellum ATCC27405 transcriptomic, metabolomic and proteomic profiles after ethanol stress Yang, Shihui; Giannone, Richard J.; Dice, Lezlee BMC Genomics, Vol. 13, Issue 1 https://doi.org/10.1186/1471-2164-13-336	journal	January 2012
Filling gaps in bacterial amino acid biosynthesis pathways with high-throughput genetics Price, Morgan N.; Zane, Grant M.; Kuehl, Jennifer V. PLOS Genetics, Vol. 14, Issue 1 https://doi.org/10.1371/journal.pgen.1007147	journal	January 2018
FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments Price, Morgan N.; Dehal, Paramvir S.; Arkin, Adam P. PLoS ONE, Vol. 5, Issue 3 https://doi.org/10.1371/journal.pone.0009490	journal	March 2010
Bacterial Community Dynamics in Dichloromethane-Contaminated Groundwater Undergoing Natural Attenuation Wright, Justin; Kirchner, Veronica; Bernard, William Frontiers in Microbiology, Vol. 8 https://doi.org/10.3389/fmicb.2017.02300	journal	November 2017
Dichloromethane Degradation Pathway from Unsequenced Hyphomicrobium sp. MC8b Rapidly Explored by Pan-Proteomics Hayoun, Karim; Geersens, Emilie; Laczny, Cédric C. Microorganisms, Vol. 8, Issue 12 https://doi.org/10.3390/MICROORGANISMS8121876	journal	November 2020
Dichloromethane Degradation Pathway from Unsequenced Hyphomicrobium sp. MC8b Rapidly Explored by Pan-Proteomics Hayoun, Karim; Geersens, Emilie; Laczny, Cédric C. Microorganisms, Vol. 8, Issue 12 https://doi.org/10.3390/microorganisms8121876	journal	November 2020
Effective use of a horizontally-transferred pathway for dichloromethane catabolism requires post–transfer refinement Michener, Joshua K.; Camargo Neves, Aline A.; Vuilleumier, Stéphane eLife, Vol. 3 https://doi.org/10.7554/ELIFE.04279	journal	November 2014
Effective use of a horizontally-transferred pathway for dichloromethane catabolism requires post–transfer refinement Michener, Joshua K.; Camargo Neves, Aline A.; Vuilleumier, Stéphane eLife, Vol. 3 https://doi.org/10.7554/eLife.04279	journal	November 2014
Whole genome sequencing of a novel, dichloromethane-fermenting Peptococcaceae from an enrichment culture Holland, Sophie I.; Edwards, Richard J.; Ertan, Haluk PeerJ, Vol. 7 https://doi.org/10.7717/peerj.7775	journal	January 2019

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Mutualistic interaction between dichloromethane- and chloromethane-degrading bacteria in an anaerobic mixed culture: Mutualistic degradation of chlorinated methanes

Journal Article · 2017 · Environmental Microbiology · OSTI ID:1474542

Chen, Gao; Kleindienst, Sara; Griffiths, Daniel R.; +3 more

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59 BASIC BIOLOGICAL SCIENCES
anaerobic degradation
bioremediation
climate change
dichloromethane flux
ozone destruction

Title: Identification and widespread environmental distribution of a gene cassette implicated in anaerobic dichloromethane degradation

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