Biodegradation of Volatile Organic Compounds and Their Effects on Biodegradability under Co-Existing Conditions

Volatile organic compounds (VOCs) are major pollutants that are found in contaminated sites, particularly in developed countries such as Japan. Various microorganisms that degrade individual VOCs have been reported, and genomic information related to their phylogenetic classification and VOC-degradi...

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Published inMicrobes and Environments Vol. 32; no. 3; pp. 188 - 200
Main Authors Yoshikawa, Miho, Toyota, Koki, Zhang, Ming
Format Journal Article
LanguageEnglish
Published Japan Japanese Society of Microbial Ecology / Japanese Society of Soil Microbiology / Taiwan Society of Microbial Ecology / Japanese Society of Plant Microbe Interactions / Japanese Society for Extremophiles 2017
Japan Science and Technology Agency
the Japanese Society of Microbial Ecology (JSME)/the Japanese Society of Soil Microbiology (JSSM)/the Taiwan Society of Microbial Ecology (TSME)/the Japanese Society of Plant Microbe Interactions (JSPMI)
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ISSN1342-6311
1347-4405
DOI10.1264/jsme2.ME16188

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Abstract Volatile organic compounds (VOCs) are major pollutants that are found in contaminated sites, particularly in developed countries such as Japan. Various microorganisms that degrade individual VOCs have been reported, and genomic information related to their phylogenetic classification and VOC-degrading enzymes is available. However, the biodegradation of multiple VOCs remains a challenging issue. Practical sites, such as chemical factories, research facilities, and illegal dumping sites, are often contaminated with multiple VOCs. In order to investigate the potential of biodegrading multiple VOCs, we initially reviewed the biodegradation of individual VOCs. VOCs include chlorinated ethenes (tetrachloroethene, trichloroethene, dichloroethene, and vinyl chloride), BTEX (benzene, toluene, ethylbenzene, and xylene), and chlorinated methanes (carbon tetrachloride, chloroform, and dichloromethane). We also summarized essential information on the biodegradation of each kind of VOC under aerobic and anaerobic conditions, together with the microorganisms that are involved in VOC-degrading pathways. Interactions among multiple VOCs were then discussed based on concrete examples. Under conditions in which multiple VOCs co-exist, the biodegradation of a VOC may be constrained, enhanced, and/or unaffected by other compounds. Co-metabolism may enhance the degradation of other VOCs. In contrast, constraints are imposed by the toxicity of co-existing VOCs and their by-products, catabolite repression, or competition between VOC-degrading enzymes. This review provides fundamental, but systematic information for designing strategies for the bioremediation of multiple VOCs, as well as information on the role of key microorganisms that degrade VOCs.
AbstractList Volatile organic compounds (VOCs) are major pollutants that are found in contaminated sites, particularly in developed countries such as Japan. Various microorganisms that degrade individual VOCs have been reported, and genomic information related to their phylogenetic classification and VOC-degrading enzymes is available. However, the biodegradation of multiple VOCs remains a challenging issue. Practical sites, such as chemical factories, research facilities, and illegal dumping sites, are often contaminated with multiple VOCs. In order to investigate the potential of biodegrading multiple VOCs, we initially reviewed the biodegradation of individual VOCs. VOCs include chlorinated ethenes (tetrachloroethene, trichloroethene, dichloroethene, and vinyl chloride), BTEX (benzene, toluene, ethylbenzene, and xylene), and chlorinated methanes (carbon tetrachloride, chloroform, and dichloromethane). We also summarized essential information on the biodegradation of each kind of VOC under aerobic and anaerobic conditions, together with the microorganisms that are involved in VOC-degrading pathways. Interactions among multiple VOCs were then discussed based on concrete examples. Under conditions in which multiple VOCs co-exist, the biodegradation of a VOC may be constrained, enhanced, and/or unaffected by other compounds. Co-metabolism may enhance the degradation of other VOCs. In contrast, constraints are imposed by the toxicity of co-existing VOCs and their by-products, catabolite repression, or competition between VOC-degrading enzymes. This review provides fundamental, but systematic information for designing strategies for the bioremediation of multiple VOCs, as well as information on the role of key microorganisms that degrade VOCs.
Author Yoshikawa, Miho
Toyota, Koki
Zhang, Ming
AuthorAffiliation 1 Geological Survey of Japan, National Institute of Advanced Industrial Science and Technology (AIST) 1–1–1, Higashi, Tsukuba, Ibaraki 305–8567 Japan
2 Graduate School of Bio-Applications and Systems Engineering, Tokyo University of Agriculture and Technology 2–24–16, Koganei, Tokyo 184–8588 Japan
AuthorAffiliation_xml – name: 2 Graduate School of Bio-Applications and Systems Engineering, Tokyo University of Agriculture and Technology 2–24–16, Koganei, Tokyo 184–8588 Japan
– name: 1 Geological Survey of Japan, National Institute of Advanced Industrial Science and Technology (AIST) 1–1–1, Higashi, Tsukuba, Ibaraki 305–8567 Japan
Author_xml – sequence: 1
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  organization: Graduate School of Bio-Applications and Systems Engineering, Tokyo University of Agriculture and Technology
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  fullname: Toyota, Koki
  organization: Graduate School of Bio-Applications and Systems Engineering, Tokyo University of Agriculture and Technology
– sequence: 1
  fullname: Zhang, Ming
  organization: Geological Survey of Japan, National Institute of Advanced Industrial Science and Technology (AIST)
BackLink https://www.ncbi.nlm.nih.gov/pubmed/28904262$$D View this record in MEDLINE/PubMed
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Cites_doi 10.1002/bit.260440417
10.1128/AEM.57.7.1935-1941.1991
10.1016/S0021-9258(18)63793-7
10.1016/j.chemosphere.2007.01.016
10.1128/AEM.62.1.61-66.1996
10.1007/s00253-006-0424-4
10.1128/JB.180.16.4140-4145.1998
10.1128/AEM.54.6.1498-1503.1988
10.1146/annurev.micro.58.030603.123600
10.1264/jsme2.ME13113
10.1186/1944-3277-10-15
10.1128/aem.61.8.2936-2942.1995
10.1080/10643389409388463
10.1128/JB.186.10.3117-3123.2004
10.1016/j.resmic.2011.01.008
10.1007/s00253-006-0724-8
10.1128/AEM.60.6.1914-1920.1994
10.1111/j.1574-6968.1994.tb07126.x
10.1038/nature01717
10.1128/AEM.64.8.3023-3024.1998
10.1128/AEM.59.5.1444-1451.1993
10.1186/s40793-015-0095-9
10.1351/pac200173071163
10.1128/AEM.40.5.950-958.1980
10.1264/jsme2.ME11357
10.1016/0006-291X(89)90042-9
10.1111/j.1574-6968.1999.tb13771.x
10.1016/S0168-1656(00)00364-3
10.1128/JB.184.13.3419-3425.2002
10.1111/j.1365-2958.2011.07912.x
10.1264/jsme2.ME13104
10.1111/j.1574-6968.2011.02249.x
10.1128/AEM.68.6.2726-2730.2002
10.1007/978-94-015-9062-4
10.1371/journal.pone.0052038
10.1016/j.mimet.2005.04.018
10.1128/AEM.57.4.1031-1037.1991
10.1128/AEM.02809-12
10.1128/AEM.53.5.949-954.1987
10.1016/j.chemosphere.2006.09.084
10.1111/j.1751-7915.2011.00260.x
10.1021/bi00809a023
10.1021/es0255711
10.1128/AEM.54.2.604-606.1988
10.1007/s11157-010-9219-2
10.1007/s11356-009-0238-x
10.1007/s11157-010-9215-6
10.1128/AEM.70.8.4880-4888.2004
10.1128/AEM.62.8.2716-2722.1996
10.1128/JB.185.18.5536-5545.2003
10.1128/AEM.55.6.1624-1629.1989
10.1128/AEM.01873-12
10.1111/j.1574-6941.2010.00935.x
10.1128/AEM.55.11.2960-2964.1989
10.1023/A:1005366406453
10.1023/B:BIOD.0000009947.09125.35
10.1128/AEM.63.9.3607-3613.1997
10.1128/AEM.57.10.2981-2985.1991
10.1021/bi00452a027
10.1128/AEM.56.4.1169-1171.1990
10.1016/j.jhazmat.2008.08.007
10.1126/science.1258118
10.1186/1471-2164-13-200
10.1016/S0922-338X(97)86976-0
10.1021/es1023459
10.1021/bi00322a029
10.1128/AEM.49.1.242-243.1985
10.1128/AEM.69.6.3350-3358.2003
10.1023/A:1015012913426
10.1126/science.276.5318.1568
10.7554/eLife.04279
10.1128/AEM.62.10.3704-3711.1996
10.1128/AEM.01067-06
10.1007/s002530050679
10.1128/jb.178.19.5755-5761.1996
10.1038/ismej.2010.27
10.1002/1097-0290(2000)71:4<274::AID-BIT1017>3.0.CO;2-Z
10.1021/es00140a013
10.1128/JB.182.19.5433-5439.2000
10.1016/j.mimet.2012.09.017
10.1128/AEM.70.7.3814-3820.2004
10.1111/j.1745-6592.1997.tb01282.x
10.1128/jb.176.12.3749-3756.1994
10.1002/(SICI)1097-0290(19991005)65:1<100::AID-BIT12>3.0.CO;2-1
10.1128/AEM.64.6.2006-2012.1998
10.1128/AEM.71.8.4736-4743.2005
10.1128/AEM.64.3.1106-1114.1998
10.1021/acs.est.5b01979
10.1007/s10532-014-9715-0
10.1007/BF00301854
10.1038/77344
10.1128/AEM.54.11.2819-2824.1988
10.1128/AEM.53.9.2129-2132.1987
10.1007/s00253-012-4494-1
10.1128/AEM.62.11.4108-4113.1996
10.1128/JB.186.5.1337-1344.2004
10.1128/AEM.70.3.1385-1392.2004
10.1061/9780784480168.030
10.1021/es101356t
10.1128/AEM.58.9.3038-3046.1992
10.1021/es990638e
10.1080/10889860290777431
10.1111/j.1462-2920.2009.02150.x
10.1021/es001285i
10.1074/jbc.M110.126615
10.1021/bi00043a012
10.1111/j.1462-2920.2011.02524.x
10.1016/S0043-1354(99)00121-9
10.1264/jsme2.ME14127
10.1128/AEM.66.12.5141-5147.2000
10.1128/AEM.70.6.3253-3262.2004
10.1128/JB.145.3.1137-1143.1981
10.1016/j.chemosphere.2007.08.029
10.1128/jb.173.9.3010-3016.1991
10.1111/j.1574-6976.2010.00210.x
10.1128/AEM.01695-08
10.1128/AEM.64.1.208-215.1998
10.1016/0378-1119(94)00844-I
10.1264/jsme2.ME09133
10.1128/JB.162.2.676-681.1985
10.1128/AEM.64.2.646-650.1998
10.1016/j.mib.2008.02.007
10.1128/AEM.69.8.4628-4638.2003
10.1021/bi00437a057
10.1046/j.1365-2958.1998.00826.x
10.3109/10242429209014885
10.1007/s10532-008-9233-z
10.1016/0385-6380(88)90109-4
10.1021/es050084h
10.1021/es002064f
10.1111/j.1462-2920.2007.01427.x
10.1016/0922-338X(96)88811-8
10.1007/s11270-016-3050-5
10.1128/AEM.72.3.1980-1987.2006
10.1021/es990809f
10.1159/000121324
10.1128/jb.173.5.1690-1695.1991
10.1021/bi00847a031
10.1007/s00253-005-1944-z
10.1128/AEM.70.10.6347-6351.2004
10.1099/00221287-143-8-2557
10.1007/s12010-012-0005-1
10.1128/JB.01604-07
10.1016/j.soilbio.2013.01.010
10.1128/AEM.52.2.383-384.1986
10.1128/AEM.55.12.3155-3161.1989
10.1128/AEM.54.7.1703-1708.1988
10.1128/JB.01122-07
10.1007/s10532-012-9539-8
10.1007/BF00124489
10.1111/j.1432-1033.1992.tb17260.x
10.1016/S0043-1354(02)00151-3
10.1111/1574-6968.12160
10.1074/jbc.275.14.10085
10.1128/AEM.59.9.2991-2997.1993
10.1016/S0923-2508(02)01378-5
10.1007/s11270-016-3216-1
10.1128/AEM.62.9.3304-3312.1996
10.1128/AEM.69.10.6041-6046.2003
10.1099/00207713-51-2-581
10.1007/BF00381782
10.1126/science.1102226
10.1128/AEM.64.10.3626-3632.1998
10.1139/cjm-2014-0095
10.1128/AEM.59.4.960-967.1993
10.1128/AEM.58.4.1220-1226.1992
10.1128/AEM.62.3.825-833.1996
10.1128/AEM.55.11.2819-2826.1989
10.1007/BF01166208
10.1007/s002530000566
10.1016/j.jhazmat.2012.03.076
10.1128/AEM.64.4.1270-1275.1998
10.1128/JB.124.1.7-13.1975
10.1128/AEM.65.12.5212-5221.1999
10.1007/BF00276528
10.1074/jbc.271.28.16515
10.1002/1097-0290(20001220)70:6<693::AID-BIT12>3.0.CO;2-W
10.1128/AEM.00673-16
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Keywords biodegradation
BTEX
chlorinated ethene
chlorinated methane
multiple VOCs
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PublicationYear 2017
Publisher Japanese Society of Microbial Ecology / Japanese Society of Soil Microbiology / Taiwan Society of Microbial Ecology / Japanese Society of Plant Microbe Interactions / Japanese Society for Extremophiles
Japan Science and Technology Agency
the Japanese Society of Microbial Ecology (JSME)/the Japanese Society of Soil Microbiology (JSSM)/the Taiwan Society of Microbial Ecology (TSME)/the Japanese Society of Plant Microbe Interactions (JSPMI)
Publisher_xml – name: Japanese Society of Microbial Ecology / Japanese Society of Soil Microbiology / Taiwan Society of Microbial Ecology / Japanese Society of Plant Microbe Interactions / Japanese Society for Extremophiles
– name: Japan Science and Technology Agency
– name: the Japanese Society of Microbial Ecology (JSME)/the Japanese Society of Soil Microbiology (JSSM)/the Taiwan Society of Microbial Ecology (TSME)/the Japanese Society of Plant Microbe Interactions (JSPMI)
References 164. Smidt, H., and W.M. de Vos. 2004. Anaerobic microbial dehalogenation. Annu Rev Microbiol. 58:43-73.
39. Coleman, N.V., and J.C. Spain. 2003. Epoxyalkane: coenzyme M transferase in the ethene and vinyl chloride biodegradation pathways of Mycobacterium strain JS60. J Bacteriol. 185:5536-5545.
88. Koenig, J.C., K.D. Groissmeier, and M.J. Manefield. 2014. Tolerance of anaerobic bacteria to chlorinated solvents. Microbes Environ. 29:23-30.
52. Fishman, A., Y. Tao, and T.K. Wood. 2004. Toluene 3-monooxygenase of Ralstonia pickettii PKO1 is a para-hydroxylating enzyme. J Bacteriol. 186:3117-3123.
141. Oh, Y.S., Z. Shareefdeen, B.C. Baltzis, and R. Bartha. 1994. Interactions between benzene, toluene, and p-xylene (BTX) during their biodegradation. Biotechnol Bioeng. 44:533-538.
76. Justicia-Leon, S.D., K.M. Ritalahti, E.E. Mack, and F.E. Löffer. 2012. Dichloromethane fermentation by a Dehalobacter sp. in an enrichment culture derived from river sediment. Appl Environ Microbiol. 78:1288-1291.
49. Elsgaard, L. 2013. Reductive transformation and inhibitory effect of ethylene under methanogenic conditions in peat-soil. Soil Biol Biochem. 60:19-22.
153. Reij, M.W., J. Kieboom, J.A.M. de Bont, and S. Hartmans. 1995. Continuous degradation of trichloroethylene by Xanthobacter sp. strain Py2 during growth on propene. Appl Environ Microbiol. 61:2936-2942.
131. Nagarajan, K., and K.C. Loh. 2015. Formulation of microbial cocktails for BTEX biodegradation. Biodegradation. 26:51-63.
146. Penny, C., S. Vuilleumier, and F. Bringel. 2010. Microbial degradation of tetrachloromethane: mechanisms and perspectives for bioremediation. FEMS Microbiol Ecol. 74:257-275.
25. Bühler, B., A. Schmid, B. Hauer, and B. Witholt. 2000. Xylene monooxygenase catalyzes the multistep oxygenation of toluene and pseudocumene to corresponding alcohols, aldehydes, and acids in Escherichia coli JM101. J Biol Chem. 275:10085-10092.
166. Sung, Y., K.E. Fletcher, K.M. Ritalahti, R.P. Apkarian, N. Ramos-Hernandez, R.A. Sanford, N.M. Mesbah, and F.E. Löffler. 2006. Geobacter lovleyi sp. nov. strain SZ, a novel metal-reducing and tetrachloroethene-dechlorinating bacterium. Appl Environ Microbiol. 72:2775-2782.
90. Kohler-Staub, D., and T. Leisinger. 1985. Dichloromethane dehalogenase of Hyphomicrobium sp. strain DM2. J Bacteriol. 162:676-681.
5. Altenschmidt, U., and G. Fuchs. 1991. Anaerobic degradation of toluene in denitrifying Pseudomonas sp.: indication for toluene methylhydroxylation and benzoyl-CoA as central aromatic intermediate. Arch Microbiol. 156:152-158.
66. He, J., K.M. Ritalahti, K.L. Yang, S.S. Koenigsberg, and F.E. Löffler. 2003. Detoxification of vinyl chloride to ethene coupled to growth of an anaerobic bacterium. Nature. 424:62-65.
113. Martin, K.E., J. Ozsvar, and N.V. Coleman. 2014. SmoXYB1C1Z of Mycobacterium sp. strain NBB4: a soluble methane monooxygenase (sMMO)-like enzyme, active on C2 to C4 alkanes and alkenes. Appl Environ Microbiol. 80:5801-5806.
185. United States Environmental Protection Agency. 2015. Fourth five-year review report for the Colesville municipal landfill site. United States Environmental Protection Agency, Washington, DC.
144. Parsons, . 2004. Principles and practices of enhanced anaerobic bioremediation of chlorinated solvents. Air Force Center for Environmental Excellence, Brooks City-Base, Texas: Naval Facilities Engineering Service Center, Port Hueneme, California: Environmental Security Technology Certification Program, Arlington, Virginia.
151. Rabus, R., and F. Widdel. 1995. Anaerobic degradation of ethylbenzene and other aromatic hydrocarbons by new denitrifying bacteria. Arch Microbiol. 163:96-103.
111. Marco-Urrea, E., I. Nijenhuis, and L. Adrian. 2011. Transformation and carbon isotope fractionation of tetra- and trichloroethene to trans-dichloroethene by Dehalococcoides sp. strain CBDB1. Environ Sci Technol. 45:1555-1562.
102. Löffler, F.E., J. Yan, K.M. Ritalahti, L. Adrian, E.A. Edwards, K.T. Konstantinidis, J.A. Müller, H. Fullerton, S.H. Zinder, and A.M. Spormann. 2013. Dehalococcoides mccartyi gen. nov., sp. nov., obligately organohalide-respiring anaerobic bacteria relevant to halogen cycling and bioremediation, belong to a novel bacterial class, Dehalococcoidia classis nov., order Dehalococcoidales ord. nov. and family Dehalococcoidaceae fam. nov., within the phylum Chloroflexi. Int J Syst Evol Microbiol. 63:625-635.
207. Yoshikawa, M., M. Zhang, and K. Toyota. 2016. Enhancement and biological characteristics related to aerobic biodegradation of toluene with co-existence of benzene. Water Air Soil Pollut. 227:340.
162. Shim, H., and T.K. Wood. 2000. Aerobic degradation of mixtures of chlorinated aliphatics by cloned toluene-o-xylene monooxygenase and toluene o-monooxygenase in resting cells. Biotechnol Bioeng. 70:693-698.
75. Interstate Technology & Regulatory Council. 2013. Environmental Molecular Diagnostics, New Site Characterization and Remediation Enhancement Tools. EMD-2. Interstate Technology & Regulatory Council, Environmental Molecular Diagnostics Team, Washington, DC.
94. Krumholz, L.R., R. Sharp, and S. Fishbain. 1996. A freshwater anaerobe coupling acetate oxidation to tetrachloroethene dehalogenation. Appl Environ Microbiol. 62:4108-4113.
127. Muller, E.E.L., F. Bringel, and S. Vuilleumier. 2011. Dichloromethane-degrading bacteria in the genomic age. Res Microbiol. 162:869-876.
45. Duhamel, M., S.D. Wehr, L. Yu, H. Rizvi, D. Seepersad, S. Dworatzek, E.E. Cox, and E.A. Edwards. 2002. Comparison of anaerobic dechlorinating enrichment cultures maintained on tetrachloroethene, trichloroethene, cis-dichloroethene and vinyl chloride. Water Res. 36:4193-4202.
61. Grostern, A., M. Duhamel, S. Dworatzek, and E.A. Edwards. 2010. Chloroform respiration to dichloromethane by a Dehalobacter population. Environ Microbiol. 12:1053-1060.
23. Brunner, W., D. Staub, and T. Leisinger. 1980. Bacterial degradation of dichloromethane. Appl Environ Microbiol. 40:950-958.
59. Gibson, T.L., A.S. Abdul, and R.H. Olsen. 1988. Microbial degradation of aromatic hydrocarbons in hydrogeological materials: microcosm studies, p.53-69.Proceedings of the Second National Outdoor Action Conference on Aquifer RestorationGroundwater and Geophysical Methods. 1. National Water Well Association, Dublin, Ohio.
8. Araki, N., K. Chino, D. Kasai, E. Masai, and M. Fukuda. 2014. Degradation of cis-1,2-dichloroethylene by Rhodococcus jostii RHA1. The 66th Annual Meeting of the Society of Biotechnology of Japan 3P-091(in Japanese).
99. Lee, E.-H., J. Kim, K.-S. Cho, Y.G. Ahn, and G.-S. Hwang. 2010. Degradation of hexane and other recalcitrant hydrocarbons by a novel isolate, Rhodococcus sp. EH831. Environ Sci Poll Res. 17:64-77.
163. Shinoda, Y., Y. Sakai, H. Uenishi, Y. Uchihashi, A. Hiraishi, H. Yukawa, H. Yurimoto, and N. Kato. 2004. Aerobic and anaerobic toluene degradation by a newly isolated denitrifying bacterium, Thauera sp. strain DNT-1. Appl Environ Microbiol. 70:1385-1392.
188. van Hylckama Vlieg, J.E.T., and D.B. Janssen. 2001. Formation and detoxification of reactive intermediates in the metabolism of chlorinated ethenes. J Biotechnol. 85:81-102.
51. Ensign, S.A. 1996. Aliphatic and chlorinated alkenes and epoxides as inducers of alkene monooxygenase and epoxidase activities in Xanthobacter strain Py2. Appl Environ Microbiol. 62:61-66.
211. Zylstra, G.J., W.R. McCombie, D.T. Gibson, and B.A. Finette. 1988. Toluene degradation by Pseudomonas putida F1: genetic organization of the tod operon. Appl Environ Microbiol. 54:1498-1503.
135. Neumann, A., H. Scholz-Muramatsu, and G. Diekert. 1994. Tetrachloroethene metabolism of Dehalospirillum multivorans. Arch Microbiol. 162:295-301.
184. United States Environmental Protection Agency. 2014. Third fiveyear review report for parker landfill superfund site, SDMS Doc ID 567594. United States Environmental Protection Agency, Washington, DC.
160. Shields, M.S., S.O. Montgomery, P.J. Chapman, S.M. Cuskey, and P.H. Pritchard. 1989. Novel pathway of toluene catabolism in the trichloroethylene-degrading bacterium G4. Appl Environ Microbiol. 55:1624-1629.
178. United States Environmental Protection Agency. 2011. First fiveyear review joint base Andrews naval air facility Washington. United States Environmental Protection Agency, Washington, DC.
6. Alvarez, P.J., and T.M. Vogel. 1991. Substrate interactions of benzene, toluene, and para-xylene during microbial degradation by pure cultures and mixed culture aquifer slurries. Appl Environ Microbiol. 57:2981-2985.
186. van Agteren, M.H., S. Keuning, and D.B. Janssen. 1998. Handbook on biodegradation and biological treatment of hazardous organic compounds. Kluwer Academic Publishers, Dordrecht, Netherland.
171. Tang, S., W.W.M. Chan, K.E. Fletcher, J. Seifert, X. Liang, F.E. Löffler, E.A. Edwards, and L. Adrian. 2013. Functional characterization of reductive dehalogenases by using blue native polyacrylamide gel electrophoresis. Appl Environ Microbiol. 79:974-981.
105. Mägli, A., M. Messmer, and T. Leisinger. 1998. Metabolism of dichloromethane by strict anaerobic Dehalobacterium formicoaceticum. Appl Environ Microbiol. 64:646-650.
158. Seshadri, R., L. Adrian, D.E. Fouts, et al. 2005. Genome sequence of the PCE-dechlorinating bacterium Dehalococcoides ethenogenes. Science. 307:105-108.
60. Goris, T., B. Hornung, T. Kruse, A. Reinhold, M. Westermann, P.J. Schaap, H. Smidt, and G. Diekert. 2015. Draft genome sequence and characterization of Desulfitobacterium hafniense PCE-S. Stand Genomic Sci. 10:15.
106. Magnuson, J.K., R.V. Stern, J.M. Gossett, S.H. Zinder, and D.R. Burris. 1998. Reductive dechlorination of tetrachloroethene to ethene by a two-component enzyme pathway. Appl Environ Microbiol. 64:1270-1275.
83. Kim, J.M., N.T. Le, B.S. Chung, J.H. Park, J.W. Bae, E.L. Madsen, and C.O. Jeon. 2008. Influence of soil components on the biodegradation of benzene, toluene, ethylbenzene, and o-, m-, and p-xylenes by the newly isolated bacterium Pseudoxanthomonas spadix BD-a59. Appl Environ Mic
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7578004 - Biochemistry. 1995 Oct 31;34(43):14066-76
18359269 - Curr Opin Microbiol. 2008 Apr;11(2):87-93
20529863 - J Biol Chem. 2010 Aug 6;285(32):24412-9
2559772 - Biochemistry. 1989 Dec 26;28(26):10061-5
7009570 - J Bacteriol. 1981 Mar;145(3):1137-43
12057934 - J Bacteriol. 2002 Jul;184(13):3419-25
24909708 - Microbes Environ. 2014;29(2):191-9
22503214 - J Hazard Mater. 2012 Jun 15;219-220:169-75
23306883 - Appl Biochem Biotechnol. 2013 Feb;169(4):1197-218
17965160 - J Bacteriol. 2008 Jan;190(1):37-47
16597982 - Appl Environ Microbiol. 2006 Apr;72(4):2775-82
8824622 - J Bacteriol. 1996 Oct;178(19):5755-61
26203328 - Stand Genomic Sci. 2015 Feb 24;10:15
21362021 - FEMS Microbiol Lett. 2011 May;318(2):137-42
18211265 - Environ Microbiol. 2008 Jan;10(1):31-46
9687467 - Appl Environ Microbiol. 1998 Aug;64(8):3023-4
15006757 - Appl Environ Microbiol. 2004 Mar;70(3):1385-92
2670929 - J Biol Chem. 1989 Sep 5;264(25):14940-6
12840758 - Nature. 2003 Jul 3;424(6944):62-5
22311591 - Biodegradation. 2012 Sep;23(5):635-44
12420924 - Water Res. 2002 Oct;36(17):4193-202
23284863 - PLoS One. 2012;7(12):e52038
11698363 - J Bacteriol. 2001 Dec;183(23):6763-70
11097881 - Appl Environ Microbiol. 2000 Dec;66(12):5141-7
21854516 - Environ Microbiol. 2011 Sep;13(9):2518-35
25331771 - Biodegradation. 2015 Feb;26(1):51-63
2843094 - Appl Environ Microbiol. 1988 Jun;54(6):1498-503
24992516 - Can J Microbiol. 2014 Jul;60(7):487-90
25877696 - Microbes Environ. 2015;30(2):164-71
17950413 - Chemosphere. 2008 Feb;70(8):1492-9
10440676 - Biotechnol Bioeng. 1999 Oct 5;65(1):100-7
1999388 - J Bacteriol. 1991 Mar;173(5):1690-5
1746958 - Appl Environ Microbiol. 1991 Oct;57(10):2981-5
17316748 - Chemosphere. 2007 Jun;68(2):244-52
16085870 - Appl Environ Microbiol. 2005 Aug;71(8):4736-43
10483734 - FEMS Microbiol Lett. 1999 Sep 1;178(1):147-53
25418043 - Elife. 2014 Nov 24;3:null
14532060 - Appl Environ Microbiol. 2003 Oct;69(10):6041-6
16535693 - Appl Environ Microbiol. 1997 Sep;63(9):3607-13
8837426 - Appl Environ Microbiol. 1996 Oct;62(10 ):3704-11
7686000 - Appl Environ Microbiol. 1993 May;59(5):1444-51
12051652 - Biodegradation. 2001;12(6):465-75
2930535 - Biochem Biophys Res Commun. 1989 Mar 15;159(2):640-3
9531632 - Arch Microbiol. 1998 Apr;169(4):313-21
24428759 - Environ Microbiol. 2014 Nov;16(11):3387-97
21214238 - Environ Sci Technol. 2011 Feb 15;45(4):1555-62
20681521 - Environ Sci Technol. 2010 Sep 1;44(17):6829-34
3919642 - Appl Environ Microbiol. 1985 Jan;49(1):242-3
11064339 - Biotechnol Bioeng. 2000 Dec 20;70(6):693-8
18835999 - Appl Environ Microbiol. 2008 Dec;74(23):7313-20
16347956 - Appl Environ Microbiol. 1989 Jun;55(6):1624-9
2624467 - Appl Environ Microbiol. 1989 Nov;55(11):2960-4
19039669 - Biodegradation. 2009 Jun;20(3):419-31
18618788 - Biotechnol Bioeng. 1994 Aug 5;44(4):533-8
23160122 - Appl Environ Microbiol. 2013 Jan;79(2):663-71
15466590 - Appl Environ Microbiol. 2004 Oct;70(10):6347-51
9603807 - Appl Environ Microbiol. 1998 Jun;64(6):2006-12
8663199 - J Biol Chem. 1996 Jul 12;271(28):16515-9
15294827 - Appl Environ Microbiol. 2004 Aug;70(8):4880-8
9274009 - Microbiology. 1997 Aug;143 ( Pt 8):2557-67
7710331 - Arch Microbiol. 1995 Feb;163(2):96-103
16349505 - Appl Environ Microbiol. 1998 Feb;64(2):646-50
12523427 - Environ Sci Technol. 2002 Dec 1;36(23):5106-16
16349282 - Appl Environ Microbiol. 1994 Jun;60(6):1914-20
9696761 - J Bacteriol. 1998 Aug;180(16):4140-5
16104866 - Environ Microbiol. 2005 Sep;7(9):1442-50
15487929 - Annu Rev Microbiol. 2004;58:43-73
10671186 - Appl Environ Microbiol. 1998 Apr;64(4):1270-5
23204411 - Appl Environ Microbiol. 2013 Feb;79(3):974-81
18156252 - J Bacteriol. 2008 Mar;190(5):1539-45
14973036 - J Bacteriol. 2004 Mar;186(5):1337-44
9632263 - Mol Microbiol. 1998 May;28(3):615-28
19656942 - Int J Syst Evol Microbiol. 2010 Mar;60(Pt 3):686-95
11718337 - Environ Sci Technol. 2001 Nov 1;35(21):4242-51
7926693 - FEMS Microbiol Lett. 1994 Sep 1;121(3):357-63
16201659 - Environ Sci Technol. 2005 Sep 15;39(18):7279-86
4314232 - Biochemistry. 1970 Mar 31;9(7):1626-30
23093177 - Appl Microbiol Biotechnol. 2012 Dec;96(6):1395-409
17136537 - Appl Microbiol Biotechnol. 2007 Mar;74(4):857-66
26568785 - Stand Genomic Sci. 2015 Nov 14;10:102
2624462 - Appl Environ Microbiol. 1989 Nov;55(11):2819-26
8206853 - J Bacteriol. 1994 Jun;176(12 ):3749-56
3674872 - Appl Environ Microbiol. 1987 Sep;53(9):2129-32
22053874 - Mol Microbiol. 2012 Jan;83(1):24-40
11165358 - J Biotechnol. 2001 Feb 13;85(2):81-102
1327782 - Eur J Biochem. 1992 Oct 1;209(1):51-61
8900001 - Appl Environ Microbiol. 1996 Nov;62(11):4108-13
21566393 - Microbes Environ. 2009;24(4):330-7
1892384 - Appl Environ Microbiol. 1991 Jul;57(7):1935-41
12039726 - Appl Environ Microbiol. 2002 Jun;68(6):2726-30
10986246 - J Bacteriol. 2000 Oct;182(19):5433-9
1781729 - Arch Microbiol. 1991;156(2):152-8
3988708 - J Bacteriol. 1985 May;162(2):676-81
3145712 - Appl Environ Microbiol. 1988 Nov;54(11):2819-24
7487026 - Appl Environ Microbiol. 1995 Aug;61(8):2936-42
23600617 - FEMS Microbiol Lett. 2013 Jun;343(2):101-4
18804909 - J Hazard Mater. 2009 May 15;164(1):337-44
11351722 - Environ Sci Technol. 2001 Feb 1;35(3):516-21
7802545 - Arch Microbiol. 1994;162(4):295-301
18685265 - J Mol Microbiol Biotechnol. 2008;15(2-3):93-120
10888848 - Nat Biotechnol. 2000 Jul;18(7):775-8
16348920 - Appl Environ Microbiol. 1993 Apr;59(4):960-7
25015887 - Appl Environ Microbiol. 2014 Sep;80(18):5801-6
28042183 - Water Air Soil Pollut. 2017;228(1):25
15959725 - J Ind Microbiol Biotechnol. 2005 Dec;32(11-12):534-41
2019563 - J Bacteriol. 1991 May;173(9):3010-6
21450012 - Microb Biotechnol. 2011 Nov;4(6):710-24
20089043 - Environ Microbiol. 2010 Apr;12(4):1053-60
8975612 - Appl Environ Microbiol. 1996 Mar;62(3):825-33
22179245 - Appl Environ Microbiol. 2012 Feb;78(4):1288-91
3355147 - Appl Environ Microbiol. 1988 Feb;54(2):604-6
9171062 - Science. 1997 Jun 6;276(5318):1568-71
7574658 - Appl Environ Microbiol. 1995 Sep;61(9):3479-81
21288483 - Res Microbiol. 2011 Nov;162(9):869-76
20146755 - FEMS Microbiol Rev. 2010 Jul;34(4):445-75
26551549 - Environ Sci Technol. 2015 Dec 15;49(24):14319-25
11321104 - Int J Syst Evol Microbiol. 2001 Mar;51(Pt 2):581-8
9758777 - Appl Environ Microbiol. 1998 Oct;64(10):3626-32
15637277 - Science. 2005 Jan 7;307(5706):105-8
12788736 - Appl Environ Microbiol. 2003 Jun;69(6):3350-8
8572713 - Appl Environ Microbiol. 1996 Jan;62(1):61-6
8920197 - Appl Microbiol Biotechnol. 1996 Mar;45(1-2):248-56
1444418 - Appl Environ Microbiol. 1992 Sep;58(9):3038-46
2244785 - Arch Microbiol. 1990;154(4):336-41
23479748 - Philos Trans R Soc Lond B Biol Sci. 2013 Mar 11;368(1616):20120318
16349481 - Appl Environ Microbiol. 1998 Jan;64(1):208-15
15754184 - Appl Microbiol Biotechnol. 2005 Oct;68(6):794-801
8215370 - Appl Environ Microbiol. 1993 Sep;59(9):2991-7
8702263 - Appl Environ Microbiol. 1996 Aug;62(8):2716-22
17123579 - Chemosphere. 2007 Feb;67(2):300-11
12558180 - Res Microbiol. 2002 Dec;153(10):621-8
15184119 - Appl Environ Microbiol. 2004 Jun;70(6):3253-62
12902251 - Appl Environ Microbiol. 2003 Aug;69(8):4628-38
11291037 - Biotechnol Bioeng. 2000-2001;71(4):274-85
16642331 - Appl Microbiol Biotechnol. 2006 Oct;72(6):1270-5
23022446 - J Microbiol Methods. 2012 Dec;91(3):434-42
4039602 - Biochemistry. 1985 Jan 1;24(1):204-10
4298226 - Biochemistry. 1968 Jul;7(7):2653-62
2339874 - Appl Environ Microbiol. 1990 Apr;56(4):1169-71
1905516 - Appl Environ Microbiol. 1991 Apr;57(4):1031-7
22446308 - Microbes Environ. 2012;27(3):273-7
10744688 - J Biol Chem. 2000 Apr 7;275(14):10085-92
16345659 - Appl Environ Microbiol. 1980 Nov;40(5):950-8
15949858 - J Microbiol Methods. 2006 Feb;64(2):250-65
22544797 - Int J Syst Evol Microbiol. 2013 Feb;63(Pt 2):625-35
11414323 - Appl Microbiol Biotechnol. 2001 May;55(5):571-7
27016563 - Appl Environ Microbiol. 2016 May 16;82(11):3269-79
14971854 - Biodegradation. 2004 Feb;15(1):19-28
2515801 - Appl Environ Microbiol. 1989 Dec;55(12):3155-61
16349516 - Appl Environ Microbiol. 1998 Mar;64(3):1106-14
1599242 - Appl Environ Microbiol. 1992 Apr;58(4):1220-6
16347139 - Appl Environ Microbiol. 1986 Aug;52(2):383-4
22616984 - BMC Genomics. 2012 May 22;13:200
20357835 - ISME J. 2010 Aug;4(8):1020-30
10583967 - Appl Environ Microbiol. 1999 Dec;65(12):5212-21
3415234 - Appl Environ Microbiol. 1988 Jul;54(7):1703-8
16517646 - Appl Environ Microbiol. 2006 Mar;72(3):1980-7
15126473 - J Bacteriol. 2004 May;186(10):3117-23
15240250 - Appl Environ Microbiol. 2004 Jul;70(7):3814-20
25278505 - Science. 2014 Oct 24;346(6208):455-8
20695893 - FEMS Microbiol Ecol. 2010 Nov;74(2):257-75
16997980 - Appl Environ Microbiol. 2006 Nov;72(11):7418-21
19756804 - Environ Sci Pollut Res Int. 2010 Jan;17(1):64-77
7867951 - Gene. 1995 Feb 27;154(1):65-70
3606099 - Appl Environ Microbiol. 1987 May;53(5):949-54
24441515 - Microbes Environ. 2014;29(1):23-30
12949106 - J Bacteriol. 2003 Sep;185(18):5536-45
19633106 - Appl Environ Microbiol. 2009 Sep;75(18):5910-8
16535402 - Appl Environ Microbiol. 1996 Sep;62(9):3304-12
1176436 - J Bacteriol. 1975 Oct;124(1):7-13
References_xml – reference: 47. Elango, V.K., A.S. Liggenstoffer, and B.Z. Fathepure. 2006. Biodegradation of vinyl chloride and cis-dichloroethene by a Ralstonia sp. strain TRW-1. Appl Microbiol Biotechnol. 72:1270-1275.
– reference: 76. Justicia-Leon, S.D., K.M. Ritalahti, E.E. Mack, and F.E. Löffer. 2012. Dichloromethane fermentation by a Dehalobacter sp. in an enrichment culture derived from river sediment. Appl Environ Microbiol. 78:1288-1291.
– reference: 86. Kittelmann, S., and M.W. Friedrich. 2008. Identification of novel perchloroethene-respiring microorganisms in anoxic river sediment by RNA-based stable isotope probing. Environ Microbiol. 10:31-46.
– reference: 121. Ministry of the Environment, Japan. 2016. Results of the survey on implementation of soil contamination countermeasures act and cases of investigation and countermeasures in 2014. Ministry of the Environment, Japan, Tokyo. (In Japanese).
– reference: 117. Maymó-Gatell, X., I. Nijenhuis, and S.H. Zinder. 2001. Reductive dechlorination of cis-1,2-dichloroethene and vinyl chloride by “Dehalococcoides ethenogenes”. Environ Sci Technol. 35:516-521.
– reference: 196. Wackett, L.P., G.A. Brusseau, S.R. Householder, and R.S. Hanson. 1989. Survey of microbial oxygenases: trichloroethylene degradation by propane-oxidizing bacteria. Appl Environ Microbiol. 55:2960-2964.
– reference: 105. Mägli, A., M. Messmer, and T. Leisinger. 1998. Metabolism of dichloromethane by strict anaerobic Dehalobacterium formicoaceticum. Appl Environ Microbiol. 64:646-650.
– reference: 200. Whited, G.M., and D.T. Gibson. 1991. Toluene-4-monooxygenase, a three-component enzyme system that catalyzes the oxidation of toluene to p-cresol in Pseudomonas mendocina KR1. J Bacteriol. 173:3010-3016.
– reference: 187. van Hylckama Vlieg, J.E.T., W. de Koning, and D.B. Janssen. 1996. Transformation kinetics of chlorinated ethenes by Methylosinus trichosporium OB3b and detection of unstable epoxides by on-line gas chromatography. Appl Environ Microbiol. 62:3304-3312.
– reference: 111. Marco-Urrea, E., I. Nijenhuis, and L. Adrian. 2011. Transformation and carbon isotope fractionation of tetra- and trichloroethene to trans-dichloroethene by Dehalococcoides sp. strain CBDB1. Environ Sci Technol. 45:1555-1562.
– reference: 158. Seshadri, R., L. Adrian, D.E. Fouts, et al. 2005. Genome sequence of the PCE-dechlorinating bacterium Dehalococcoides ethenogenes. Science. 307:105-108.
– reference: 70. Holliger, C., G. Schraa, A.J.M. Stams, and A.J.B. Zehnder. 1993. A highly purified enrichment culture couples the reductive dechlorination of tetrachloroethene to growth. Appl Environ Microbiol. 59:2991-2997.
– reference: 178. United States Environmental Protection Agency. 2011. First fiveyear review joint base Andrews naval air facility Washington. United States Environmental Protection Agency, Washington, DC.
– reference: 58. Gibson, D.T., M. Hensley, H. Yoshioka, and T.J. Mabry. 1970. Formation of (+)-cis-2,3-dihydroxy-1-methylcyclohexa-4,6-diene from toluene by Pseudomonas putida. Biochemistry. 9:1626-1630.
– reference: 90. Kohler-Staub, D., and T. Leisinger. 1985. Dichloromethane dehalogenase of Hyphomicrobium sp. strain DM2. J Bacteriol. 162:676-681.
– reference: 60. Goris, T., B. Hornung, T. Kruse, A. Reinhold, M. Westermann, P.J. Schaap, H. Smidt, and G. Diekert. 2015. Draft genome sequence and characterization of Desulfitobacterium hafniense PCE-S. Stand Genomic Sci. 10:15.
– reference: 203. Yamada, A., H. Kishi, K. Sugiyama, T. Hatta, K. Nakamura, E. Masai, and M. Fukuda. 1998. Two nearly identical aromatic compound hydrolase genes in a strong polychlorinated biphenyl degrader, Rhodococcus sp. strain RHA1. Appl Environ Microbiol. 64:2006-2012.
– reference: 56. Gerritse, J., O. Drzyzga, G. Kloetstra, M. Keijmel, L.P. Wiersum, R. Hutson, M.D. Collins, and J.C. Gottschal. 1999. Influence of different electron donors and acceptors on dehalorespiration of tetrachloroethene by Desulfitobacterium frappieri TCE1. Appl Environ Microbiol. 65:5212-5221.
– reference: 192. Verce, M.F., R.L. Ulrich, and D.L. Freedman. 2001. Transition from cometabolic to growth-linked biodegradation of vinyl chloride by a Pseudomonas sp. isolated on ethene. Environ Sci Technol. 35:4242-4251.
– reference: 189. Vannelli, T., M. Logan, D.M. Arciero, and A.B. Hooper. 1990. Degradation of halogenated aliphatic compounds by the ammoniaoxidizing bacterium Nitrosomonas europaea. Appl Environ Microbiol. 56:1169-1171.
– reference: 122. Miura, T., A. Yamazoe, M. Ito, S. Ohji, A. Hosoyama, Y. Takahata, and N. Fujita. 2015. The impact of injections of different nutrients on the bacterial community and its dechlorination activity in chloroethene-contaminated groundwater. Microbes Environ. 30:164-171.
– reference: 191. Verce, M.F., and D.L. Freedman. 2000. Modeling the kinetics of vinyl chloride cometabolism by an ethane-grown Pseudomonas sp. Biotechnol Bioeng. 71:274-285.
– reference: 119. McClay, K., B.G. Fox, and R.J. Steffan. 1996. Chloroform mineralization by toluene-oxidizing bacteria. Appl Environ Microbiol. 62:2716-2722.
– reference: 10. Arciero, D., T. Vannelli, M. Logan, and A.B. Hooper. 1989. Degradation of trichloroethylene by the ammonia-oxidizing bacterium Nitrosomonas europaea. Biochem Biophys Res Commun. 159:640-643.
– reference: 108. Maillard, J., W. Schumacher, F. Vazquez, C. Regeard, W.R. Hagen, and C. Holliger. 2003. Characterization of the corrinoid iron-sulfur protein tetrachloroethene reductive dehalogenase of Dehalobacter restrictus. Appl Environ Microbiol. 69:4628-4638.
– reference: 14. Baldwin, B.R., C.H. Nakatsu, and L. Nies. 2003. Detection and enumeration of aromatic oxygenase genes by multiplex and real-time PCR. Appl Environ Microbiol. 69:3350-3358.
– reference: 28. Cappelletti, M., D. Frascari, D. Zannoni, and S. Fedi. 2012. Microbial degradation of chloroform. Appl Microbiol Biotechnol. 96:1395-1409.
– reference: 64. Hartmans, S., J.A.M. de Bont, J. Tramper, and K.Ch.A.M. Luyben. 1985. Bacterial degradation of vinyl chloride. Biotechnol Lett. 7:383-386.
– reference: 128. Muller, E.E.L., E. Hourcade, Y. Louhichi-Jelail, P. Hammann, S. Vuilleumier, and F. Bringel. 2011. Functional genomics of dichloromethane utilization in Methylobacterium extorquens DM4. Environ Microbiol. 13:2518-2535.
– reference: 175. Uchino, Y., T. Miura, A. Hosoyama, S. Ohji, A. Yamazoe, M. Ito, Y. Takahata, K. Suzuki, and N. Fujita. 2015. Complete genome sequencing of Dehalococcoides sp. strain UCH007 using a differential reads picking method. Stand Genomic Sci. 10:102.
– reference: 51. Ensign, S.A. 1996. Aliphatic and chlorinated alkenes and epoxides as inducers of alkene monooxygenase and epoxidase activities in Xanthobacter strain Py2. Appl Environ Microbiol. 62:61-66.
– reference: 146. Penny, C., S. Vuilleumier, and F. Bringel. 2010. Microbial degradation of tetrachloromethane: mechanisms and perspectives for bioremediation. FEMS Microbiol Ecol. 74:257-275.
– reference: 94. Krumholz, L.R., R. Sharp, and S. Fishbain. 1996. A freshwater anaerobe coupling acetate oxidation to tetrachloroethene dehalogenation. Appl Environ Microbiol. 62:4108-4113.
– reference: 50. Ensign, S.A., M.R. Hyman, and D.J. Arp. 1992. Cometabolic degradation of chlorinated alkenes by alken monooxygenase in a propylene-grown Xanthobacter strain. Appl Environ Microbiol. 58:3038-3046.
– reference: 124. Moreno, R., and F. Rojo. 2008. The target for the Pseudomonas putida Crc global regulator in the benzoate degradation pathway is the BenR transcriptional regulator. J Bacteriol. 190:1539-1545.
– reference: 184. United States Environmental Protection Agency. 2014. Third fiveyear review report for parker landfill superfund site, SDMS Doc ID 567594. United States Environmental Protection Agency, Washington, DC.
– reference: 202. Worsey, M.J., and P.A. Williams. 1975. Metabolism of toluene and xylenes by Pseudomonas (putida (arvilla) mt-2: evidence for a new function of the TOL plasmid. J Bacteriol. 124:7-13.
– reference: 100. Leuthner, B., C. Leutwein, H. Schulz, P. Hörth, W. Haehnel, E. Schiltz, H. Schägger, and J. Heider. 1998. Biochemical and genetic characterization of benzylsuccinate synthase from Thauera aromatica: a new glycyl radical enzyme catalysing the first step in anaerobic toluene metabolism. Mol Microbiol. 28:615-628.
– reference: 33. Choi, E.J., H.M. Jin, S.H. Lee, R.K. Math, E.L. Madsen, and C.O. Jeon. 2013. Comparative genomic analysis and benzene, toluene, ethylbenzene, and o-, m-, and p-xylene (BTEX) degradation pathways of Pseudoxanthomonas spadix BD-a59. Appl Environ Microbiol. 79:663-671.
– reference: 71. Holliger, C., D. Hahn, H. Harmsen, W. Ludwig, W. Schumacher, B. Tindall, F. Vazquez, N. Weiss, and A.J.B. Zehnder. 1998. Dehalobacter restrictus gen. nov. and sp. nov., a strictly anaerobic bacterium that reductively dechlorinates tetra- and trichloroethene in an anaerobic respiration. Arch Microbiol. 169:313-321.
– reference: 83. Kim, J.M., N.T. Le, B.S. Chung, J.H. Park, J.W. Bae, E.L. Madsen, and C.O. Jeon. 2008. Influence of soil components on the biodegradation of benzene, toluene, ethylbenzene, and o-, m-, and p-xylenes by the newly isolated bacterium Pseudoxanthomonas spadix BD-a59. Appl Environ Microbiol. 74:7313-7320.
– reference: 81. Kayser, M.F., M.T. Stumpp, and S. Vuilleumier. 2000. DNA polymerase I is essential for growth of Methylobacterium dichloromethanicum DM4 with dichloromethane. J Bacteriol. 182:5433-5439.
– reference: 39. Coleman, N.V., and J.C. Spain. 2003. Epoxyalkane: coenzyme M transferase in the ethene and vinyl chloride biodegradation pathways of Mycobacterium strain JS60. J Bacteriol. 185:5536-5545.
– reference: 118. McClay, K., S.H. Streger, and R.J. Steffan. 1995. Induction of toluene oxidation activity in Pseudomonas mendocina KR1 and Pseudomonas sp. strain ENVPC5 by chlorinated solvents and alkanes. Appl Environ Microbiol. 61:3479-3481.
– reference: 132. Nelson, M.J.K., S.O. Montgomery, E.J. O’Neill, and P.H. Pritchard. 1986. Aerobic metabolism of trichloroethylene by a bacterial isolate. Appl Environ Microbiol. 52:383-384.
– reference: 57. Gibson, D.T., J.R. Koch, and R.E. Kallio. 1968. Oxidative degradation of aromatic hydrocarbons by microorganisms. I. Enzymatic formation of catechol from benzene. Biochemistry. 7:2653-2662.
– reference: 40. Coleman, N.V., and J.C. Spain. 2003. Distribution of the coenzyme M pathway of epoxide metabolism among ethene- and vinyl chloride-degrading Mycobacterium strains. Appl Environ Microbiol. 69:6041-6046.
– reference: 123. Morales, G., J.F. Linares, A. Beloso, J.P. Albar, J.L. Martínez, and F. Rojo. 2004. The Pseudomonas putida Crc global regulator controls the expression of genes from several chromosomal catabolic pathways for aromatic compounds. J Bacteriol. 186:1337-1344.
– reference: 157. Scholz-Muramatsu, H., A. Neumann, M. Meßmer, E. Moore, and G. Diekert. 1995. Isolation and characterization of Dehalospirillum multivorans gen. nov., sp. nov., a tetrachloroethene-utilizing, strictly anaerobic bacterium. Arch Microbiol. 163:48-56.
– reference: 142. Oldenhuis, R., R.L. Vink, D.B. Janssen, and B. Witholt. 1989. Degradation of chlorinated aliphatic hydrocarbons by Methylosinus trichosporium OB3b expressing soluble methane monooxygenase. Appl Environ Microbiol. 55:2819-2826.
– reference: 186. van Agteren, M.H., S. Keuning, and D.B. Janssen. 1998. Handbook on biodegradation and biological treatment of hazardous organic compounds. Kluwer Academic Publishers, Dordrecht, Netherland.
– reference: 73. Im, J., and J.D. Semrau. 2011. Pollutant degradation by a Methylocystis strain SB2 grown on ethanol: bioremediation via facultative methanotrophy. FEMS Microbiol Lett. 318:137-142.
– reference: 11. Aziz, C.E., G. Georgiou, and G.E. Speitel, Jr. 1999. Cometabolism of chlorinated solvents and binary chlorinated solvent mixtures using M. trichosporium OB3b PP358. Biotechnol Bioeng. 65:100-107.
– reference: 188. van Hylckama Vlieg, J.E.T., and D.B. Janssen. 2001. Formation and detoxification of reactive intermediates in the metabolism of chlorinated ethenes. J Biotechnol. 85:81-102.
– reference: 72. Hüsken, L.E., R. Beeftink, J.A. de Bont, and J. Wery. 2001. High-rate 3-methylcatechol production in Pseudomonas putida strains by means of a novel expression system. Appl Microbiol Biotechnol. 55:571-577.
– reference: 19. Bertoni, G., M. Martino, E. Galli, and P. Barbieri. 1998. Analysis of the gene cluster encoding toluene/o-xylene monooxygenase from Pseudomonas stutzeri OX1. Appl Environ Microbiol. 64:3626-3632.
– reference: 9. Aranda-Olmedo, I., P. Marín, J.L. Ramos, and S. Marqués. 2006. Role of the ptsN gene product in catabolite repression of the Pseudomonas putida TOL toluene degradation pathway in chemostat cultures. Appl Environ Microbiol. 72:7418-7421.
– reference: 140. Noguchi, M., F. Kurisu, I. Kasuga, and H. Furumai. 2014. Time-resolved DNA stable isotope probing links Desuldobacterales- and Coriobacteriaceae-related bacteria to anaerobic degradation of benzene under methanogenic conditions. Microbes Environ. 29:191-199.
– reference: 164. Smidt, H., and W.M. de Vos. 2004. Anaerobic microbial dehalogenation. Annu Rev Microbiol. 58:43-73.
– reference: 20. Bommer, M., C. Kunze, J. Fesseler, T. Schubert, G. Diekert, and H. Dobbek. 2014. Structural basis for organohalide respiration. Science. 346:455-458.
– reference: 136. Neumann, A., G. Wohlfarth, and G. Diekert. 1996. Purification and characterization of tetrachloroethene reductive dehalogenase from Dehalospirillum multivorans. J Biol Chem. 271:16515-16519.
– reference: 152. Radway, J.C., J.W. Santo Domingo, T.C. Hazen, and E.W. Wilde. 1998. Evaluation of biodegradation potential of foam embedded Burkholderia cepacia G4. Biotechnol Lett. 20:663-666.
– reference: 23. Brunner, W., D. Staub, and T. Leisinger. 1980. Bacterial degradation of dichloromethane. Appl Environ Microbiol. 40:950-958.
– reference: 84. Kitayama, A., T. Achioku, T. Yanagawa, K. Kanou, M. Kikuchi, H. Ueda, E. Suzuki, H. Nishimura, T. Nagamune, and Y. Kawakami. 1996. Cloning and characterization of extradiol aromatic ring-cleavage dioxygenases of Pseudomonas aeruginosa JI104. J Ferment Bioeng. 82:217-223.
– reference: 1. Achong, G.R., A.M. Rodriguez, and A.M. Spormann. 2001. Benzylsuccinate synthase of Azoarcus sp. strain T: cloning, sequencing, transcriptional organization, and its role in anaerobic toluene and m-xylene mineralization. J Bacteriol. 183:6763-6770.
– reference: 12. Baggi, G., P. Barbieri, E. Galli, and S. Tollari. 1987. Isolation of a Pseudomonas stutzeri strain that degrades o-xylene. Appl Environ Microbiol. 53:2129-2132.
– reference: 110. Major, D.W., M.L. McMaster, E.E. Cox, E.A. Edwards, S.M. Dworatzek, E.R. Hendrickson, M.G. Starr, J.A. Payne, and L.W. Buonamici. 2002. Field demonstration of successful bioaugmentation to achieve dechlorination of tetrachloroethene to ethene. Environ Sci Technol. 36:5106-5116.
– reference: 156. Schmid-Appert, M., K. Zoller, H. Traber, S. Vuilleumier, and T. Leisinger. 1997. Association of newly discovered IS elements with the dichloromethane utilization genes of methylotrophic bacteria. Microbiology. 143:2557-2567.
– reference: 15. Baldwin, B.R., A. Biernacki, J. Blair, M.P. Purchase, J.M. Baker, K. Sublette, G. Davis, and D. Ogles. 2010. Monitoring gene expression to evaluate oxygen infusion at a gasoline-contaminated site. Environ Sci Technol. 44:6829-6834.
– reference: 109. Maithreepala, R.A., and R.A. Doong. 2009. Transformation of carbon tetrachloride by biogenic iron species in the presence of Geobacter sulfurreducens and electron shuttles. J Hazard Mater. 164:337-344.
– reference: 92. Krone, U.E., K. Laufer, R.K. Thauer, and H.P. Hogenkamp. 1989. Coenzyme F430 as a possible catalyst for the reductive dehalogenation of chlorinated C1 hydrocarbons in methanogenic bacteria. Biochemistry. 28:10061-10065.
– reference: 198. Wang, S., K.R. Chng, C. Chen, D.L. Bedard, and J. He. 2015. Genomic characterization of Dehalococcoides mccartyi strain JNA that reductively dechlorinates tetrachloroethene and polychlorinated biphenyls. Environ Sci Technol. 49:14319-14325.
– reference: 139. Nijenhuis, I., M. Nikolausz, A. Koth, T. Felfoldi, H. Weiss, J. Drangmeister, J. Grobmann, M. Kastner, and H.-H. Richnow. 2007. Assessment of the natural attenuation of chlorinated ethenes in an anaerobic contaminated aquifer in the Bitterfeld/Wolfen area using stable isotope techniques, microcosm studies and molecular biomarkers. Chemosphere. 67:300-311.
– reference: 32. Cheng, D., and J. He. 2009. Isolation and characterization of “Dehalococcoides” sp. strain MB, which dechlorinates tetrachloroethene to trans-1,2-dichloroethene. Appl Environ Microbiol. 75:5910-5918.
– reference: 131. Nagarajan, K., and K.C. Loh. 2015. Formulation of microbial cocktails for BTEX biodegradation. Biodegradation. 26:51-63.
– reference: 180. United States Environmental Protection Agency. 2012. Fourth five-year review report, The Rose Township dump site Oakland County, Michigan. United States Environmental Protection Agency, Washington, DC.
– reference: 22. Bradley, P.M., and F.H. Chapelle. 2002. Microbial mineralization of ethene under sulfate-reducing conditions. Bioremediat J. 6:1-8.
– reference: 88. Koenig, J.C., K.D. Groissmeier, and M.J. Manefield. 2014. Tolerance of anaerobic bacteria to chlorinated solvents. Microbes Environ. 29:23-30.
– reference: 199. Weelink, S.A.B., M.H.A. van Eekert, and A.J.M. Stams. 2010. Degradation of BTEX by anaerobic bacteria: physiology and application. Rev Environ Sci Biotechnol. 9:359-385.
– reference: 6. Alvarez, P.J., and T.M. Vogel. 1991. Substrate interactions of benzene, toluene, and para-xylene during microbial degradation by pure cultures and mixed culture aquifer slurries. Appl Environ Microbiol. 57:2981-2985.
– reference: 120. Michener, J.K., A.A. Camargo Neves, S. Vuilleumier, F. Bringel, and C.J. Marx. 2014. Effective use of a horizontally-transferred pathway for dichloromethane catabolism requires post-transfer refinement. Elife. 3:e04279.
– reference: 2. Adamson, D.T., and G.F. Parkin. 2000. Impact of mixtures of chlorinated aliphatic hydrocarbons on a high-rate, tetrachloroethenedechlorinating enrichment culture. Environ Sci Technol. 34:1959-1965.
– reference: 149. Priya, V.S., and L. Philip. 2013. Biodegradation of dichloromethane along with other VOCs from pharmaceutical wastewater. Appl Biochem Biotechnol. 169:1197-1218.
– reference: 130. Muñoz, R., L.F. Díaz, S. Bordel, and S. Villaverde. 2007. Inhibitory effects of catechol accumulation on benzene biodegradation in Pseudomonas putida F1 cultures. Chemosphere. 68:244-252.
– reference: 204. Yang, X., D. Beckmann, S. Fiorenza, and C. Niedermeier. 2005. Field study of pulsed air sparging for remediation of petroleum hydrocarbon contaminated soil and groundwater. Environ Sci Technol. 39:7279-7286.
– reference: 194. Vogt, C., S. Kleinsteuber, and H.H. Richnow. 2011. Anaerobic benzene degradation by bacteria. Microb Biotechnol. 4:710-724.
– reference: 159. Shaw, J.P., and S. Harayama. 1992. Purification and characterisation of the NADH:acceptor reductase component of xylene monooxygenase encoded by the TOL plasmid pWW0 of Pseudomonas putida mt-2. Eur J Biochem. 209:51-61.
– reference: 205. Yarmoff, J.J., Y. Kawakami, T. Yago, H. Maruo, and H. Nishimura. 1988. cis-Benzeneglycol production using a mutant Pseudomonas strain. J Ferment Technol. 66:305-312.
– reference: 68. Hendrickx, B., H. Junca, J. Vosahlova, et al. 2006. Alternative primer sets for PCR detection of genotypes involved in bacterial aerobic BTEX degradation: distribution of the genes in BTEX degrading isolates and in subsurface soils of a BTEX contaminated industrial site. J Microbiol Methods. 64:250-265.
– reference: 211. Zylstra, G.J., W.R. McCombie, D.T. Gibson, and B.A. Finette. 1988. Toluene degradation by Pseudomonas putida F1: genetic organization of the tod operon. Appl Environ Microbiol. 54:1498-1503.
– reference: 95. Krumholz, L.R. 1997. Desulfuromonas chloroethenica sp. nov. uses tetrachloroethylene and trichloroethylene as electron acceptors. Int J Syst Bacteriol. 47:1262-1263.
– reference: 210. Zhang, M., and M. Yoshikawa. 2016. An overview of remediation technologies for sites contaminated with volatile organic compounds, p.295-301. Proceedings of Geo-Chicago 2016: Sustainability, Energy, and the Geoenvironment. ASCE Geotechnical Special Publication, Reston.
– reference: 93. Krone, U.E., R.K. Thauer, and H.P.C. Hogenkamp. 1989. Reductive dehalogenation of chlorinated C1-hydrocarbons mediated by corrinoids. Biochemistry. 28:4908-4914.
– reference: 75. Interstate Technology & Regulatory Council. 2013. Environmental Molecular Diagnostics, New Site Characterization and Remediation Enhancement Tools. EMD-2. Interstate Technology & Regulatory Council, Environmental Molecular Diagnostics Team, Washington, DC.
– reference: 27. Cafaro, V., E. Notomista, P. Capasso, and A. Di Donato. 2005. Regiospecificity of two multicomponent monooxygenases from Pseudomonas stutzeri OX1: molecular basis for catabolic adaptation of this microorganism to methylated aromatic compounds. Appl Environ Microbiol. 71:4736-4743.
– reference: 67. He, J., Y. Sung, R. Krajmalnik-Brown, K.M. Ritalahti, and F.E. Löffler. 2005. Isolation and characterization of Dehalococcoides sp. strain FL2, a trichloroethene (TCE)—and 1,2-dichloroethene-respiring anaerobe. Environ Microbiol. 7:1442-1450.
– reference: 42. Ding, C., S. Zhao, and J. He. 2014. A Desulfitobacterium sp. strain PR reductively dechlorinates both 1,1,1-trichloroethane and chloroform. Environ Microbiol. 16:3387-3397.
– reference: 153. Reij, M.W., J. Kieboom, J.A.M. de Bont, and S. Hartmans. 1995. Continuous degradation of trichloroethylene by Xanthobacter sp. strain Py2 during growth on propene. Appl Environ Microbiol. 61:2936-2942.
– reference: 62. Halsey, K.H., L.A. Sayavedra-Soto, P.J. Bottomley, and D.J. Arp. 2005. Trichloroethylene degradation by butane-oxidizing bacteria causes a spectrum of toxic effects. Appl Microbiol Biotechnol. 68:794-801.
– reference: 114. Martínez, C.M., L.H. Alvarez, and F.J. Cervantes. 2012. Simultaneous biodegradation of phenol and carbon tetrachloride mediated by humic acids. Biodegradation. 23:635-644.
– reference: 147. Petrovskis, E.A., T.M. Vogel, and P. Adriaens. 1994. Effects of electron acceptors and donors on transformation of tetrachloromethane by Shewanella putrefaciens MR-1. FEMS Microbiol Lett. 121:357-363.
– reference: 26. Byrne, A.M., J.J. Kukor, and R.H. Olsen. 1995. Sequence analysis of the gene cluster encoding toluene-3-monooxygenase from Pseudomonas pickettii PKO1. Gene. 154:65-70.
– reference: 197. Wagner, D.D., L.A. Hug, J.K. Hatt, M.R. Spitzmiller, E. Padilla-Crespo, K.M. Ritalahti, E.A. Edwards, K.T. Konstantinidis, and F.E. Löffler. 2012. Genomic determinants of organohalide-respiration in Geobacter lovleyi, an unusual member of the Geobacteraceae. BMC Genomics. 13:200.
– reference: 25. Bühler, B., A. Schmid, B. Hauer, and B. Witholt. 2000. Xylene monooxygenase catalyzes the multistep oxygenation of toluene and pseudocumene to corresponding alcohols, aldehydes, and acids in Escherichia coli JM101. J Biol Chem. 275:10085-10092.
– reference: 37. Coates, J.D., R. Chakraborty, and M.J. McInerney. 2002. Anaerobic benzene biodegradation—a new era. Res Microbiol. 153:621-628.
– reference: 89. Koh, S.C., J.P. Bowman, and G.S. Sayler. 1993. Soluble methane monooxygenase production and trichloroethylene degradation by a type I methanotroph, Methylomonas methanica 68-1. Appl Environ Microbiol. 59:960-967.
– reference: 125. Moreno, R., P. Fonseca, and F. Rojo. 2010. The Crc global regulator inhibits the Pseudomonas putida pWW0 toluene/xylene assimilation pathway by repressing the translation of regulatory and structural genes. J Biol Chem. 285:24412-24419.
– reference: 129. Müller, J.A., B.M. Rosner, G. Abendroth, G. Meshulam-Simon, P.L. McCarty, and A.M. Spormann. 2004. Molecular identification of the catabolic vinyl chloride reductase from Dehalococcoides sp. strain VS and its environmental distribution. Appl Environ Microbiol. 70:4880-4888.
– reference: 91. Krajmalnik-Brown, R., T. Hölscher, I.N. Thomson, F. Michael Saunders, K.M. Ritalahti, and F.E. Löffler. 2004. Genetic identification of a putative vinyl chloride reductase in Dehalococcoides sp. strain BAV1. Appl Environ Microbiol. 70:6347-6351.
– reference: 82. Keener, W.K., and D.J. Arp. 1994. Transformations of aromatic compounds by Nitrosomonas europaea. Appl Environ Microbiol. 60:1914-1920.
– reference: 97. Kunapuli, U., M.K. Jahn, T. Lueders, R. Geyer, H.J. Heipieper, and R.U. Meckenstock. 2010. Desulfitobacterium aromaticivorans sp. nov. and Geobacter toluenoxydans sp. nov., iron-reducing bacteria capable of anaerobic degradation of monoaromatic hydrocarbons. Int J Syst Evol Microbiol. 60:686-695.
– reference: 170. Tang, S., Y. Gong, and E.A. Edwards. 2012. Semi-automatic in silico gap closure enabled de novo assembly of two Dehalobacter genomes from metagenomic data. PLoS ONE. 7:e52038.
– reference: 17. Beller, H.R., and A.M. Spormann. 1999. Substrate range of benzylsuccinate synthase from Azoarcus sp. strain T. FEMS Microbiol Lett. 178:147-153.
– reference: 65. Hartmans, S., and J.A.M. de Bont. 1992. Aerobic vinyl chloride metabolism in Mycobacterium aurum L1. Appl Environ Microbiol. 58:1220-1226.
– reference: 103. Lontoh, S., and J.D. Semrau. 1998. Methane and trichloroethylene degradation by Methylosinus trichosporium OB3b expressing particulate methane monooxygenase. Appl Environ Microbiol. 64:1106-1114.
– reference: 43. DiSpirito, A.A., J. Gulledge, A.K. Shiemke, J.C. Murrell, M.E. Lidstrom, and C.L. Krema. 1992. Trichloroethylene oxidation by the membrane-associated methane monooxygenase in type I, type II, and type X methanotrophs. Biodegradation. 2:151-164.
– reference: 53. Foght, J. 2008. Anaerobic biodegradation of aromatic hydrocarbons: pathways and prospects. J Mol Microbiol Biotechnol. 15:93-120.
– reference: 104. Mägli, A., M. Wendt, and T. Leisinger. 1996. Isolation and characterization of Dehalobacterium formicoaceticum gen. nov. sp. nov., a strictly anaerobic bacterium utilizing dichloromethane as source of carbon and energy. Arch Microbiol. 166:101-108.
– reference: 113. Martin, K.E., J. Ozsvar, and N.V. Coleman. 2014. SmoXYB1C1Z of Mycobacterium sp. strain NBB4: a soluble methane monooxygenase (sMMO)-like enzyme, active on C2 to C4 alkanes and alkenes. Appl Environ Microbiol. 80:5801-5806.
– reference: 4. Alexander, M. 1994. Biodegradation and Bioremediation. Academic Press, San Diego.
– reference: 31. Chauhan, S., P. Barbieri, and T.K. Wood. 1998. Oxidation of trichloroethylene, 1,1-dichloroethylene, and chloroform by toluene/o-xylene monooxygenase from Pseudomonas stutzeri OX1. Appl Environ Microbiol. 64:3023-3024.
– reference: 13. Bagley, D.M., M. Lalonde, V. Kaseros, K.E. Stasiuk, and B.E. Sleep. 2000. Acclimation of anaerobic systems to biodegrade tetrachloroethene in the presence of carbon tetrachloride and chloroform. Water Res. 34:171-178.
– reference: 41. Deutscher, J. 2008. The mechanisms of carbon catabolite repression in bacteria. Curr Opin Microbiol. 11:87-93.
– reference: 115. Mattes, T.E., A.K. Alexander, and N.V. Coleman. 2010. Aerobic biodegradation of the chloroethenes: pathways, enzymes, ecology, and evolution. FEMS Microbiol Rev. 34:445-475.
– reference: 145. Patrauchan, M.A., C. Florizone, S. Eapen, L. Gómez-Gil, B. Sethuraman, M. Fukuda, J. Davies, W.W. Mohn, and L.D. Eltis. 2008. Roles of ring-hydroxylating dioxygenases in styrene and benzene catabolism in Rhodococcus jostii RHA1. J Bacteriol. 190:37-47.
– reference: 173. Tao, Y., A. Fishman, W.E. Bentley, and T.K. Wood. 2004. Oxidation of benzene to phenol, catechol, and 1,2,3-trihydroxybenzene by toluene 4-monooxygenase of Pseudomonas mendocina KR1 and toluene 3-monooxygenase of Ralstonia pickettii PKO1. Appl Environ Microbiol. 70:3814-3820.
– reference: 77. Juwarkar, A.A., S.K. Singh, and A. Mudhoo. 2010. A comprehensive overview of elements in bioremediation. Rev Environ Sci Biotechnol. 9:215-288.
– reference: 168. Suyama, A., M. Yamashita, S. Yoshino, and K. Furukawa. 2002. Molecular characterization of the PceA reductive dehalogenase of Desulfitobacterium sp. strain Y51. J Bacteriol. 184:3419-3425.
– reference: 106. Magnuson, J.K., R.V. Stern, J.M. Gossett, S.H. Zinder, and D.R. Burris. 1998. Reductive dechlorination of tetrachloroethene to ethene by a two-component enzyme pathway. Appl Environ Microbiol. 64:1270-1275.
– reference: 143. Olsen, R.H., J.J. Kukor, and B. Kaphammer. 1994. A novel toluene-3-monooxygenase pathway cloned from Pseudomonas pickettii PKO1. J Bacteriol. 176:3749-3756.
– reference: 162. Shim, H., and T.K. Wood. 2000. Aerobic degradation of mixtures of chlorinated aliphatics by cloned toluene-o-xylene monooxygenase and toluene o-monooxygenase in resting cells. Biotechnol Bioeng. 70:693-698.
– reference: 16. Ball, H.A., H.A. Johnson, M. Reinhard, and A.M. Spormann. 1996. Initial reactions in anaerobic ethylbenzene oxidation by a denitrifying bacterium, strain EB1. J Bacteriol. 178:5755-5761.
– reference: 18. Bertoni, G., F. Bolognese, E. Galli, and P. Barbieri. 1996. Cloning of the genes for and characterization of the early stages of toluene and o-xylene catabolism in Pseudomonas stutzeri OX1. Appl Environ Microbiol. 62:3704-3711.
– reference: 169. Suzuki, M., T. Hayakawa, J.P. Shaw, M. Rekik, and S. Harayama. 1991. Primary structure of xylene monooxygenase: similarities to and differences from the alkane hydroxylation system. J Bacteriol. 173:1690-1695.
– reference: 54. Furukawa, K., A. Suyama, Y. Tsuboi, T. Futagami, and M. Goto. 2005. Biochemical and molecular characterization of a tetrachloroethene dechlorinating Desulfitobacterium sp. strain Y51: a review. J Ind Microbiol Biotechnol. 32:534-541.
– reference: 30. Chapman, S.W., B.T. Byerley, D.J.A. Smyth, and D.M. Mackay. 1997. A pilot test of passive oxygen release for enhancement of in situ bioremediation of BTEX-contaminated ground water. Ground Water Monit Remed. 17:93-105.
– reference: 101. Liu, X., and T.E. Mattes. 2016. Epoxyalkane:coenzyme M transferase gene diversity and distribution in groundwater samples from chlorinated-ethene-contaminated sites. Appl Environ Microbiol. 82:3269-3279.
– reference: 183. United States Environmental Protection Agency. 2014. Basewide five-year reviews Dover air force base, Delaware. United States Environmental Protection Agency, Washington, DC.
– reference: 167. Sung, Y., K.M. Ritalahti, R.P. Apkarian, and F.E. Löffler. 2006. Quantitative PCR confirms purity of strain GT, a novel trichloroetheneto-ethene-respiring Dehalococcoides isolate. Appl Environ Microbiol. 72:1980-1987.
– reference: 99. Lee, E.-H., J. Kim, K.-S. Cho, Y.G. Ahn, and G.-S. Hwang. 2010. Degradation of hexane and other recalcitrant hydrocarbons by a novel isolate, Rhodococcus sp. EH831. Environ Sci Poll Res. 17:64-77.
– reference: 63. Hamamura, N., C. Page, T. Long, L. Semprini, and D.J. Arp. 1997. Chloroform cometabolism by butane-grown CF8, Pseudomonas butanovora, and Mycobacterium vaccae JOB5 and methane-grown Methylosinus trichosporium OB3b. Appl Environ Microbiol. 63:3607-3613.
– reference: 133. Nelson, M.J.K., S.O. Montgomery, W.R. Mahaffey, and P.H. Pritchard. 1987. Biodegradation of trichloroethylene and involvement of an aromatic biodegradative pathway. Appl Environ Microbiol. 53:949-954.
– reference: 208. Yoshikawa, M., M. Zhang, and K. Toyota. 2017. Integrated anaerobic-aerobic biodegradation of multiple contaminants including chlorinated ethylenes, benzene, toluene and dichloromethane. Water Air Soil Pollut. 228:25.
– reference: 182. United States Environmental Protection Agency. 2013. Introduction to in situ bioremediation of groundwater. United States Environmental Protection AgencyEPA 542-R-13-018Washington, DC.
– reference: 148. Pöritz, M., T. Goris, T. Wubet, M.T. Tarkka, F. Buscot, I. Nijenhuis, U. Lechner, and L. Adrian. 2013. Genome sequences of two dehalogenation specialists—Dehalococcoides mccartyi strains BTF08 and DCMB5 enriched from the highly polluted Bitterfeld region. FEMS Microbiol Lett. 343:101-104.
– reference: 206. Yeager, C.M., K.M. Arthur, P.J. Bottomley, and D.J. Arp. 2004. Trichloroethylene degradation by toluene-oxidizing bacteria grown on non-aromatic substrates. Biodegradation. 15:19-28.
– reference: 87. Koenig, J.C., M.J. Lee, and M. Manefield. 2012. Successful microcosm demonstration of a strategy for biodegradation of a mixture of carbon tetrachloride and perchloroethene harnessing sulfate reducing and dehalorespiring bacteria. J Hazard Mater. 219–220:169-175.
– reference: 160. Shields, M.S., S.O. Montgomery, P.J. Chapman, S.M. Cuskey, and P.H. Pritchard. 1989. Novel pathway of toluene catabolism in the trichloroethylene-degrading bacterium G4. Appl Environ Microbiol. 55:1624-1629.
– reference: 29. Castro, C.E., R.S. Wade, and N.O. Belser. 1985. Biodehalogenation: reactions of cytochrome P-450 with polyhalomethanes. Biochemistry. 24:204-210.
– reference: 177. United States Environmental Protection Agency. 2008. Final comprehensive five-year ROD review report, Third five-year ROD review for Allegany Ballistics Laboratory. United States Environmental Protection Agency, Washington, DC.
– reference: 172. Tang, S., and E.A. Edwards. 2013. Identification of Dehalobacter reductive dehalogenases that catalyse dechlorination of chloroform, 1,1,1-trichloroethane and 1,1-dichloroethane. Philos Trans R Soc Lond, B, Biol Sci. 368:20120318.
– reference: 151. Rabus, R., and F. Widdel. 1995. Anaerobic degradation of ethylbenzene and other aromatic hydrocarbons by new denitrifying bacteria. Arch Microbiol. 163:96-103.
– reference: 44. Dolfing, J., J. Zeyer, E.P. Binder, and R.P. Schwarzenbach. 1990. Isolation and characterization of a bacterium that mineralizes toluene in the absence of molecular oxygen. Arch Microbiol. 154:336-341.
– reference: 201. Wilson, J.T., and B.H. Wilson. 1985. Biotransformation of trichloroethylene in soil. Appl Environ Microbiol. 49:242-243.
– reference: 150. Rabus, R., R. Nordhaus, W. Ludwig, and F. Widdel. 1993. Complete oxidation of toluene under strictly anoxic conditions by a new sulfate-reducing bacterium. Appl Environ Microbiol. 59:1444-1451.
– reference: 171. Tang, S., W.W.M. Chan, K.E. Fletcher, J. Seifert, X. Liang, F.E. Löffler, E.A. Edwards, and L. Adrian. 2013. Functional characterization of reductive dehalogenases by using blue native polyacrylamide gel electrophoresis. Appl Environ Microbiol. 79:974-981.
– reference: 96. Kuhn, E.P., P.J. Colberg, J.L. Schnoor, O. Wanner, A.J.P. Zehnder, and R.P. Schwarzenbach. 1985. Microbial transformations of substituted benzenes during infiltration of river water to groundwater: laboratory column studies. Environ Sci Technol. 19:961-968.
– reference: 46. Egli, C., T. Tschan, R. Scholtz, A.M. Cook, and T. Leisinger. 1988. Transformation of tetrachloromethane to dichloromethane and carbon dioxide by Acetobacterium woodii. Appl Environ Microbiol. 54:2819-2824.
– reference: 69. Higashioka, Y., H. Kojima, and M. Fukui. 2012. Isolation and characterization of novel sulfate-reducing bacterium capable of anaerobic degradation of p-xylene. Microbes Environ. 27:273-277.
– reference: 127. Muller, E.E.L., F. Bringel, and S. Vuilleumier. 2011. Dichloromethane-degrading bacteria in the genomic age. Res Microbiol. 162:869-876.
– reference: 154. Robinson, G.K., G.M. Stephens, H. Dalton, and P.J. Geary. 1992. The production of catechols from benzene and toluene by Pseudomonas putida in glucose fed-batch culture. Biocatalysis. 6:81-100.
– reference: 35. Christensen, T.H., P. Kjeldsen, H.-J. Albrechtsen, G. Heron, P.H. Nielsen, P.L. Bjerg, and P.E. Holm. 1994. Attenuation of landfill leachate pollutants in aquifers. Crit Rev Environ Sci Technol. 24:119-202.
– reference: 134. Nelson, M.J.K., A.O. Montgomery, and P.H. Pritchard. 1988. Trichloroethylene metabolism by microorganisms that degrade aromatic compounds. Appl Environ Microbiol. 54:604-606.
– reference: 48. Ellis, D.E., E.J. Lutz, J.M. Odom, R.J. Buchanan, C.L. Bartlett, M.D. Lee, M.R. Harkness, and K.A. Deweerd. 2000. Bioaugmentation for accelerated in situ anaerobic bioremediation. Environ Sci Technol. 34:2254-2260.
– reference: 8. Araki, N., K. Chino, D. Kasai, E. Masai, and M. Fukuda. 2014. Degradation of cis-1,2-dichloroethylene by Rhodococcus jostii RHA1. The 66th Annual Meeting of the Society of Biotechnology of Japan 3P-091(in Japanese).
– reference: 137. Neumann, A., G. Wohlfarth, and G. Diekert. 1998. Tetrachloroethene dehalogenase from Dehalospirillum multivorans: cloning, sequencing of the encoding genes, and expression of the pceA gene in Escherichia coli. J Bacteriol. 180:4140-4145.
– reference: 107. Magnuson, J.K., M.F. Romine, D.R. Burris, and M.T. Kingsley. 2000. Trichloroethene reductive dehalogenase from Dehalococcoides ethenogenes: Sequence of tceA and substrate range characterization. Appl Environ Microbiol. 66:5141-5147.
– reference: 85. Kitayama, A., E. Suzuki, Y. Kawakami, and T. Nagamune. 1996. Gene organization and low regiospecificity in aromatic-ring hydroxylation of a benzene monooxygenase of Pseudomonas aeruginosa JI104. J Ferment Bioeng. 82:421-425.
– reference: 49. Elsgaard, L. 2013. Reductive transformation and inhibitory effect of ethylene under methanogenic conditions in peat-soil. Soil Biol Biochem. 60:19-22.
– reference: 144. Parsons, . 2004. Principles and practices of enhanced anaerobic bioremediation of chlorinated solvents. Air Force Center for Environmental Excellence, Brooks City-Base, Texas: Naval Facilities Engineering Service Center, Port Hueneme, California: Environmental Security Technology Certification Program, Arlington, Virginia.
– reference: 52. Fishman, A., Y. Tao, and T.K. Wood. 2004. Toluene 3-monooxygenase of Ralstonia pickettii PKO1 is a para-hydroxylating enzyme. J Bacteriol. 186:3117-3123.
– reference: 66. He, J., K.M. Ritalahti, K.L. Yang, S.S. Koenigsberg, and F.E. Löffler. 2003. Detoxification of vinyl chloride to ethene coupled to growth of an anaerobic bacterium. Nature. 424:62-65.
– reference: 98. Leahy, J.G., A.M. Byrne, and R.H. Olsen. 1996. Comparison of factors influencing trichloroethylene degradation by toluene-oxidizing bacteria. Appl Environ Microbiol. 62:825-833.
– reference: 209. Yu, H., B.J. Kim, and B.E. Rittmann. 2001. A two-step model for the kinetics of BTX degradation and intermediate formation by Pseudomonas putida F1. Biodegradation. 12:465-475.
– reference: 179. United States Environmental Protection Agency. 2012. Final first five-year review report. National Aeronautics and Space Administration Jet Propulsion Laboratory, United States Environmental Protection Agency, Washington, DC.
– reference: 190. Vardar, G., and T.K. Wood. 2004. Protein engineering of toluene-oxylene monooxygenase from Pseudomonas stutzeri OX1 for synthesizing 4-methylresorcinol, methylhydroquinone, and pyrogallol. Appl Environ Microbiol. 70:3253-3262.
– reference: 116. Maymó-Gatell, X., Y.T. Chien, J.M. Gossett, and S.H. Zinder. 1997. Isolation of a bacterium that reductively dechlorinates tetrachloroethene to ethene. Science. 276:1568-1571.
– reference: 207. Yoshikawa, M., M. Zhang, and K. Toyota. 2016. Enhancement and biological characteristics related to aerobic biodegradation of toluene with co-existence of benzene. Water Air Soil Pollut. 227:340.
– reference: 3. Alexander, M. 1967. The breakdown of pesticides in soils, p.331-342. In N.C. Brady (ed.), Agriculture and the Quality of Our Environment. American Association for the Advancement of Science, Washington, D.C.
– reference: 185. United States Environmental Protection Agency. 2015. Fourth five-year review report for the Colesville municipal landfill site. United States Environmental Protection Agency, Washington, DC.
– reference: 55. Futamata, H., S. Kaiya, M. Sugawara, and A. Hiraishi. 2009. Phylogenetic and transcriptional analyses of a tetrachloroethenedechlorinating “Dehalococcoides” enrichment culture TUT2264 and its reductive-dehalogenase genes. Microbes Environ. 24:330-337.
– reference: 174. Tsien, H.C., G.A. Brusseau, R.S. Hanson, and L.P. Wackett. 1989. Biodegradation of trichloroethylene by Methylosinus trichosporium OB3b. Appl Environ Microbiol. 55:3155-3161.
– reference: 193. Vidali, M. 2001. Bioremediation. An overview. Pure Appl Chem. 73:1163-1172.
– reference: 165. Sun, A.K., and T.K. Wood. 1996. Trichloroethylene degradation and mineralization by pseudomonads and Methylosinus trichosporium OB3b. Appl Microbiol Biotechnol. 45:248-256.
– reference: 59. Gibson, T.L., A.S. Abdul, and R.H. Olsen. 1988. Microbial degradation of aromatic hydrocarbons in hydrogeological materials: microcosm studies, p.53-69.Proceedings of the Second National Outdoor Action Conference on Aquifer RestorationGroundwater and Geophysical Methods. 1. National Water Well Association, Dublin, Ohio.
– reference: 80. Kasahara, Y., H. Morimoto, M. Kuwano, and R. Kadoya. 2012. Genome-wide analytical approaches using semi-quantitative expression proteomics for aromatic hydrocarbon metabolism in Pseudomonas putida F1. J Microbiol Methods. 91:434-442.
– reference: 161. Shields, M.S., S.O. Montgomery, S.M. Cuskey, P.J. Chapman, and P.H. Pritchard. 1991. Mutants of Pseudomonas cepacia G4 defective in catabolism of aromatic compounds and trichloroethylene. Appl Environ Microbiol. 57:1935-1941.
– reference: 36. Coates, J.D., V.K. Bhupathiraju, L.A. Achenbach, M.J. Mclnerney, and D.R. Lovley. 2001. Geobacter hydrogenophilus, Geobacter chapellei and Geobacter grbiciae, three new, strictly anaerobic, dis-similatory Fe(III)-reducers. Int J Syst Evol Microbiol. 51:581-588.
– reference: 138. Newman, L.M., and L.P. Wackett. 1995. Purification and characterization of toluene 2-monooxygenase from Burkholderia cepacia G4. Biochemistry. 34:14066-14076.
– reference: 45. Duhamel, M., S.D. Wehr, L. Yu, H. Rizvi, D. Seepersad, S. Dworatzek, E.E. Cox, and E.A. Edwards. 2002. Comparison of anaerobic dechlorinating enrichment cultures maintained on tetrachloroethene, trichloroethene, cis-dichloroethene and vinyl chloride. Water Res. 36:4193-4202.
– reference: 163. Shinoda, Y., Y. Sakai, H. Uenishi, Y. Uchihashi, A. Hiraishi, H. Yukawa, H. Yurimoto, and N. Kato. 2004. Aerobic and anaerobic toluene degradation by a newly isolated denitrifying bacterium, Thauera sp. strain DNT-1. Appl Environ Microbiol. 70:1385-1392.
– reference: 126. Moreno, R., P. Fonseca, and F. Rojo. 2012. Two small RNAs, CrcY and CrcZ, act in concert to sequester the Crc global regulator in Pseudomonas putida, modulating catabolite repression. Mol Microbiol. 83:24-40.
– reference: 78. Kang, J.W., and S.L. Doty. 2014. Cometabolic degradation of trichloroethylene by Burkholderia cepacia G4 with poplar leaf homogenate. Can J Microbiol. 60:487-490.
– reference: 166. Sung, Y., K.E. Fletcher, K.M. Ritalahti, R.P. Apkarian, N. Ramos-Hernandez, R.A. Sanford, N.M. Mesbah, and F.E. Löffler. 2006. Geobacter lovleyi sp. nov. strain SZ, a novel metal-reducing and tetrachloroethene-dechlorinating bacterium. Appl Environ Microbiol. 72:2775-2782.
– reference: 74. Inouye, S., A. Nakazawa, and T. Nakazawa. 1981. Molecular cloning of TOL genes xylB and xylE in Escherichia coli. J Bacteriol. 145:1137-1143.
– reference: 34. Chow, W.L., D. Cheng, S. Wang, and J. He. 2010. Identification and transcriptional analysis of trans-DCE-producing reductive dehalogenases in Dehalococcoides species. ISME J. 4:1020-1030.
– reference: 212. Zylstra, G.J., and D.T. Gibson. 1989. Toluene degradation by Pseudomonas putida F1. J Biol Chem. 264:14940-14946.
– reference: 195. Wackett, L.P., and D.T. Gibson. 1988. Degradation of trichloroethylene by toluene dioxygenase in whole-cell studies with Pseudomonas putida F1. Appl Environ Microbiol. 54:1703-1708.
– reference: 5. Altenschmidt, U., and G. Fuchs. 1991. Anaerobic degradation of toluene in denitrifying Pseudomonas sp.: indication for toluene methylhydroxylation and benzoyl-CoA as central aromatic intermediate. Arch Microbiol. 156:152-158.
– reference: 155. Ryoo, D., H. Shim, K. Canada, P. Barbieri, and T.K. Wood. 2000. Aerobic degradation of tetrachloroethylene by toluene-o-xylene monooxygenase of Pseudomonas stutzeri OX1. Nat Biotechnol. 18:775-778.
– reference: 21. Bordel, S., R. Muñoz, L.F. Díaz, and S. Villaverde. 2007. New insights on toluene biodegradation by Pseudomonas putida F1: influence of pollutant concentration and excreted metabolites. Appl Microbiol Biotechnol. 74:857-866.
– reference: 7. Alvarez-Cohen, L., and P.L. McCarty. 1991. Product toxicity and cometabolic competitive inhibition modeling of chloroform and trichloroethylene transformation by methanotrophic resting cells. Appl Environ Microbiol. 57:1031-1037.
– reference: 102. Löffler, F.E., J. Yan, K.M. Ritalahti, L. Adrian, E.A. Edwards, K.T. Konstantinidis, J.A. Müller, H. Fullerton, S.H. Zinder, and A.M. Spormann. 2013. Dehalococcoides mccartyi gen. nov., sp. nov., obligately organohalide-respiring anaerobic bacteria relevant to halogen cycling and bioremediation, belong to a novel bacterial class, Dehalococcoidia classis nov., order Dehalococcoidales ord. nov. and family Dehalococcoidaceae fam. nov., within the phylum Chloroflexi. Int J Syst Evol Microbiol. 63:625-635.
– reference: 135. Neumann, A., H. Scholz-Muramatsu, and G. Diekert. 1994. Tetrachloroethene metabolism of Dehalospirillum multivorans. Arch Microbiol. 162:295-301.
– reference: 61. Grostern, A., M. Duhamel, S. Dworatzek, and E.A. Edwards. 2010. Chloroform respiration to dichloromethane by a Dehalobacter population. Environ Microbiol. 12:1053-1060.
– reference: 79. Kao, C.M., C.Y. Chen, S.C. Chen, H.Y. Chien, and Y.L. Chen. 2008. Application of in situ biosparging to remediate a petroleum-hydrocarbon spill site: Field and microbial evaluation. Chemosphere. 70:1492-1499.
– reference: 141. Oh, Y.S., Z. Shareefdeen, B.C. Baltzis, and R. Bartha. 1994. Interactions between benzene, toluene, and p-xylene (BTX) during their biodegradation. Biotechnol Bioeng. 44:533-538.
– reference: 24. Bucheli-Witschel, M., T. Hafner, I. Rüegg, and T. Egli. 2009. Benzene degradation by Ralstonia pickettii PKO1 in the presence of the alternative substrate succinate. Biodegradation. 20:419-431.
– reference: 176. United States Environmental Protection Agency. 2006. Final five-year review report for Brookhaven National Laboratory Superfund Site, Town of Brookhaven. United States Environmental Protection Agency, Washington, DC.
– reference: 112. Mars, A.E., G.T. Prins, P. Wietzes, W. de Koning, and D.B. Janssen. 1998. Effect of trichloroethylene on the competitive behavior of toluene-degrading bacteria. Appl Environ Microbiol. 64:208-215.
– reference: 38. Coleman, N.V., T.E. Mattes, J.M. Gossett, and J.C. Spain. 2002. Biodegradation of cis-dichloroethene as the sole carbon source by a β-proteobacterium. Appl Environ Microbiol. 68:2726-2730.
– reference: 181. United States Environmental Protection Agency. 2013. Superfund remedy report, 14th ed. United States Environmental Protection Agency, EPA 542-R-13-016, Washington, DC.
– ident: 141
  doi: 10.1002/bit.260440417
– ident: 161
  doi: 10.1128/AEM.57.7.1935-1941.1991
– ident: 212
  doi: 10.1016/S0021-9258(18)63793-7
– ident: 130
  doi: 10.1016/j.chemosphere.2007.01.016
– ident: 51
  doi: 10.1128/AEM.62.1.61-66.1996
– ident: 47
  doi: 10.1007/s00253-006-0424-4
– ident: 97
– ident: 137
  doi: 10.1128/JB.180.16.4140-4145.1998
– ident: 211
  doi: 10.1128/AEM.54.6.1498-1503.1988
– ident: 164
  doi: 10.1146/annurev.micro.58.030603.123600
– ident: 88
  doi: 10.1264/jsme2.ME13113
– ident: 60
  doi: 10.1186/1944-3277-10-15
– ident: 153
  doi: 10.1128/aem.61.8.2936-2942.1995
– ident: 35
  doi: 10.1080/10643389409388463
– ident: 52
  doi: 10.1128/JB.186.10.3117-3123.2004
– ident: 127
  doi: 10.1016/j.resmic.2011.01.008
– ident: 21
  doi: 10.1007/s00253-006-0724-8
– ident: 82
  doi: 10.1128/AEM.60.6.1914-1920.1994
– ident: 147
  doi: 10.1111/j.1574-6968.1994.tb07126.x
– ident: 66
  doi: 10.1038/nature01717
– ident: 31
  doi: 10.1128/AEM.64.8.3023-3024.1998
– ident: 150
  doi: 10.1128/AEM.59.5.1444-1451.1993
– ident: 175
  doi: 10.1186/s40793-015-0095-9
– ident: 193
  doi: 10.1351/pac200173071163
– ident: 23
  doi: 10.1128/AEM.40.5.950-958.1980
– ident: 69
  doi: 10.1264/jsme2.ME11357
– ident: 10
  doi: 10.1016/0006-291X(89)90042-9
– ident: 17
  doi: 10.1111/j.1574-6968.1999.tb13771.x
– ident: 4
– ident: 188
  doi: 10.1016/S0168-1656(00)00364-3
– ident: 168
  doi: 10.1128/JB.184.13.3419-3425.2002
– ident: 126
  doi: 10.1111/j.1365-2958.2011.07912.x
– ident: 140
  doi: 10.1264/jsme2.ME13104
– ident: 73
  doi: 10.1111/j.1574-6968.2011.02249.x
– ident: 38
  doi: 10.1128/AEM.68.6.2726-2730.2002
– ident: 186
  doi: 10.1007/978-94-015-9062-4
– ident: 181
– ident: 170
  doi: 10.1371/journal.pone.0052038
– ident: 68
  doi: 10.1016/j.mimet.2005.04.018
– ident: 7
  doi: 10.1128/AEM.57.4.1031-1037.1991
– ident: 33
  doi: 10.1128/AEM.02809-12
– ident: 133
  doi: 10.1128/AEM.53.5.949-954.1987
– ident: 139
  doi: 10.1016/j.chemosphere.2006.09.084
– ident: 194
  doi: 10.1111/j.1751-7915.2011.00260.x
– ident: 58
  doi: 10.1021/bi00809a023
– ident: 110
  doi: 10.1021/es0255711
– ident: 134
  doi: 10.1128/AEM.54.2.604-606.1988
– ident: 199
  doi: 10.1007/s11157-010-9219-2
– ident: 99
  doi: 10.1007/s11356-009-0238-x
– ident: 77
  doi: 10.1007/s11157-010-9215-6
– ident: 129
  doi: 10.1128/AEM.70.8.4880-4888.2004
– ident: 119
  doi: 10.1128/AEM.62.8.2716-2722.1996
– ident: 39
  doi: 10.1128/JB.185.18.5536-5545.2003
– ident: 160
  doi: 10.1128/AEM.55.6.1624-1629.1989
– ident: 171
  doi: 10.1128/AEM.01873-12
– ident: 146
  doi: 10.1111/j.1574-6941.2010.00935.x
– ident: 196
  doi: 10.1128/AEM.55.11.2960-2964.1989
– ident: 152
  doi: 10.1023/A:1005366406453
– ident: 206
  doi: 10.1023/B:BIOD.0000009947.09125.35
– ident: 63
  doi: 10.1128/AEM.63.9.3607-3613.1997
– ident: 6
  doi: 10.1128/AEM.57.10.2981-2985.1991
– ident: 176
– ident: 92
  doi: 10.1021/bi00452a027
– ident: 189
  doi: 10.1128/AEM.56.4.1169-1171.1990
– ident: 109
  doi: 10.1016/j.jhazmat.2008.08.007
– ident: 20
  doi: 10.1126/science.1258118
– volume: 13
  start-page: 200
  issn: 1471-2164
  year: 2012
  ident: 197
  publication-title: BMC Genomics
  doi: 10.1186/1471-2164-13-200
– ident: 85
  doi: 10.1016/S0922-338X(97)86976-0
– ident: 111
  doi: 10.1021/es1023459
– ident: 29
  doi: 10.1021/bi00322a029
– ident: 75
– ident: 201
  doi: 10.1128/AEM.49.1.242-243.1985
– ident: 182
– ident: 14
  doi: 10.1128/AEM.69.6.3350-3358.2003
– ident: 8
– ident: 209
  doi: 10.1023/A:1015012913426
– ident: 116
  doi: 10.1126/science.276.5318.1568
– ident: 144
– ident: 120
  doi: 10.7554/eLife.04279
– ident: 104
– ident: 18
  doi: 10.1128/AEM.62.10.3704-3711.1996
– ident: 9
  doi: 10.1128/AEM.01067-06
– ident: 165
  doi: 10.1007/s002530050679
– ident: 16
  doi: 10.1128/jb.178.19.5755-5761.1996
– ident: 34
  doi: 10.1038/ismej.2010.27
– ident: 191
  doi: 10.1002/1097-0290(2000)71:4<274::AID-BIT1017>3.0.CO;2-Z
– ident: 76
– ident: 96
  doi: 10.1021/es00140a013
– ident: 166
– ident: 42
– ident: 3
– ident: 81
  doi: 10.1128/JB.182.19.5433-5439.2000
– ident: 80
  doi: 10.1016/j.mimet.2012.09.017
– ident: 173
  doi: 10.1128/AEM.70.7.3814-3820.2004
– ident: 30
  doi: 10.1111/j.1745-6592.1997.tb01282.x
– ident: 143
  doi: 10.1128/jb.176.12.3749-3756.1994
– ident: 11
  doi: 10.1002/(SICI)1097-0290(19991005)65:1<100::AID-BIT12>3.0.CO;2-1
– ident: 121
– ident: 203
  doi: 10.1128/AEM.64.6.2006-2012.1998
– ident: 102
– ident: 177
– ident: 27
  doi: 10.1128/AEM.71.8.4736-4743.2005
– ident: 103
  doi: 10.1128/AEM.64.3.1106-1114.1998
– ident: 198
  doi: 10.1021/acs.est.5b01979
– ident: 131
  doi: 10.1007/s10532-014-9715-0
– ident: 135
  doi: 10.1007/BF00301854
– ident: 155
  doi: 10.1038/77344
– ident: 46
  doi: 10.1128/AEM.54.11.2819-2824.1988
– ident: 12
  doi: 10.1128/AEM.53.9.2129-2132.1987
– ident: 28
  doi: 10.1007/s00253-012-4494-1
– ident: 94
  doi: 10.1128/AEM.62.11.4108-4113.1996
– ident: 123
  doi: 10.1128/JB.186.5.1337-1344.2004
– ident: 163
  doi: 10.1128/AEM.70.3.1385-1392.2004
– ident: 210
  doi: 10.1061/9780784480168.030
– ident: 183
– ident: 15
  doi: 10.1021/es101356t
– ident: 50
  doi: 10.1128/AEM.58.9.3038-3046.1992
– ident: 48
  doi: 10.1021/es990638e
– ident: 22
  doi: 10.1080/10889860290777431
– ident: 61
  doi: 10.1111/j.1462-2920.2009.02150.x
– ident: 1
– ident: 117
  doi: 10.1021/es001285i
– ident: 125
  doi: 10.1074/jbc.M110.126615
– ident: 59
– ident: 71
– ident: 172
– ident: 138
  doi: 10.1021/bi00043a012
– ident: 54
– ident: 113
– ident: 128
  doi: 10.1111/j.1462-2920.2011.02524.x
– ident: 13
  doi: 10.1016/S0043-1354(99)00121-9
– ident: 122
  doi: 10.1264/jsme2.ME14127
– ident: 107
  doi: 10.1128/AEM.66.12.5141-5147.2000
– ident: 190
  doi: 10.1128/AEM.70.6.3253-3262.2004
– ident: 74
  doi: 10.1128/JB.145.3.1137-1143.1981
– ident: 79
  doi: 10.1016/j.chemosphere.2007.08.029
– ident: 200
  doi: 10.1128/jb.173.9.3010-3016.1991
– ident: 115
  doi: 10.1111/j.1574-6976.2010.00210.x
– ident: 83
  doi: 10.1128/AEM.01695-08
– ident: 112
  doi: 10.1128/AEM.64.1.208-215.1998
– ident: 26
  doi: 10.1016/0378-1119(94)00844-I
– ident: 55
  doi: 10.1264/jsme2.ME09133
– ident: 90
  doi: 10.1128/JB.162.2.676-681.1985
– ident: 105
  doi: 10.1128/AEM.64.2.646-650.1998
– ident: 178
– ident: 41
  doi: 10.1016/j.mib.2008.02.007
– ident: 108
  doi: 10.1128/AEM.69.8.4628-4638.2003
– ident: 32
– ident: 93
  doi: 10.1021/bi00437a057
– ident: 100
  doi: 10.1046/j.1365-2958.1998.00826.x
– ident: 154
  doi: 10.3109/10242429209014885
– ident: 24
  doi: 10.1007/s10532-008-9233-z
– ident: 184
– ident: 205
  doi: 10.1016/0385-6380(88)90109-4
– ident: 204
  doi: 10.1021/es050084h
– ident: 192
  doi: 10.1021/es002064f
– ident: 86
  doi: 10.1111/j.1462-2920.2007.01427.x
– ident: 84
  doi: 10.1016/0922-338X(96)88811-8
– ident: 207
  doi: 10.1007/s11270-016-3050-5
– ident: 167
  doi: 10.1128/AEM.72.3.1980-1987.2006
– ident: 2
  doi: 10.1021/es990809f
– ident: 53
  doi: 10.1159/000121324
– ident: 169
  doi: 10.1128/jb.173.5.1690-1695.1991
– ident: 57
  doi: 10.1021/bi00847a031
– ident: 62
  doi: 10.1007/s00253-005-1944-z
– ident: 91
  doi: 10.1128/AEM.70.10.6347-6351.2004
– ident: 156
  doi: 10.1099/00221287-143-8-2557
– ident: 5
– ident: 149
  doi: 10.1007/s12010-012-0005-1
– ident: 124
  doi: 10.1128/JB.01604-07
– ident: 49
  doi: 10.1016/j.soilbio.2013.01.010
– ident: 132
  doi: 10.1128/AEM.52.2.383-384.1986
– ident: 174
  doi: 10.1128/AEM.55.12.3155-3161.1989
– ident: 195
  doi: 10.1128/AEM.54.7.1703-1708.1988
– ident: 145
  doi: 10.1128/JB.01122-07
– ident: 114
  doi: 10.1007/s10532-012-9539-8
– ident: 43
  doi: 10.1007/BF00124489
– ident: 159
  doi: 10.1111/j.1432-1033.1992.tb17260.x
– ident: 45
  doi: 10.1016/S0043-1354(02)00151-3
– ident: 148
  doi: 10.1111/1574-6968.12160
– ident: 25
  doi: 10.1074/jbc.275.14.10085
– ident: 70
  doi: 10.1128/AEM.59.9.2991-2997.1993
– ident: 37
  doi: 10.1016/S0923-2508(02)01378-5
– ident: 95
– ident: 208
  doi: 10.1007/s11270-016-3216-1
– ident: 179
– ident: 187
  doi: 10.1128/AEM.62.9.3304-3312.1996
– ident: 40
  doi: 10.1128/AEM.69.10.6041-6046.2003
– ident: 185
– ident: 36
  doi: 10.1099/00207713-51-2-581
– ident: 151
  doi: 10.1007/BF00381782
– ident: 158
  doi: 10.1126/science.1102226
– ident: 19
  doi: 10.1128/AEM.64.10.3626-3632.1998
– ident: 78
  doi: 10.1139/cjm-2014-0095
– ident: 89
  doi: 10.1128/AEM.59.4.960-967.1993
– ident: 65
  doi: 10.1128/AEM.58.4.1220-1226.1992
– ident: 67
– ident: 98
  doi: 10.1128/AEM.62.3.825-833.1996
– ident: 142
  doi: 10.1128/AEM.55.11.2819-2826.1989
– ident: 64
  doi: 10.1007/BF01166208
– ident: 157
– ident: 72
  doi: 10.1007/s002530000566
– ident: 118
– ident: 87
  doi: 10.1016/j.jhazmat.2012.03.076
– ident: 106
  doi: 10.1128/AEM.64.4.1270-1275.1998
– ident: 202
  doi: 10.1128/JB.124.1.7-13.1975
– ident: 56
  doi: 10.1128/AEM.65.12.5212-5221.1999
– ident: 44
  doi: 10.1007/BF00276528
– ident: 136
  doi: 10.1074/jbc.271.28.16515
– ident: 162
  doi: 10.1002/1097-0290(20001220)70:6<693::AID-BIT12>3.0.CO;2-W
– ident: 101
  doi: 10.1128/AEM.00673-16
– ident: 180
– reference: 24428759 - Environ Microbiol. 2014 Nov;16(11):3387-97
– reference: 11718337 - Environ Sci Technol. 2001 Nov 1;35(21):4242-51
– reference: 17136537 - Appl Microbiol Biotechnol. 2007 Mar;74(4):857-66
– reference: 1905516 - Appl Environ Microbiol. 1991 Apr;57(4):1031-7
– reference: 2559772 - Biochemistry. 1989 Dec 26;28(26):10061-5
– reference: 7802545 - Arch Microbiol. 1994;162(4):295-301
– reference: 21450012 - Microb Biotechnol. 2011 Nov;4(6):710-24
– reference: 8702263 - Appl Environ Microbiol. 1996 Aug;62(8):2716-22
– reference: 12523427 - Environ Sci Technol. 2002 Dec 1;36(23):5106-16
– reference: 18359269 - Curr Opin Microbiol. 2008 Apr;11(2):87-93
– reference: 10483734 - FEMS Microbiol Lett. 1999 Sep 1;178(1):147-53
– reference: 12420924 - Water Res. 2002 Oct;36(17):4193-202
– reference: 9603807 - Appl Environ Microbiol. 1998 Jun;64(6):2006-12
– reference: 18835999 - Appl Environ Microbiol. 2008 Dec;74(23):7313-20
– reference: 8206853 - J Bacteriol. 1994 Jun;176(12 ):3749-56
– reference: 8663199 - J Biol Chem. 1996 Jul 12;271(28):16515-9
– reference: 3415234 - Appl Environ Microbiol. 1988 Jul;54(7):1703-8
– reference: 16349282 - Appl Environ Microbiol. 1994 Jun;60(6):1914-20
– reference: 23600617 - FEMS Microbiol Lett. 2013 Jun;343(2):101-4
– reference: 26551549 - Environ Sci Technol. 2015 Dec 15;49(24):14319-25
– reference: 10583967 - Appl Environ Microbiol. 1999 Dec;65(12):5212-21
– reference: 2930535 - Biochem Biophys Res Commun. 1989 Mar 15;159(2):640-3
– reference: 12840758 - Nature. 2003 Jul 3;424(6944):62-5
– reference: 11351722 - Environ Sci Technol. 2001 Feb 1;35(3):516-21
– reference: 2244785 - Arch Microbiol. 1990;154(4):336-41
– reference: 16348920 - Appl Environ Microbiol. 1993 Apr;59(4):960-7
– reference: 20357835 - ISME J. 2010 Aug;4(8):1020-30
– reference: 15184119 - Appl Environ Microbiol. 2004 Jun;70(6):3253-62
– reference: 28042183 - Water Air Soil Pollut. 2017;228(1):25
– reference: 15754184 - Appl Microbiol Biotechnol. 2005 Oct;68(6):794-801
– reference: 9696761 - J Bacteriol. 1998 Aug;180(16):4140-5
– reference: 15006757 - Appl Environ Microbiol. 2004 Mar;70(3):1385-92
– reference: 10986246 - J Bacteriol. 2000 Oct;182(19):5433-9
– reference: 8837426 - Appl Environ Microbiol. 1996 Oct;62(10 ):3704-11
– reference: 19039669 - Biodegradation. 2009 Jun;20(3):419-31
– reference: 15487929 - Annu Rev Microbiol. 2004;58:43-73
– reference: 17316748 - Chemosphere. 2007 Jun;68(2):244-52
– reference: 22446308 - Microbes Environ. 2012;27(3):273-7
– reference: 7487026 - Appl Environ Microbiol. 1995 Aug;61(8):2936-42
– reference: 8572713 - Appl Environ Microbiol. 1996 Jan;62(1):61-6
– reference: 22616984 - BMC Genomics. 2012 May 22;13:200
– reference: 16642331 - Appl Microbiol Biotechnol. 2006 Oct;72(6):1270-5
– reference: 11165358 - J Biotechnol. 2001 Feb 13;85(2):81-102
– reference: 3606099 - Appl Environ Microbiol. 1987 May;53(5):949-54
– reference: 26203328 - Stand Genomic Sci. 2015 Feb 24;10:15
– reference: 4039602 - Biochemistry. 1985 Jan 1;24(1):204-10
– reference: 16517646 - Appl Environ Microbiol. 2006 Mar;72(3):1980-7
– reference: 15294827 - Appl Environ Microbiol. 2004 Aug;70(8):4880-8
– reference: 9274009 - Microbiology. 1997 Aug;143 ( Pt 8):2557-67
– reference: 23093177 - Appl Microbiol Biotechnol. 2012 Dec;96(6):1395-409
– reference: 7009570 - J Bacteriol. 1981 Mar;145(3):1137-43
– reference: 2624462 - Appl Environ Microbiol. 1989 Nov;55(11):2819-26
– reference: 25278505 - Science. 2014 Oct 24;346(6208):455-8
– reference: 17950413 - Chemosphere. 2008 Feb;70(8):1492-9
– reference: 2515801 - Appl Environ Microbiol. 1989 Dec;55(12):3155-61
– reference: 16345659 - Appl Environ Microbiol. 1980 Nov;40(5):950-8
– reference: 3674872 - Appl Environ Microbiol. 1987 Sep;53(9):2129-32
– reference: 16349516 - Appl Environ Microbiol. 1998 Mar;64(3):1106-14
– reference: 16349481 - Appl Environ Microbiol. 1998 Jan;64(1):208-15
– reference: 15637277 - Science. 2005 Jan 7;307(5706):105-8
– reference: 3355147 - Appl Environ Microbiol. 1988 Feb;54(2):604-6
– reference: 8900001 - Appl Environ Microbiol. 1996 Nov;62(11):4108-13
– reference: 19756804 - Environ Sci Pollut Res Int. 2010 Jan;17(1):64-77
– reference: 20529863 - J Biol Chem. 2010 Aug 6;285(32):24412-9
– reference: 23022446 - J Microbiol Methods. 2012 Dec;91(3):434-42
– reference: 17965160 - J Bacteriol. 2008 Jan;190(1):37-47
– reference: 18804909 - J Hazard Mater. 2009 May 15;164(1):337-44
– reference: 12902251 - Appl Environ Microbiol. 2003 Aug;69(8):4628-38
– reference: 24992516 - Can J Microbiol. 2014 Jul;60(7):487-90
– reference: 25877696 - Microbes Environ. 2015;30(2):164-71
– reference: 22179245 - Appl Environ Microbiol. 2012 Feb;78(4):1288-91
– reference: 18211265 - Environ Microbiol. 2008 Jan;10(1):31-46
– reference: 20695893 - FEMS Microbiol Ecol. 2010 Nov;74(2):257-75
– reference: 10440676 - Biotechnol Bioeng. 1999 Oct 5;65(1):100-7
– reference: 8824622 - J Bacteriol. 1996 Oct;178(19):5755-61
– reference: 1781729 - Arch Microbiol. 1991;156(2):152-8
– reference: 7574658 - Appl Environ Microbiol. 1995 Sep;61(9):3479-81
– reference: 7686000 - Appl Environ Microbiol. 1993 May;59(5):1444-51
– reference: 23284863 - PLoS One. 2012;7(12):e52038
– reference: 12051652 - Biodegradation. 2001;12(6):465-75
– reference: 2019563 - J Bacteriol. 1991 May;173(9):3010-6
– reference: 8920197 - Appl Microbiol Biotechnol. 1996 Mar;45(1-2):248-56
– reference: 2843094 - Appl Environ Microbiol. 1988 Jun;54(6):1498-503
– reference: 22053874 - Mol Microbiol. 2012 Jan;83(1):24-40
– reference: 7926693 - FEMS Microbiol Lett. 1994 Sep 1;121(3):357-63
– reference: 26568785 - Stand Genomic Sci. 2015 Nov 14;10:102
– reference: 1746958 - Appl Environ Microbiol. 1991 Oct;57(10):2981-5
– reference: 17123579 - Chemosphere. 2007 Feb;67(2):300-11
– reference: 21362021 - FEMS Microbiol Lett. 2011 May;318(2):137-42
– reference: 1176436 - J Bacteriol. 1975 Oct;124(1):7-13
– reference: 14973036 - J Bacteriol. 2004 Mar;186(5):1337-44
– reference: 20146755 - FEMS Microbiol Rev. 2010 Jul;34(4):445-75
– reference: 1444418 - Appl Environ Microbiol. 1992 Sep;58(9):3038-46
– reference: 16349505 - Appl Environ Microbiol. 1998 Feb;64(2):646-50
– reference: 21854516 - Environ Microbiol. 2011 Sep;13(9):2518-35
– reference: 18156252 - J Bacteriol. 2008 Mar;190(5):1539-45
– reference: 3988708 - J Bacteriol. 1985 May;162(2):676-81
– reference: 15240250 - Appl Environ Microbiol. 2004 Jul;70(7):3814-20
– reference: 16201659 - Environ Sci Technol. 2005 Sep 15;39(18):7279-86
– reference: 12039726 - Appl Environ Microbiol. 2002 Jun;68(6):2726-30
– reference: 2624467 - Appl Environ Microbiol. 1989 Nov;55(11):2960-4
– reference: 8215370 - Appl Environ Microbiol. 1993 Sep;59(9):2991-7
– reference: 2339874 - Appl Environ Microbiol. 1990 Apr;56(4):1169-71
– reference: 11064339 - Biotechnol Bioeng. 2000 Dec 20;70(6):693-8
– reference: 11414323 - Appl Microbiol Biotechnol. 2001 May;55(5):571-7
– reference: 16347956 - Appl Environ Microbiol. 1989 Jun;55(6):1624-9
– reference: 12949106 - J Bacteriol. 2003 Sep;185(18):5536-45
– reference: 16997980 - Appl Environ Microbiol. 2006 Nov;72(11):7418-21
– reference: 16597982 - Appl Environ Microbiol. 2006 Apr;72(4):2775-82
– reference: 11097881 - Appl Environ Microbiol. 2000 Dec;66(12):5141-7
– reference: 15949858 - J Microbiol Methods. 2006 Feb;64(2):250-65
– reference: 22544797 - Int J Syst Evol Microbiol. 2013 Feb;63(Pt 2):625-35
– reference: 14532060 - Appl Environ Microbiol. 2003 Oct;69(10):6041-6
– reference: 22503214 - J Hazard Mater. 2012 Jun 15;219-220:169-75
– reference: 3145712 - Appl Environ Microbiol. 1988 Nov;54(11):2819-24
– reference: 24441515 - Microbes Environ. 2014;29(1):23-30
– reference: 27016563 - Appl Environ Microbiol. 2016 May 16;82(11):3269-79
– reference: 1892384 - Appl Environ Microbiol. 1991 Jul;57(7):1935-41
– reference: 23204411 - Appl Environ Microbiol. 2013 Feb;79(3):974-81
– reference: 1599242 - Appl Environ Microbiol. 1992 Apr;58(4):1220-6
– reference: 2670929 - J Biol Chem. 1989 Sep 5;264(25):14940-6
– reference: 3919642 - Appl Environ Microbiol. 1985 Jan;49(1):242-3
– reference: 11698363 - J Bacteriol. 2001 Dec;183(23):6763-70
– reference: 10671186 - Appl Environ Microbiol. 1998 Apr;64(4):1270-5
– reference: 16535402 - Appl Environ Microbiol. 1996 Sep;62(9):3304-12
– reference: 8975612 - Appl Environ Microbiol. 1996 Mar;62(3):825-33
– reference: 11291037 - Biotechnol Bioeng. 2000-2001;71(4):274-85
– reference: 4298226 - Biochemistry. 1968 Jul;7(7):2653-62
– reference: 7867951 - Gene. 1995 Feb 27;154(1):65-70
– reference: 9687467 - Appl Environ Microbiol. 1998 Aug;64(8):3023-4
– reference: 1999388 - J Bacteriol. 1991 Mar;173(5):1690-5
– reference: 16347139 - Appl Environ Microbiol. 1986 Aug;52(2):383-4
– reference: 10888848 - Nat Biotechnol. 2000 Jul;18(7):775-8
– reference: 12788736 - Appl Environ Microbiol. 2003 Jun;69(6):3350-8
– reference: 19656942 - Int J Syst Evol Microbiol. 2010 Mar;60(Pt 3):686-95
– reference: 16535693 - Appl Environ Microbiol. 1997 Sep;63(9):3607-13
– reference: 16085870 - Appl Environ Microbiol. 2005 Aug;71(8):4736-43
– reference: 25015887 - Appl Environ Microbiol. 2014 Sep;80(18):5801-6
– reference: 14971854 - Biodegradation. 2004 Feb;15(1):19-28
– reference: 11321104 - Int J Syst Evol Microbiol. 2001 Mar;51(Pt 2):581-8
– reference: 10744688 - J Biol Chem. 2000 Apr 7;275(14):10085-92
– reference: 12057934 - J Bacteriol. 2002 Jul;184(13):3419-25
– reference: 21214238 - Environ Sci Technol. 2011 Feb 15;45(4):1555-62
– reference: 7710331 - Arch Microbiol. 1995 Feb;163(2):96-103
– reference: 18618788 - Biotechnol Bioeng. 1994 Aug 5;44(4):533-8
– reference: 7578004 - Biochemistry. 1995 Oct 31;34(43):14066-76
– reference: 19633106 - Appl Environ Microbiol. 2009 Sep;75(18):5910-8
– reference: 15126473 - J Bacteriol. 2004 May;186(10):3117-23
– reference: 25331771 - Biodegradation. 2015 Feb;26(1):51-63
– reference: 20681521 - Environ Sci Technol. 2010 Sep 1;44(17):6829-34
– reference: 23479748 - Philos Trans R Soc Lond B Biol Sci. 2013 Mar 11;368(1616):20120318
– reference: 9171062 - Science. 1997 Jun 6;276(5318):1568-71
– reference: 18685265 - J Mol Microbiol Biotechnol. 2008;15(2-3):93-120
– reference: 23160122 - Appl Environ Microbiol. 2013 Jan;79(2):663-71
– reference: 21288483 - Res Microbiol. 2011 Nov;162(9):869-76
– reference: 1327782 - Eur J Biochem. 1992 Oct 1;209(1):51-61
– reference: 15959725 - J Ind Microbiol Biotechnol. 2005 Dec;32(11-12):534-41
– reference: 22311591 - Biodegradation. 2012 Sep;23(5):635-44
– reference: 9758777 - Appl Environ Microbiol. 1998 Oct;64(10):3626-32
– reference: 9632263 - Mol Microbiol. 1998 May;28(3):615-28
– reference: 24909708 - Microbes Environ. 2014;29(2):191-9
– reference: 23306883 - Appl Biochem Biotechnol. 2013 Feb;169(4):1197-218
– reference: 16104866 - Environ Microbiol. 2005 Sep;7(9):1442-50
– reference: 4314232 - Biochemistry. 1970 Mar 31;9(7):1626-30
– reference: 15466590 - Appl Environ Microbiol. 2004 Oct;70(10):6347-51
– reference: 21566393 - Microbes Environ. 2009;24(4):330-7
– reference: 20089043 - Environ Microbiol. 2010 Apr;12(4):1053-60
– reference: 9531632 - Arch Microbiol. 1998 Apr;169(4):313-21
– reference: 12558180 - Res Microbiol. 2002 Dec;153(10):621-8
– reference: 25418043 - Elife. 2014 Nov 24;3:null
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Snippet Volatile organic compounds (VOCs) are major pollutants that are found in contaminated sites, particularly in developed countries such as Japan. Various...
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SubjectTerms Aerobic microorganisms
Anaerobic conditions
Anaerobic microorganisms
Anoxic conditions
Benzene
Biodegradability
Biodegradation
Biodegradation, Environmental
Biological competition
Bioremediation
BTEX
By-products
Carbon tetrachloride
Catabolite repression
Chlorides
chlorinated ethene
chlorinated methane
Chlorination
Chloroform
Competition
Concrete
Degradation
Developed countries
Dichloromethane
Dumping
Enzymes
Ethene
Ethylbenzene
Industrial plants
Information systems
Interactions
Japan
Metabolism
Microorganisms
Minireview
multiple VOCs
Ocean dumping
Organic compounds
Phylogeny
Pollutants
Research facilities
Soil Microbiology
Tetrachloroethylene
Toluene
Toxicity
Trichloroethylene
Vinyl chloride
VOCs
Volatile organic compounds
Volatile Organic Compounds - chemistry
Xylene
Title Biodegradation of Volatile Organic Compounds and Their Effects on Biodegradability under Co-Existing Conditions
URI https://www.jstage.jst.go.jp/article/jsme2/32/3/32_ME16188/_article/-char/en
https://www.ncbi.nlm.nih.gov/pubmed/28904262
https://www.proquest.com/docview/1947347839
https://pubmed.ncbi.nlm.nih.gov/PMC5606688
Volume 32
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