Contrasting regulatory effects of organic acids on aerobic vinyl chloride biodegradation in etheneotrophs

ATSDR (2006) Toxicological profile for Vinyl Chloride. In: Department of Health and Human Services PHS (ed). Aulenta F, Majone M, Verbo P, Tandoi V (2002) Complete dechlorination of tetrachloroethene to ethene in presence of methanogenesis and acetogenesis by an anaerobic sediment microcosm. Biodegradation 13(6):411–424 Aulenta F, Pera A, Rossetti S, Petrangeli Papini M, Majone M (2007) Relevance of side reactions in anaerobic reductive dechlorination microcosms amended with different electron donors. Water Res 41(1):27–38 Blázquez-Pallí N, Rosell M, Varias J, Bosch M, Soler A, Vicent T, Marco-Urrea E (2019) Multi-method assessment of the intrinsic biodegradation potential of an aquifer contaminated with chlorinated ethenes at an industrial area in Barcelona (Spain). Environ Pollut 244:165–173 Brinker K, Lumia M, Markiewicz KV, Duncan MA, Dowell C, Rey A, Wilken J, Shumate A, Taylor J (2012) Funk R (2015) Assessment of emergency responders after a vinyl chloride release from a train derailment - New Jersey. MMWR Morb Mortal Wkly Rep 63(53):1233–1237 Choi M, Yun T, Song MJ, Kim J, Lee B-H, Löffler FE, Yoon S (2021) Cometabolic vinyl chloride degradation at acidic pH catalyzed by acidophilic methanotrophs isolated from alpine peat bogs. Environ Sci Technol 55(9):5959–5969 Chomsurin C, Kajorntraidej J, Luangmuang K (2008) Bioremediation of trichloroethylene contaminated groundwater using anaerobic process. Water Sci Technol 58(11):2127–2132 Chuang AS, Mattes TE (2007) Identification of polypeptides expressed in response to vinyl chloride, ethene, and epoxyethane in Nocardioides sp strain JS614 by using peptide mass fingerprinting. Appl Environ Microbiol 73(13):4368–4372 Chuang AS, Jin YO, Schmidt LS, Li Y, Fogel S, Smoler D, Mattes TE (2010) Proteomic analysis of ethene-enriched groundwater microcosms from a vinyl chloride-contaminated site. Environ Sci Technol 44(5):1594–1601 Coleman NV, Spain JC (2003a) Distribution of the coenzyme M pathway of epoxide metabolism among ethene- and vinyl chloride-degrading Mycobacterium strains. Appl Environ Microbiol 69(10):6041–6046 Coleman NV, Spain JC (2003b) Epoxyalkane: coenzyme M transferase in the ethene and vinyl chloride biodegradation pathways of Mycobacterium strain JS60. J Bacteriol 185(18):5536–5545 Coleman NV, Mattes TE, Gossett JM, Spain JC (2002a) Biodegradation of cis-dichloroethene as the sole carbon source by a β-proteobacterium. Appl Environ Microbiol 68(6):2726–2730 Coleman NV, Mattes TE, Gossett JM, Spain JC (2002b) Phylogenetic and kinetic dversity of aerobic vinyl chloride-assimilating bacteria from contaminated sites. Appl Environ Microbiol 68(12):6162–6171 Czinnerova M, Nguyen NHA, Nemecek J, Mackenzie K, Boothman C, Lloyd J, Laszlo T, Spanek R, Cernik M, Sevcu A (2020) In situ pilot application of nZVI embedded in activated carbon for remediation of chlorinated ethene-contaminated groundwater: effect on microbial communities. Environ Sci Eur 32(1):154 Danko AS, Luo M, Bagwell CE, Brigmon RL, Freedman DL (2004) Involvement of linear plasmids in aerobic biodegradation of vinyl chloride. Appl Environ Microbiol 70(10):6092 Deutscher J (2008) The mechanisms of carbon catabolite repression in bacteria. Curr Opin Microbiol 11(2):87–93 Doughty DM, Sayavedra-Soto LA, Arp DJ, Bottomley PJ (2006) Product repression of alkane monooxygenase expression in Pseudomonas butanovora. J Bacteriol 188(7):2586–2592 Dubbels BL, Sayavedra-Soto LA, Bottomley PJ, Arp DJ (2009) Thauera butanivorans sp. nov. a C2–C9 alkane-oxidizing bacterium previously referred to as Pseudomonas butanovora. Int J Syst Evol Microbiol 59(7):1576–1578 Dugat-Bony E, Biderre-Petit C, Jaziri F, David MM, Denonfoux J, Lyon DY, Richard J-Y, Curvers C, Boucher D, Vogel TM, Peyretaillade E, Peyret P (2012) In situ TCE degradation mediated by complex dehalorespiring communities during biostimulation processes. Microb Biotechnol 5(5):642–653 Fennell DE, Carroll AB, Gossett JM, Zinder SH (2001) Assessment of indigenous reductive dechlorinating potential at a TCE-contaminated site using microcosms, polymerase chain reaction analysis, and site data. Environ Sci Technol 35(9):1830–1839 Findlay M, Smoler DF, Fogel S, Mattes TE (2016) Aerobic vinyl chloride metabolism in groundwater microcosms by methanotrophic and etheneotrophic bacteria. Environ Sci Technol 50(7):3617–3625 Freedman DL, Herz SD (1996) Use of ethylene and ethane as primary substrates for aerobic cometabolism of vinyl chloride. Water Environ Res 68(3):320–328 Freedman DL, Danko AS, Verce MF (2001) Substrate interactions during aerobic biodegradation of methane, ethene, vinyl chloride and 1,2-dichloroethenes. Water Sci Technol 43(5):333–340 Gossett JM (1987) Measurement of Henry’s law constants for C1 and C2 chlorinated hydrocarbons. Environ Sci Technol 21(2):202–208 Haluska AA, Finneran KT (2021) Increasing electron donor concentration does not accelerate complete microbial reductive dechlorination in contaminated sediment with native organic carbon. Biodegradation 32(5):577–593 He J, Sung Y, Dollhopf ME, Fathepure BZ, Tiedje JM, Löffler FE (2002) Acetate versus hydrogen as direct electron donors to stimulate the microbial reductive dechlorination process at chloroethene-contaminated sites. Environ Sci Technol 36(18):3945–3952 Hunkeler D, Aravena R, Butler BJ (1999) Monitoring microbial dechlorination of tetrachloroethene (PCE) in groundwater using compound-specific stable carbon isotope ratios: microcosm and field studies. Environ Sci Technol 33(16):2733–2738 Isipato M, Dessì P, Sánchez C, Mills S, Ijaz UZ, Asunis F, Spiga D, De Gioannis G, Mascia M, Collins G, Muntoni A, Lens PNL (2020) Propionate production by bioelectrochemically-assisted lactate fermentation and simultaneous CO2 recycling. Front Microbiol 11(3184) Jin YO, Mattes TE (2008) Adaptation of aerobic, ethene-assimilating Mycobacterium strains to vinyl chloride as a growth substrate. Environ Sci Technol 42(13):4784–4789 Jin YO, Mattes TE (2010) A quantitative PCR assay for aerobic, vinyl chloride- and ethene-assimilating microorganisms in groundwater. Environ Sci Technol 44(23):9036–9041 Kielhorn J, Melber C, Wahnschaffe U, Aitio A, Mangelsdorf I (2000) Vinyl chloride: still a cause for concern. Environ Health Perspect 108(7):579–588 Lee MD, Odom JM, Buchanan RJ Jr (1998) New perspectives on microbial dehalogenation of chlorinated solvents: insights from the field. Ann Rev Microbiol 52(1):423–452 Liang Y, Liu X, Singletary MA, Wang K, Mattes TE (2017) Relationships between the abundance and expression of functional genes from vinyl chloride (VC)-degrading bacteria and geochemical parameters at VC-contaminated sites. Environ Sci Technol 51(21):12164–12174 Liu X, Mattes TE (2016) Epoxyalkane:coenzyme M transferase gene diversity and distribution in groundwater samples from chlorinated-ethene-contaminated sites. Appl Environ Microbiol 82(11):3269–3279 Liu X, Wu Y, Wilson FP, Yu K, Lintner C, Cupples AM, Mattes TE (2018) Integrated methodological approach reveals microbial diversity and functions in aerobic groundwater microcosms adapted to vinyl chloride. FEMS Microbiol Ecol 94(9):124 Lorah MM, Voytek MA (2004) Degradation of 1,1,2,2-tetrachloroethane and accumulation of vinyl chloride in wetland sediment microcosms and in situ porewater: biogeochemical controls and associations with microbial communities. J Contam Hydrol 70(1):117–145 Louarn E, Aulenta F, Levantesi C, Majone M, Tandoi V (2006) Modeling substrate interactions during aerobic biodegradation of mixtures of vinyl chloride and ethene. J Environ Eng 132(8):940–948 Magnuson JK, Stern RV, Gossett JM, Zinder SH, Burris DR (1998) Reductive dechlorination of tetrachloroethene to ethene by a two-component enzyme pathway. Appl Environ Microbiol 64(4):1270–1275 Mattes TE, Coleman NV, Spain JC, Gossett JM (2005) Physiological and molecular genetic analyses of vinyl chloride and ethene biodegradation in Nocardioides sp strain JS614. Arch Microbiol 183(2):95–106 Mattes TE, Coleman NV, Chuang AS, Rogers AJ, Spain JC, Gossett JM (2007) Mechanism controlling the extended lag period associated with vinyl chloride starvation in Nocardioides sp strain JS614. Arch Microbiol 187(3):217–226 Mattes TE, Alexander AK, Coleman NV (2010) Aerobic biodegradation of the chloroethenes: pathways, enzymes, ecology, and evolution. FEMS Microbiol Rev 34(4):445–475 Mattes TE, Jin YO, Livermore J, Pearl M, Liu X (2015) Abundance and activity of vinyl chloride (VC)-oxidizing bacteria in a dilute groundwater VC plume biostimulated with oxygen and ethene. Appl Microbiol Biotechnol 99(21):9267–9276 Maymó-Gatell X, Nijenhuis I, Zinder SH (2001) Reductive dechlorination of cis-1,2-dichloroethene and vinyl chloride by “Dehalococcoides ethenogenes.” Environ Sci Technol 35(3):516–521 Moratti CF, Scott C, Coleman NV (2022) Synthetic biology approaches to hydrocarbon biosensors: a review. Front Bioeng Biotechnol 9:804234–804234 Němeček J, Marková K, Špánek R, Antoš V, Kozubek P, Lhotský O, Černík M (2020) Hydrochemical conditions for aerobic/anaerobic biodegradation of chlorinated ethenes—a multi-site assessment. Water 12(2) Ottosen CB, Bjerg PL, Hunkeler D, Zimmermann J, Tuxen N, Harrekilde D, Bennedsen L, Leonard G, Brabæk L, Kristensen IL, Broholm MM (2021) Assessment of chlorinated ethenes degradation after field scale injection of activated carbon and bioamendments: Application of isotopic and microbial analyses. J Contam Hydrol 240:103794 Peng X, Yamamoto S, Vertès AA, Keresztes G, Inatomi K-i, Inui M, Yukawa H (2012) Global transcriptome analysis of the tetrachloroethene-dechlorinating bacterium Desulfitobacterium hafniense Y51 in the presence of various electron donors and terminal electron acceptors. J Ind Microbiol 39(2):255–268 Richards PM, Liang Y, Johnson RL, Mattes TE (2019) Cryogenic soil coring reveals coexistence of aerobic and anaerobic vinyl chloride degrading bacteria in a chlorinated ethene contaminated aquifer. Water Res 157:281–291 Rojo F (2009) Degradation of alkanes by bacteria. Environ Microbiol 11(10):2477–2490 Saiyari DM, Chuang H-P, Senoro DB, Lin T-F, Whang L-M, Chiu Y-T, Chen Y-H (2018) A review in the current developments of genus Dehalococcoides, its consortia and kinetics for bioremediation options of contaminated groundwater. Sustain Environ Res 28(4):149–157 Stülke J, Hillen W (1999) Carbon catabolite repression in bacteria. Curr Opin Microbiol 2(2):195–201 Taylor AE, Arp DJ, Bottomley PJ, Semprini L (2010) Extending the alkene substrate range of vinyl chloride utilizing Nocardioides sp strain JS614 with ethene oxide. Appl Microbiol Biotechnol 87(6):2293–2302 Tiehm A, Schmidt KR (2011) Sequential anaerobic/aerobic biodegradation of chloroethenes—aspects of field application. Curr Opin Biotechnol 22(3):415–421 Vainberg S, Condee CW, Steffan RJ (2009) Large-scale production of bacterial consortia for remediation of chlorinated solvent-contaminated groundwater. J Ind Microbiol 36(9):1189–1197 Verce MF, Ulrich RL, Freedman DL (2001) Transition from cometabolic to growth-linked biodegradation of vinyl chloride by a Pseudomonas sp isolated on ethene. Environ Sci Technol 35(21):4242–4251 Wu X, Gent DB, Davis JL, Alshawabkeh AN (2012) Lactate injection by electric currents for bioremediation of tetrachloroethylene in clay. Electrochim Acta 86:157–163 Yoshikawa M, Zhang M, Toyota K (2017) Biodegradation of volatile organic compounds and their effects on biodegradability under co-existing conditions. Microbes Environ 32(3):188–200