Response and recovery of microbial communities subjected to oxidative and biological treatments of 1,4-dioxane and co-contaminants

Adamson, 2017 Adamson, 2015, Evidence of 1,4-dioxane attenuation at groundwater sites contaminated with chlorinated solvents and 1,4-dioxane, Environ. Sci. Technol., 49, 6510, 10.1021/acs.est.5b00964 Adamson, 2014, A multisite survey to identify the scale of the 1,4-dioxane problem at contaminated groundwater sites, Environ. Sci. Technol. Lett., 1, 254, 10.1021/ez500092u Aislabie, 2006, Bioremediation of hydrocarbon-contaminated polar soils, Extremophiles, 10, 171, 10.1007/s00792-005-0498-4 Andaluri, 2017, Removal of 1,4-dioxane and volatile organic compounds from groundwater using ozone-based advanced oxidation process, Ozone Sci. Eng., 39, 423, 10.1080/01919512.2017.1327802 Anderson, 2012, Co-occurrence of 1,4-dioxane with trichloroethylene in chlorinated solvent groundwater plumes at US Air Force installations: fact or fiction, Integrated Environ. Assess. Manag., 8, 731, 10.1002/ieam.1306 Aoyagi, 2018, Identification of active and taxonomically diverse 1,4-dioxane degraders in a full-scale activated sludge system by high-sensitivity stable isotope probing, ISME J., 12, 2376, 10.1038/s41396-018-0201-2 Barberan, 2012, Using network analysis to explore co-occurrence patterns in soil microbial communities, ISME J., 6, 343, 10.1038/ismej.2011.119 Bastian, 2009, Gephi: an open source software for exploring and manipulating networks, 8, 361 Bell, 2005, The contribution of species richness and composition to bacterial services, Nature, 436, 1157, 10.1038/nature03891 Brown, 2009, Interactions between biological and abiotic pathways in the reduction of chlorinated solvents, Remed. J., 20, 9, 10.1002/rem.20226 Cassier-Chauvat, 2015, Responses to oxidative and heavy metal stresses in Cyanobacteria: recent Advances, Int. J. Mol. Sci., 16, 871, 10.3390/ijms16010871 Chao, 2016, Structure, variation, and co-occurrence of soil microbial communities in abandoned sites of a rare earth elements mine, Environ. Sci. Technol., 50, 11481, 10.1021/acs.est.6b02284 Chen, 2016, Remediation of diesel-contaminated soil using in situ chemical oxidation (ISCO) and the effects of common oxidants on the indigenous microbial community: a comparison study, J. Chem. Technol. Biotechnol., 91, 1877, 10.1002/jctb.4781 Cycon, 2013, Structural and functional diversity of bacterial community in soil treated with the herbicide napropamide estimated by the DGGE, CLPP and r/K-strategy approaches, Appl. Soil Ecol., 72, 242, 10.1016/j.apsoil.2013.07.015 Deng, 2017, A novel propane monooxygenase initiating degradation of 1,4-dioxane by Mycobacterium dioxanotrophicus PH-06, Environ. Sci. Technol. Lett., 5, 86, 10.1021/acs.estlett.7b00504 Deng, 2015, Efficient chemical oxidation of high levels of soil-sorbed phenanthrene by ultrasound induced, thermally activated persulfate, Chem. Eng. J., 265, 176, 10.1016/j.cej.2014.12.055 Dumbrell, 2010, Relative roles of niche and neutral processes in structuring a soil microbial community, ISME J., 4, 337, 10.1038/ismej.2009.122 Eberle, 2016, Peroxone activated persulfate treatment of 1,4-dioxane in the presence of chlorinated solvent co-contaminants, Chemosphere, 144, 728, 10.1016/j.chemosphere.2015.08.063 Flores-Cruz, 2011, Necessity of oxyR for the hydrogen peroxide stress response and full virulence in Ralstonia solanacearum, Appl. Environ. Microbiol., 77, 6426, 10.1128/AEM.05813-11 Gedalanga, 2016, A multiple lines of evidence framework to evaluate intrinsic biodegradation of 1,4-dioxane, Remed. J., 27, 93, 10.1002/rem.21499 Gedalanga, 2014, Identification of biomarker genes to predict biodegradation of 1,4-dioxane, Appl. Environ. Microbiol., 80, 3209, 10.1128/AEM.04162-13 Griffiths, 2013, Insights into the resistance and resilience of the soil microbial community, FEMS (Fed. Eur. Microbiol. Soc.) Microbiol. Rev., 37, 112 Gu, 2016, Complex heatmaps reveal patterns and correlations in multidimensional genomic data, Bioinformatics, 32, 2847, 10.1093/bioinformatics/btw313 He, 2017, 1,4-Dioxane-degrading consortia can be enriched from uncontaminated soils: prevalence of Mycobacterium and soluble di-iron monooxygenase genes, Microbial Biotechnol., 11, 189, 10.1111/1751-7915.12850 Ikehata, 2016, Treatment of groundwater contaminated with 1,4-dioxane, tetrahydrofuran, and chlorinated volatile organic compounds using advanced oxidation processes, Ozone Sci. Eng., 38, 413, 10.1080/01919512.2016.1198686 Inoue, 2018, 1,4-Dioxane degradation characteristics of Rhodococcus aetherivorans JCM 14343, Biodegradation, 29, 301, 10.1007/s10532-018-9832-2 Jasmann, 2017, Synergistic treatment of mixed 1,4-dioxane and chlorinated solvent contaminations by coupling electrochemical oxidation with aerobic biodegradation, Environ. Sci. Technol., 51, 12619, 10.1021/acs.est.7b03134 Ju, 2017, Linking microbial community, environmental variables, and methanogenesis in anaerobic biogas digesters of chemically enhanced primary treatment sludge, Environ. Sci. Technol., 51, 3982, 10.1021/acs.est.6b06344 Ju, 2015, Bacterial assembly and temporal dynamics in activated sludge of a full-scale municipal wastewater treatment plant, ISME J., 9, 683, 10.1038/ismej.2014.162 Kao, 2016, The change of microbial community from chlorinated solvent-contaminated groundwater after biostimulation using the metagenome analysis, J. Hazard Mater., 302, 144, 10.1016/j.jhazmat.2015.09.047 Kaufman, 2009, vol. 344 Kim, 2012, Pilot scale feasibility study for in-situ chemical oxidation using H2O2 solution conjugated with biodegradation to remediate a diesel contaminated site, J. Hazard Mater., 241, 173, 10.1016/j.jhazmat.2012.09.022 Klindworth, 2013, Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies, Nucleic Acids Res., 41, e1, 10.1093/nar/gks808 Laurent, 2012, Oxidation of a PAH polluted soil using modified Fenton reaction in unsaturated condition affects biological and physico-chemical properties, Chemosphere, 86, 659, 10.1016/j.chemosphere.2011.11.018 Leigh, 2015, Microbial communities biostimulated by ethanol during uranium (VI) bioremediation in contaminated sediment as shown by stable isotope probing, Front. Environ. Sci. Eng., 9, 453, 10.1007/s11783-014-0721-6 Li, 2018, Bacterial community shift and coexisting/coexcluding patterns revealed by network analysis in a uranium-contaminated site after bioreduction followed by reoxidation, Appl. Environ. Microbiol., 84, 10.1128/AEM.02885-17 Li, 2016, Simultaneous degradation of 1,1,1-trichloroethane and solvent stabilizer 1,4-dioxane by a sono-activated persulfate process, Chem. Eng. J., 284, 750, 10.1016/j.cej.2015.08.153 Li, 2018, Cyto- and geno- toxicity of 1,4-dioxane and its transformation products during ultraviolet-driven advanced oxidation processes, Environmental Sci. Water Res. Technol., 4, 1213, 10.1039/C8EW00107C Lin, 2016, Changes of microbial composition during wastewater reclamation and distribution systems revealed by high-throughput sequencing analyses, Front. Environ. Sci. Eng., 10, 539, 10.1007/s11783-016-0830-5 Luhrs, 2006, ISCO's long-term impact on aquifer conditions and microbial activity Mahendra, 2005, Pseudonocardia dioxanivorans sp. nov., a novel actinomycete that grows on 1,4-dioxane, Int. J. Syst. Evol. Microbiol., 55, 593, 10.1099/ijs.0.63085-0 Mahendra, 2006, Kinetics of 1,4-dioxane biodegradation by monooxygenase-expressing bacteria, Environ. Sci. Technol., 40, 5435, 10.1021/es060714v Mahendra, 2013, The impact of chlorinated solvent co-contaminants on the biodegradation kinetics of 1,4-dioxane, Chemosphere, 91, 88, 10.1016/j.chemosphere.2012.10.104 Mahendra, 2007, Identification of the intermediates of in vivo oxidation of 1,4-dioxane by monooxygenase-containing bacteria, Environ. Sci. Technol., 41, 7330, 10.1021/es0705745 McMurdie, 2013, Phyloseq: an R package for reproducible interactive analysis and graphics of microbiome gensus data, PloS One, 8, 10.1371/journal.pone.0061217 Medina, 2018, Remediation of a soil chronically contaminated with hydrocarbons through persulfate oxidation and bioremediation, Sci. Total Environ., 618, 518, 10.1016/j.scitotenv.2017.10.326 Merayo, 2014, Optimization of the Fenton treatment of 1,4-dioxane and on-line FTIR monitoring of the reaction, J. Hazard Mater., 268, 102, 10.1016/j.jhazmat.2014.01.008 Miao, 2018, Microbial responses to combined oxidation and catalysis treatment of 1,4-dioxane and co-contaminants in groundwater and soil, Front. Environ. Sci. Eng., 12, 1, 10.1007/s11783-018-1071-6 Miao, 2017, Assessment of phenol effect on microbial community structure and function in an anaerobic denitrifying process treating high concentration nitrate wastewater, Chem. Eng. J., 330, 757, 10.1016/j.cej.2017.08.011 Mohr, 2010 Myers, 2018, Abiotic and bioaugmented granular activated carbon for the treatment of 1,4-dioxane-contaminated water, Environ. Pollut., 240, 916, 10.1016/j.envpol.2018.04.011 Nielsen, 2012, Microbial communities involved in enhanced biological phosphorus removal from wastewater - a model system in environmental biotechnology, Curr. Opin. Biotechnol., 23, 452, 10.1016/j.copbio.2011.11.027 Pornwongthong, 2014, Transition metals and organic ligands influence biodegradation of 1,4-dioxane, Appl. Biochem. Biotechnol., 173, 291, 10.1007/s12010-014-0841-2 Richardson, 2010, Recovery of phenanthrene-degrading bacteria after simulated in situ persulfate oxidation in contaminated soil, Environ. Sci. Technol., 45, 719, 10.1021/es102420r Roxburgh, 2004, The intermediate disturbance hypothesis: patch dynamics and mechanisms of species coexistence, Ecology, 85, 359, 10.1890/03-0266 Schloss, 2009, Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities, Appl. Environ. Microbiol., 75, 7537, 10.1128/AEM.01541-09 Segura, 2012, Solvent tolerance in Gram-negative bacteria, Curr. Opin. Biotechnol., 23, 415, 10.1016/j.copbio.2011.11.015 Sei, 2013, Isolation and characterization of bacterial strains that have high ability to degrade 1,4-dioxane as a sole carbon and energy source, Biodegradation, 24, 665, 10.1007/s10532-012-9614-1 Silva-Castro, 2013, Bioremediation of diesel-polluted soil using biostimulation as post-treatment after oxidation with Fenton-like reagents: assays in a pilot plant, Sci. Total Environ., 445, 347, 10.1016/j.scitotenv.2012.12.081 Suthersan, 2017, Three decades of solvent bioremediation: the evolution from innovation to conventional practice, Groundw. Monit. Remed., 37, 14, 10.1111/gwmr.1_12212 Sutton, 2014, Impact of organic carbon and nutrients mobilized during chemical oxidation on subsequent bioremediation of a diesel-contaminated soil, Chemosphere, 97, 64, 10.1016/j.chemosphere.2013.11.005 US Environmental Protection Agency (USEPA), 2016 Vanwonterghem, 2014, Deterministic processes guide long-term synchronised population dynamics in replicate anaerobic digesters, ISME J., 8, 2015, 10.1038/ismej.2014.50 Walden, 2015, Preliminary assessment of bacterial community change impacted by chlorine dioxide in a water treatment plant, J. Environ. Eng., 142, 10.1061/(ASCE)EE.1943-7870.0001029 Wasmund, 2017, The life sulfuric: microbial ecology of sulfur cycling in marine sediments, Environ. Microbiol. Rep., 9, 323, 10.1111/1758-2229.12538 Wilson, 2005, Genetic diversity and horizontal transfer of genes involved in oxidation of reduced phosphorus compounds by Alcaligenes faecalis WM2072, Appl. Environ. Microbiol., 71, 290, 10.1128/AEM.71.1.290-296.2005 Xia, 2015, Phylogeny-structured carbohydrate metabolism across microbiomes collected from different units in wastewater treatment process, Biotechnol. Biofuels, 8, 172, 10.1186/s13068-015-0348-2 Yang, 2014, Crude oil treatment leads to shift of bacterial communities in soils from the deep active layer and upper permafrost along the China-russia crude oil pipeline route, PloS One, 9 Zelezniak, 2015, Metabolic dependencies drive species co-occurrence in diverse microbial communities, Proc. Natl. Acad. Sci. U.S.A., 112, 6449, 10.1073/pnas.1421834112 Zhang, 2016, Biodegradation kinetics of 1,4-dioxane in chlorinated solvent mixtures, Environ. Sci. Technol., 50, 9599, 10.1021/acs.est.6b02797 Zhang, 2017, Advances in bioremediation of 1,4-dioxane-contaminated waters, J. Environ. Manag., 204, 765