Fate of Trace Organic Compounds in Hyporheic Zone Sediments of Contrasting Organic Carbon Content and Impact on the Microbiome
Abstract
:1. Introduction
2. Materials and Methods
2.1. Study Site and Sampling
2.2. Chemicals and Standards
2.3. Microcosm Setup
2.4. Chemical Analysis
2.5. Nucleic Acid Extraction, Quantification, and Reverse Transcription
2.6. Quantitative Real-Time PCR
2.7. Bacterial 16S Amplicon Sequencing
2.8. Statistical Analyses
3. Results
3.1. Depletion of TrOCs under Varying TOC Concentrations
3.2. Effect of Treatments on Bacterial Community Structure and Composition
3.2.1. The Abundance of the Total Bacterial Community
3.2.2. Diversity and Bacterial Community Structure
3.2.3. Phylum-Level Taxonomic Composition
3.2.4. Family-Level Taxonomic Composition
3.2.5. Genus-Level Taxa Associated with TrOC Degrading Microbial Communities
4. Discussion
4.1. Influence of TOC on Biotransformation and Sorption of TrOCs
4.2. Interplay of TOC, Bacterial Community Structure and TrOC Removal
4.3. Putative Taxa Associated with Degradation of the Test Compounds
5. Conclusions
Author Contributions
Funding
Acknowledgments
Conflicts of Interest
References
- Eggen, R.I.L.; Hollender, J.; Joss, A.; Schärer, M.; Stamm, C. Reducing the Discharge of Micropollutants in the Aquatic Environment: The Benefits of Upgrading Wastewater Treatment Plants; ACS Publications: Washington, DC, USA, 2014. [Google Scholar]
- Lewandowski, J.; Putschew, A.; Schwesig, D.; Neumann, C.; Radke, M. Fate of Organic Micropollutants in the Hyporheic Zone of a Eutrophic Lowland Stream: Results of a Preliminary Field Study. Sci. Total Environ. 2011, 409, 1824–1835. [Google Scholar] [CrossRef] [PubMed]
- Pal, A.; He, Y.; Jekel, M.; Reinhard, M.; Gin, K.Y.-H. Emerging Contaminants of Public Health Significance as Water Quality Indicator Compounds in the Urban Water Cycle. Environ. Int. 2014, 71, 46–62. [Google Scholar] [CrossRef] [PubMed]
- Posselt, M.; Jaeger, A.; Schaper, J.L.; Radke, M.; Benskin, J.P. Determination of Polar Organic Micropollutants in Surface and Pore Water by High-Resolution Sampling-Direct Injection-Ultra High Performance Liquid Chromatography-Tandem Mass Spectrometry. Environ. Sci. Process. Impacts 2018, 20, 1716–1727. [Google Scholar] [CrossRef] [PubMed] [Green Version]
- Mechelke, J.; Vermeirssen, E.L.M.; Hollender, J. Passive Sampling of Organic Contaminants across the Water-Sediment Interface of an Urban Stream. Water Res. 2019, 165, 114966. [Google Scholar] [CrossRef] [Green Version]
- Schaper, J.L.; Posselt, M.; Bouchez, C.; Jaeger, A.; Nuetzmann, G.; Putschew, A.; Singer, G.; Lewandowski, J. Fate of Trace Organic Compounds in the Hyporheic Zone: Influence of Retardation, the Benthic Biolayer, and Organic Carbon. Environ. Sci. Technol. 2019, 53, 4224–4234. [Google Scholar] [CrossRef]
- Atashgahi, S.; Aydin, R.; Dimitrov, M.R.; Sipkema, D.; Hamonts, K.; Lahti, L.; Maphosa, F.; Kruse, T.; Saccenti, E.; Springael, D. Impact of a Wastewater Treatment Plant on Microbial Community Composition and Function in a Hyporheic Zone of a Eutrophic River. Sci. Rep. 2015, 5, 17284. [Google Scholar] [CrossRef]
- Tülp, H.C.; Fenner, K.; Schwarzenbach, R.P.; Goss, K.-U. PH-Dependent Sorption of Acidic Organic Chemicals to Soil Organic Matter. Environ. Sci. Technol. 2009, 43, 9189–9195. [Google Scholar] [CrossRef]
- Romani, A.M.; Butturini, A.; Sabater, F.; Sabater, S. Heterotrophic Metabolism in a Forest Stream Sediment: Surface versus Subsurface Zones. Aquat. Microb. Ecol. 1998, 16, 143–151. [Google Scholar] [CrossRef]
- Gücker, B.; Brauns, M.; Pusch, M.T. Effects of Wastewater Treatment Plant Discharge on Ecosystem Structure and Function of Lowland Streams. J. North Am. Benthol. Soc. 2006, 25, 313–329. [Google Scholar] [CrossRef]
- Findlay, S. Microbial Communities in Hyporheic Sediments. Streams Gr. Waters 2000, 287–306. [Google Scholar]
- Baschien, C.; Manz, W.; Neu, T.R.; Marvanová, L.; Szewzyk, U. In Situ Detection of Freshwater Fungi in an Alpine Stream by New Taxon-Specific Fluorescence in Situ Hybridization Probes. Appl. Environ. Microbiol. 2008, 74, 6427–6436. [Google Scholar] [CrossRef] [PubMed] [Green Version]
- Battin, T.J.; Besemer, K.; Bengtsson, M.M.; Romani, A.M.; Packmann, A.I. The Ecology and Biogeochemistry of Stream Biofilms. Nat. Rev. Microbiol. 2016, 14, 251. [Google Scholar] [CrossRef] [PubMed] [Green Version]
- Buriánková, I.; Brablcová, L.; Mach, V.; Dvořák, P.; Chaudhary, P.P.; Rulík, M. Identification of Methanogenic Archaea in the Hyporheic Sediment of Sitka Stream. PLoS ONE 2013, 8, e80804. [Google Scholar] [CrossRef] [PubMed] [Green Version]
- Lewandowski, J.; Arnon, S.; Banks, E.; Batelaan, O.; Betterle, A.; Broecker, T.; Coll, C.; Drummond, J.D.; Garcia, J.G.; Galloway, J.; et al. Is the Hyporheic Zone Relevant beyond the Scientific Community? Water 2019, 11, 2230. [Google Scholar] [CrossRef] [Green Version]
- Posselt, M.; Mechelke, J.; Rutere, C.; Coll, C.; Jaeger, A.; Raza, M.; Meinikmann, K.; Krause, S.; Sobek, A.; Lewandowski, J.; et al. Bacterial Diversity Controls Transformation of Wastewater-Derived Organic Contaminants in River-Simulating Flumes. Environ. Sci. Technol. 2020, 54, 5467–5479. [Google Scholar] [CrossRef] [Green Version]
- Wellsbury, P.; Herbert, R.A.; Parkes, R.J. Bacterial Activity and Production in Near-Surface Estuarine and Freshwater Sediments. FEMS Microbiol. Ecol. 1996, 19, 203–214. [Google Scholar] [CrossRef]
- Harvey, J.W.; Böhlke, J.K.; Voytek, M.A.; Scott, D.; Tobias, C.R. Hyporheic Zone Denitrification: Controls on Effective Reaction Depth and Contribution to Whole-stream Mass Balance. Water Resour. Res. 2013, 49, 6298–6316. [Google Scholar] [CrossRef]
- Knapp, J.L.A.; González-Pinzón, R.; Drummond, J.D.; Larsen, L.G.; Cirpka, O.A.; Harvey, J.W. Tracer-based Characterization of Hyporheic Exchange and Benthic Biolayers in Streams. Water Resour. Res. 2017, 53, 1575–1594. [Google Scholar] [CrossRef]
- Jaeger, A.; Posselt, M.; Betterle, A.; Schaper, J.; Mechelke, J.; Coll, C.; Lewandowski, J. Spatial and Temporal Variability in Attenuation of Polar Organic Micropollutants in an Urban Lowland Stream. Environ. Sci. Technol. 2019, 53, 2383–2395. [Google Scholar] [CrossRef] [Green Version]
- Peralta-Maraver, I.; Galloway, J.; Posselt, M.; Arnon, S.; Reiss, J.; Lewandowski, J.; Robertson, A.L. Environmental Filtering and Community Delineation in the Streambed Ecotone. Sci. Rep. 2018, 8, 1–11. [Google Scholar] [CrossRef]
- Crawford, J.T.; Stanley, E.H. Controls on Methane Concentrations and Fluxes in Streams Draining Human-dominated Landscapes. Ecol. Appl. 2016, 26, 1581–1591. [Google Scholar] [CrossRef] [PubMed]
- Rutere, C.; Knoop, K.; Posselt, M.; Ho, A.; Horn, M.A. Ibuprofen Degradation and Associated Bacterial Communities in Hyporheic Zone Sediments. Microorganisms 2020, 8, 1245. [Google Scholar] [CrossRef] [PubMed]
- Coll, C.; Bier, R.; Li, Z.; Langenheder, S.; Gorokhova, E.; Sobek, A. Association between Aquatic Micropollutant Dissipation and River Sediment Bacterial Communities. Environ. Sci. Technol. 2020, 54, 14380–14392. [Google Scholar] [CrossRef] [PubMed]
- Griffiths, R.I.; Whiteley, A.S.; O’Donnell, A.G.; Bailey, M.J. Rapid Method for Coextraction of DNA and RNA from Natural Environments for Analysis of Ribosomal DNA-and RRNA-Based Microbial Community Composition. Appl. Environ. Microbiol. 2000, 66, 5488–5491. [Google Scholar] [CrossRef] [PubMed] [Green Version]
- Zaprasis, A.; Liu, Y.-J.; Liu, S.-J.; Drake, H.L.; Horn, M.A. Abundance of Novel and Diverse TfdA-like Genes, Encoding Putative Phenoxyalkanoic Acid Herbicide-Degrading Dioxygenases, in Soil. Appl. Environ. Microbiol. 2010, 76, 119–128. [Google Scholar] [CrossRef] [Green Version]
- Sundberg, C.; Al-Soud, W.A.; Larsson, M.; Alm, E.; Yekta, S.S.; Svensson, B.H.; Sørensen, S.J.; Karlsson, A. 454 Pyrosequencing Analyses of Bacterial and Archaeal Richness in 21 Full-Scale Biogas Digesters. FEMS Microbiol. Ecol. 2013, 85, 612–626. [Google Scholar] [CrossRef] [PubMed] [Green Version]
- Schloss, P.D.; Westcott, S.L.; Ryabin, T.; Hall, J.R.; Hartmann, M.; Hollister, E.B.; Lesniewski, R.A.; Oakley, B.B.; Parks, D.H.; Robinson, C.J. Introducing Mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities. Appl. Environ. Microbiol. 2009, 75, 7537–7541. [Google Scholar] [CrossRef] [Green Version]
- Hammer, Ø.; Harper, D.A.T.; Ryan, P.D. PAST: Paleontological Statistics Software Package for Education and Data Analysis. Palaeontol. Electron. 2001, 4, 9. [Google Scholar]
- Love, M.; Anders, S.; Huber, M. Differential Gene Expression Analysis Based on the Negative Binomial Distribution. Genome Biol. 2014, 15, 550. [Google Scholar] [CrossRef] [Green Version]
- Marxsen, J. Measurement of Bacterial Production in Stream-Bed Sediments via Leucine Incorporation. FEMS Microbiol. Ecol. 1996, 21, 313–325. [Google Scholar] [CrossRef]
- Johnson, D.R.; Helbling, D.E.; Lee, T.K.; Park, J.; Fenner, K.; Kohler, H.-P.E.; Ackermann, M. Association of Biodiversity with the Rates of Micropollutant Biotransformations among Full-Scale Wastewater Treatment Plant Communities. Appl. Environ. Microbiol. 2015, 81, 666–675. [Google Scholar] [CrossRef] [Green Version]
- Stadler, L.B.; Delgado Vela, J.; Jain, S.; Dick, G.J.; Love, N.G. Elucidating the Impact of Microbial Community Biodiversity on Pharmaceutical Biotransformation during Wastewater Treatment. Microb. Biotechnol. 2018, 11, 995–1007. [Google Scholar] [CrossRef] [Green Version]
- Jaeger, A.; Coll, C.; Posselt, M.; Mechelke, J.; Rutere, C.; Betterle, A.; Raza, M.; Mehrtens, A.; Meinikmann, K.; Portmann, A.; et al. Using Recirculating Flumes and a Response Surface Model to Investigate the Role of Hyporheic Exchange and Bacterial Diversity on Micropollutant Half-Lives. Environ. Sci. Process. Impacts 2019, 21, 2093–2108. [Google Scholar] [CrossRef] [Green Version]
- Mechelke, J.; Rust, D.; Jaeger, A.; Hollender, J. Enantiomeric Fractionation during Biotransformation of Chiral Pharmaceuticals in Recirculating Water-Sediment Test Flumes. Environ. Sci. Technol. 2020, 54, 7291–7301. [Google Scholar] [CrossRef]
- Buerge, I.J.; Buser, H.-R.; Kahle, M.; Muller, M.D.; Poiger, T. Ubiquitous Occurrence of the Artificial Sweetener Acesulfame in the Aquatic Environment: An Ideal Chemical Marker of Domestic Wastewater in Groundwater. Environ. Sci. Technol. 2009, 43, 4381–4385. [Google Scholar] [CrossRef]
- Kahl, S.; Kleinsteuber, S.; Nivala, J.; van Afferden, M.; Reemtsma, T. Emerging Biodegradation of the Previously Persistent Artificial Sweetener Acesulfame in Biological Wastewater Treatment. Environ. Sci. Technol. 2018, 52, 2717–2725. [Google Scholar] [CrossRef]
- Giger, W.; Schaffner, C.; Kohler, H.-P.E. Benzotriazole and Tolyltriazole as Aquatic Contaminants. 1. Input and Occurrence in Rivers and Lakes. Environ. Sci. Technol. 2006, 40, 7186–7192. [Google Scholar] [CrossRef]
- Peralta-Maraver, I.; Reiss, J.; Robertson, A.L. Interplay of Hydrology, Community Ecology and Pollutant Attenuation in the Hyporheic Zone. Sci. Total Environ. 2018, 610–611, 267–275. [Google Scholar] [CrossRef] [Green Version]
- Tran, N.H.; Urase, T.; Ngo, H.H.; Hu, J.; Ong, S.L. Insight into Metabolic and Cometabolic Activities of Autotrophic and Heterotrophic Microorganisms in the Biodegradation of Emerging Trace Organic Contaminants. Bioresour. Technol. 2013, 146, 721–731. [Google Scholar] [CrossRef]
- Liu, F.; Nielsen, A.H.; Vollertsen, J. Sorption and Degradation Potential of Pharmaceuticals in Sediments from a Stormwater Retention Pond. Water 2019, 11, 526. [Google Scholar] [CrossRef]
- Burke, V.; Schneider, L.; Greskowiak, J.; Zerball-van Baar, P.; Sperlich, A.; Dünnbier, U.; Massmann, G. Trace Organic Removal during River Bank Filtration for Two Types of Sediment. Water 2018, 10, 1736. [Google Scholar] [CrossRef] [Green Version]
- Coll, C.; Lindim, C.; Sobek, A.; Sohn, M.D.; MacLeod, M. Prospects for Finding Junge Variability-Lifetime Relationships for Micropollutants in the Danube River. Environ. Sci. Process. Impacts 2019, 21, 1489–1497. [Google Scholar] [CrossRef] [PubMed] [Green Version]
- Ha, H.; Mahanty, B.; Yoon, S.; Kim, C.-G. Degradation of the Long-Resistant Pharmaceutical Compounds Carbamazepine and Diatrizoate Using Mixed Microbial Culture. J. Environ. Sci. Health Part A 2016, 51, 467–471. [Google Scholar] [CrossRef]
- Brigante, M.; DellaGreca, M.; Previtera, L.; Rubino, M.; Temussi, F. Degradation of Hydrochlorothiazide in Water. Environ. Chem. Lett. 2005, 2, 195–198. [Google Scholar] [CrossRef]
- Li, Z.; Maier, M.P.; Radke, M. Screening for Pharmaceutical Transformation Products Formed in River Sediment by Combining Ultrahigh Performance Liquid Chromatography/High Resolution Mass Spectrometry with a Rapid Data-Processing Method. Anal. Chim. Acta 2014, 810, 61–70. [Google Scholar] [CrossRef]
- Kunkel, U.; Radke, M. Biodegradation of Acidic Pharmaceuticals in Bed Sediments: Insight from a Laboratory Experiment. Environ. Sci. Technol. 2008, 42, 7273–7279. [Google Scholar] [CrossRef] [Green Version]
- Löffler, D.; Römbke, J.; Meller, M.; Ternes, T.A. Environmental Fate of Pharmaceuticals in Water/Sediment Systems. Environ. Sci. Technol. 2005, 39, 5209–5218. [Google Scholar] [CrossRef]
- Ramil, M.; El Aref, T.; Fink, G.; Scheurer, M.; Ternes, T.A. Fate of Beta Blockers in Aquatic-Sediment Systems: Sorption and Biotransformation. Environ. Sci. Technol. 2010, 44, 962–970. [Google Scholar] [CrossRef]
- Ashe, B.; Nguyen, L.N.; Hai, F.I.; Lee, D.-J.; Van De Merwe, J.P.; Leusch, F.D.L.; Price, W.E.; Nghiem, L.D. Impacts of Redox-Mediator Type on Trace Organic Contaminants Degradation by Laccase: Degradation Efficiency, Laccase Stability and Effluent Toxicity. Int. Biodeterior. Biodegrad. 2016, 113, 169–176. [Google Scholar] [CrossRef] [Green Version]
- Yagi, N.; Kenmotsu, H.; Sekikawa, H.; Takada, M. Studies on the Photolysis and Hydrolysis of Furosemide in Aqueous Solution. Chem. Pharm. Bull. 1991, 39, 454–457. [Google Scholar] [CrossRef] [Green Version]
- Huang, W.; Peng, P.; Yu, Z.; Fu, J. Effects of Organic Matter Heterogeneity on Sorption and Desorption of Organic Contaminants by Soils and Sediments. Appl. Geochem. 2003, 18, 955–972. [Google Scholar] [CrossRef]
- Fer, M.; Kodešová, R.; Golovko, O.; Schmidtová, Z.; Klement, A.; Nikodem, A.; Kočárek, M.; Grabic, R. Sorption of Atenolol, Sulfamethoxazole and Carbamazepine onto Soil Aggregates from the Illuvial Horizon of the Haplic Luvisol on Loess. Soil Water Res. 2018, 13, 177–183. [Google Scholar] [CrossRef]
- Schwarzenbach, R.P. Sorption Behavior of Neutral and Ionizable Hydrophobic Organic Compounds. In Organic Micropollutants in the Aquatic Environment; Springer: Berlin/Heidelberg, Germany, 1986; pp. 168–177. [Google Scholar]
- Fujioka, T.; Khan, S.J.; McDonald, J.A.; Nghiem, L.D. Rejection of Trace Organic Chemicals by a Hollow Fibre Cellulose Triacetate Reverse Osmosis Membrane. Desalination 2015, 368, 69–75. [Google Scholar] [CrossRef] [Green Version]
- Arp, D.J.; Yeager, C.M.; Hyman, M.R. Molecular and Cellular Fundamentals of Aerobic Cometabolism of Trichloroethylene. Biodegradation 2001, 12, 81–103. [Google Scholar] [CrossRef]
- Nogales, B.; Moore, E.R.B.; Abraham, W.; Timmis, K.N. Identification of the Metabolically Active Members of a Bacterial Community in a Polychlorinated Biphenyl-polluted Moorland Soil. Environ. Microbiol. 1999, 1, 199–212. [Google Scholar] [CrossRef]
- Seo, J.-S.; Keum, Y.-S.; Li, Q.X. Bacterial Degradation of Aromatic Compounds. Int. J. Environ. Res. Public Health 2009, 6, 278–309. [Google Scholar] [CrossRef]
- Gargouri, B.; Karray, F.; Mhiri, N.; Aloui, F.; Sayadi, S. Bioremediation of Petroleum Hydrocarbons-contaminated Soil by Bacterial Consortium Isolated from an Industrial Wastewater Treatment Plant. J. Chem. Technol. Biotechnol. 2014, 89, 978–987. [Google Scholar] [CrossRef]
- Braga, J.K.; Motteran, F.; Silva, E.L.; Varesche, M.B.A. Evaluation of Bacterial Community from Anaerobic Fluidized Bed Reactor for the Removal of Linear Alkylbenzene Sulfonate from Laundry Wastewater by 454-Pyrosequence. Ecol. Eng. 2015, 82, 231–240. [Google Scholar] [CrossRef]
- Ghosal, D.; Ghosh, S.; Dutta, T.K.; Ahn, Y. Current State of Knowledge in Microbial Degradation of Polycyclic Aromatic Hydrocarbons (PAHs): A Review. Front. Microbiol. 2016, 7, 1369. [Google Scholar] [CrossRef] [Green Version]
- Nasir, N.M.; Talib, S.A.; Hashim, S.N.; Tay, C.C. Biodegradation of Carbamazepine Using Fungi and Bacteria. J. Fundam. Appl. Sci. 2018, 9, 124. [Google Scholar] [CrossRef] [Green Version]
- Ho, A.; Di Lonardo, D.P.; Bodelier, P.L.E. Revisiting Life Strategy Concepts in Environmental Microbial Ecology. FEMS Microbiol. Ecol. 2017, 93, fix006. [Google Scholar] [CrossRef] [PubMed] [Green Version]
- Harichová, J.; Karelová, E.; Pangallo, D.; Ferianc, P. Structure Analysis of Bacterial Community and Their Heavy-Metal Resistance Determinants in the Heavy-Metal-Contaminated Soil Sample. Biologia 2012, 67, 1038–1048. [Google Scholar] [CrossRef]
- Lawrence, J.R.; Swerhone, G.D.W.; Wassenaar, L.I.; Neu, T.R. Effects of Selected Pharmaceuticals on Riverine Biofilm Communities. Can. J. Microbiol. 2005, 51, 655–669. [Google Scholar] [CrossRef] [PubMed]
- Phan, H.V.; Hai, F.I.; Zhang, R.; Kang, J.; Price, W.E.; Nghiem, L.D. Bacterial Community Dynamics in an Anoxic-Aerobic Membrane Bioreactor—Impact on Nutrient and Trace Organic Contaminant Removal. Int. Biodeterior. Biodegrad. 2016, 109, 61–72. [Google Scholar] [CrossRef] [Green Version]
- Táncsics, A.; Szalay, A.R.; Farkas, M.; Benedek, T.; Szoboszlay, S.; Szabó, I.; Lueders, T. Stable Isotope Probing of Hypoxic Toluene Degradation at the Siklós Aquifer Reveals Prominent Role of Rhodocyclaceae. FEMS Microbiol. Ecol. 2018, 94, fiy088. [Google Scholar] [CrossRef]
- Gibson, J.; Harwood, C.S. Degradation of Aromatic Compounds by Nonsulfur Purple Bacteria. In Anoxygenic Photosynthetic Bacteria; Springer: Berlin/Heidelberg, Germany, 1995; pp. 991–1003. [Google Scholar]
- Wang, L.; Zheng, S.; Wang, D.; Wang, L.; Wang, G. Thermomonas Carbonis Sp. Nov., Isolated from the Soil of a Coal Mine. Int. J. Syst. Evol. Microbiol. 2014, 64, 3631–3635. [Google Scholar] [CrossRef]
- Brzeszcz, J.; Kaszycki, P. Aerobic Bacteria Degrading Both N-Alkanes and Aromatic Hydrocarbons: An Undervalued Strategy for Metabolic Diversity and Flexibility. Biodegradation 2018, 29, 359–407. [Google Scholar] [CrossRef] [Green Version]
- Cydzik-Kwiatkowska, A.; Zielińska, M. Microbial Composition of Biofilm Treating Wastewater Rich in Bisphenol A. J. Environ. Sci. Health Part A 2018, 53, 385–392. [Google Scholar] [CrossRef]
- Tay, S.T.-L.; Hemond, H.F.; Polz, M.F.; Cavanaugh, C.M.; Krumholz, L.R. Importance of Xanthobacter Autotrophicus in Toluene Biodegradation within a Contaminated Stream. Syst. Appl. Microbiol. 1999, 22, 113–118. [Google Scholar] [CrossRef]
- Dallinger, A.; Horn, M.A. Agricultural Soil and Drilosphere as Reservoirs of New and Unusual Assimilators of 2, 4-dichlorophenol Carbon. Environ. Microbiol. 2014, 16, 84–100. [Google Scholar] [CrossRef]
- Jin, D.; Wang, P.; Bai, Z.; Jin, B.; Yu, Z.; Wang, X.; Zhuang, G.; Zhang, H. Terrimonas pekingensis sp. nov., Isolated from Bulking Sludge, and Emended Descriptions of the Genus Terrimonas, Terrimonas ferruginea, Terrimonas lutea and Terrimonas aquatica. Int. J. Syst. Evol. Microbiol. 2013, 63, 1658–1664. [Google Scholar] [CrossRef] [PubMed] [Green Version]
- Song, M.; Luo, C.; Jiang, L.; Zhang, D.; Wang, Y.; Zhang, G. Identification of Benzo [a] Pyrene-Metabolizing Bacteria in Forest Soils by Using DNA-Based Stable-Isotope Probing. Appl. Environ. Microbiol. 2015, 81, 7368–7376. [Google Scholar] [CrossRef] [PubMed] [Green Version]
- Miettinen, H.; Bomberg, M.; Nyyssönen, M.; Reunamo, A.; Jørgensen, K.S.; Vikman, M. Oil Degradation Potential of Microbial Communities in Water and Sediment of Baltic Sea Coastal Area. PLoS ONE 2019, 14, e0218834. [Google Scholar] [CrossRef] [PubMed] [Green Version]
- Kümmel, S.; Herbst, F.-A.; Bahr, A.; Duarte, M.; Pieper, D.H.; Jehmlich, N.; Seifert, J.; von Bergen, M.; Bombach, P.; Richnow, H.H. Anaerobic Naphthalene Degradation by Sulfate-Reducing Desulfobacteraceae from Various Anoxic Aquifers. FEMS Microbiol. Ecol. 2015, 91. [Google Scholar] [CrossRef] [PubMed]
- Chen, Y.; Zhao, Z.; Peng, Y.; Li, J.; Xiao, L.; Yang, L. Performance of a Full-Scale Modified Anaerobic/Anoxic/Oxic Process: High-Throughput Sequence Analysis of Its Microbial Structures and Their Community Functions. Bioresour. Technol. 2016, 220, 225–232. [Google Scholar] [CrossRef]
- Zhang, B.; Yu, Q.; Yan, G.; Zhu, H.; Yang Xu, X.; Zhu, L. Seasonal Bacterial Community Succession in Four Typical Wastewater Treatment Plants: Correlations between Core Microbes and Process Performance. Sci. Rep. 2018, 8, 1–11. [Google Scholar] [CrossRef]
- George, I.F.; Liles, M.R.; Hartmann, M.; Ludwig, W.; Goodman, R.M.; Agathos, S.N. Changes in Soil Acidobacteria Communities after 2, 4, 6-Trinitrotoluene Contamination. FEMS Microbiol. Lett. 2009, 296, 159–166. [Google Scholar] [CrossRef] [Green Version]
- Vivas, A.; Moreno, B.; del Val, C.; Macci, C.; Masciandaro, G.; Benitez, E. Metabolic and Bacterial Diversity in Soils Historically Contaminated by Heavy Metals and Hydrocarbons. J. Environ. Monit. 2008, 10, 1287–1296. [Google Scholar] [CrossRef]
- Kuppardt, A.; Kleinsteuber, S.; Vogt, C.; Lüders, T.; Harms, H.; Chatzinotas, A. Phylogenetic and Functional Diversity within Toluene-Degrading, Sulphate-Reducing Consortia Enriched from a Contaminated Aquifer. Microb. Ecol. 2014, 68, 222–234. [Google Scholar] [CrossRef]
- Atashgahi, S.; Hornung, B.; Van Der Waals, M.J.; Da Rocha, U.N.; Hugenholtz, F.; Nijsse, B.; Molenaar, D.; Van Spanning, R.; Stams, A.J.M.; Gerritse, J. A Benzene-Degrading Nitrate-Reducing Microbial Consortium Displays Aerobic and Anaerobic Benzene Degradation Pathways. Sci. Rep. 2018, 8, 1–12. [Google Scholar] [CrossRef]
Phylum/Sub-Phylum | Genus-Level (OTU No.) | Closest Cultured Relative | Acc. No a | [%] b | Log2-Fold Change | |
---|---|---|---|---|---|---|
16S rRNA Gene | 16S rRNA | |||||
Proteobacteria | ||||||
Alphaproteobacteria | Xanthobacter (75) | Xanthobacter agilis | MK402058 | 99 | 5 c | 4 |
Hyphomicrobium (21) | Hyphomicrobium vulgare | KC447318 | 99 | 2 | -- | |
Magnetospirillum (510) | Magnetospirillum magneticum | AB983194 | 100 | -- d | 4 | |
Novosphingobium (120) | Novosphingobium aromaticivorans | KU924009 | 100 | -- | 4 | |
Reyranella (439) | Reyranella aquatilis | NR_158037 | 100 | -- | 3 | |
Rhizobium (546) | Rhizobium selenitireducens | MH665748 | 100 | -- | 2 | |
Prosthecomicrobium (388) | Prosthecomicrobium hirschii | NR_104906 | 100 | -- | 2 | |
Deltaproteobacteria | unc. Myxococcales (1467) | Vulgatibacter incomptus | CP012332 | 92 | 5 | 3 |
Phaselicystis (462) | Phaselicystis flava | NR_044523 | 91 | 4 | -- | |
Geothermobacter (241) | Geothermobacter ehrlichii | NR_042754 | 94 | -- | 2 | |
Gammaproteobacteria | unc. Neisseriaceae (1382) | Annwoodia aquaesulis | NR_044793 | 95 | 3 | -- |
Ferritrophicum (36) | Ferritrophicum radinicola | DQ386273 | 94 | 2 | -- | |
unc. Betaproteobacteriales (56) | Piscinibacter aquaticus | LC430085 | 93 | 2 | -- | |
unc. Nitrosomonadaceae (77) | Collimonas fungivorans | KM604833 | 93 | 1 | -- | |
Crenothrix (268) | Crenothrix polyspora | DQ295898 | 96 | -- | 5 | |
Bacteroidetes | ||||||
Sphingobacteriia | unc. KD3-93 (2443) | Owenweeksia hongkongensis | CP003156 | 90 | -- | 6 |
unc. env.OPS_17 (2106) | Sphingobacterium tabacisoli | NR_159136 | 89 | -- | 5 | |
unc. env.OPS_17 (818) | Anseongella ginsenosidimutans | CP042432 | 85 | -- | 4 | |
Terrimonas (370) | Terrimonas soli | NR_159891 | 98 | 2 | -- | |
Cytophagia | unc. Rhodothermaceae (1646) | Rhodothermus marinus | Y14143 | 90 | -- | 2 |
Publisher’s Note: MDPI stays neutral with regard to jurisdictional claims in published maps and institutional affiliations. |
© 2020 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
Share and Cite
Rutere, C.; Posselt, M.; Horn, M.A. Fate of Trace Organic Compounds in Hyporheic Zone Sediments of Contrasting Organic Carbon Content and Impact on the Microbiome. Water 2020, 12, 3518. https://doi.org/10.3390/w12123518
Rutere C, Posselt M, Horn MA. Fate of Trace Organic Compounds in Hyporheic Zone Sediments of Contrasting Organic Carbon Content and Impact on the Microbiome. Water. 2020; 12(12):3518. https://doi.org/10.3390/w12123518
Chicago/Turabian StyleRutere, Cyrus, Malte Posselt, and Marcus A. Horn. 2020. "Fate of Trace Organic Compounds in Hyporheic Zone Sediments of Contrasting Organic Carbon Content and Impact on the Microbiome" Water 12, no. 12: 3518. https://doi.org/10.3390/w12123518