All Stories

  1. A nirK–cbb3 genomic region links SAR11 to nitrogen loss in the northern Benguela Upwelling System

    Article • Microbial Genomics, January 2026, Society for General Microbiology

    Timothy Mattes

  2. Discovery of an identical CRISPR spacerome in a subset of global E. coli strains spanning decades

    Article • ISME Communications, November 2025, Oxford University Press (OUP)

    Timothy Mattes

  3. Paraburkholderia Xenovorans Strain LB400 Significantly Decreased Volatilization of Polychlorinated Biphenyls (PCBs) from Freshwater and Saline Sediments

    Article • ACS ES&T Water, September 2025, American Chemical Society (ACS)

    Timothy Mattes

  4. Development of a Novel PCB-Degrading Biofilm Enriched Biochar Encapsulated with Sol–Gel: A Protective Layer to Sustain Biodegradation Activity

    Article • ACS ES&T Engineering, March 2025, American Chemical Society (ACS)

    Timothy Mattes

  5. Metagenomes, metagenome-assembled genomes, and metatranscriptomes from a chlorinated ethene-dechlorinating culture amended with biochar pyrolyzed at different temperatures

    Article • Microbiology Resource Announcements, September 2024, ASM Journals

    Timothy Mattes

  6. Black Carbon Impacts on Paraburkholderia xenovorans Strain LB400 Cell Enrichment and Activity: Implications toward Lower-Chlorinated Polychlorinated Biphenyls Biodegradation Potential

    Article • Environmental Science & Technology, February 2024, American Chemical Society (ACS)

    Timothy Mattes

  7. Characterizing Chemistry and Microbiomes During Continuous Anaerobic Codigestion of Organics and Cattle Manure Digestate

    Article • Energy & Fuels, February 2024, American Chemical Society (ACS)

    Timothy Mattes

  8. Genome-Resolved Metagenomics and Metatranscriptomics Reveal Insights into the Ecology and Metabolism of Anaerobic Microbial Communities in PCB-Contaminated Sediments

    Article • Environmental Science & Technology, October 2023, American Chemical Society (ACS)

    Timothy Mattes

  9. Reconnaissance of Oxygenic Denitrifiers in Agriculturally Impacted Soils

    Article • mSphere, June 2023, ASM Journals

    Timothy Mattes

  10. Lab-scale biodegradation assay using passive samplers to determine microorganisms’ ability to reduce polychlorinated biphenyl (PCB) volatilization from contaminated sediment

    Article • MethodsX, January 2023, Elsevier

    Timothy Mattes

  11. Aerobic Bioaugmentation to Decrease Polychlorinated Biphenyl (PCB) Emissions from Contaminated Sediments to Air

    Article • Environmental Science & Technology, September 2022, American Chemical Society (ACS)

    Timothy Mattes

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

    Article • Applied Microbiology and Biotechnology, September 2022, Springer Science + Business Media

    Timothy Mattes

  13. Metagenomes, Metagenome-Assembled Genomes, and Metatranscriptomes from Polychlorinated Biphenyl-Contaminated Sediment Microcosms

    Article • Microbiology Resource Announcements, July 2022, ASM Journals

    Timothy Mattes

  14. Combined read- and assembly-based metagenomics to reconstruct aDehalococcoides mccartyigenome from PCB-contaminated sediments and evaluate functional differences among organohalide-respiring consortia in the presence of different halogenated con...

    Article • FEMS Microbiology Ecology, June 2022, Oxford University Press (OUP)

    Timothy Mattes

  15. Natural Biodegradation of Vinyl Chloride and cis-Dichloroethene in Aerobic and Suboxic Conditions

    Article • Environmental Science and Pollution Research, March 2022, Springer Science + Business Media

    Timothy Mattes

  16. Two Metatranscriptomic Profiles through Low-Dissolved-Oxygen Waters (DO, 0 to 33 µM) in the Eastern Tropical North Pacific Ocean

    Article • Microbiology Resource Announcements, February 2022, ASM Journals

    Timothy Mattes

  17. Microbial communities in polychlorinated biphenyl (PCB)-contaminated wastewater lagoon sediments: PCB congener, quantitative PCR, and 16S rRNA gene amplicon sequencing datasets

    Article • Data in Brief, December 2021, Elsevier

    Timothy Mattes

  18. Dataset describing biodegradation of individual polychlorinated biphenyl congeners (PCBs) by Paraburkholderia xenovorans LB400 in presence and absence of sediment slurry

    Article • Data in Brief, April 2021, Elsevier

    Timothy Mattes

  19. Biodegradation of PCB congeners by Paraburkholderia xenovorans LB400 in presence and absence of sediment during lab bioreactor experiments

    Article • Environmental Pollution, February 2021, Elsevier

    Timothy Mattes

  20. Detection of an alkene monooxygenase in vinyl chloride-oxidizing bacteria with GeneFISH

    Article • Journal of Microbiological Methods, February 2021, Elsevier

    Timothy Mattes

  21. Impacts of ammonia loading and biofilm age on the prevalence of nitrogen‐cycling microorganisms in a full‐scale submerged attached‐growth reactor

    Article • Water Environment Research, November 2020, Wiley

    Timothy Mattes

  22. Metabolic flexibility of SUP05 under low DO growth conditions

    Article • Environmental Microbiology, September 2020, Wiley

    Timothy Mattes

  23. Passively Sampled Environmental Films Show Geographic Variability and Host a Variety of Microorganisms

    Article • ACS Earth and Space Chemistry, October 2019, American Chemical Society (ACS)

    Timothy Mattes

  24. Growth of Dehalococcoides spp. and increased abundance of reductive dehalogenase genes in anaerobic PCB-contaminated sediment microcosms

    Article • Environmental Science and Pollution Research, June 2019, Springer Science + Business Media

    Timothy Mattes

  25. Cryogenic soil coring reveals coexistence of aerobic and anaerobic vinyl chloride degrading bacteria in a chlorinated ethene contaminated aquifer

    Article • Water Research, June 2019, Elsevier

    Timothy Mattes

  26. Integrated methodological approach reveals microbial diversity and functions in aerobic groundwater microcosms adapted to vinyl chloride

    Article • FEMS Microbiology Ecology, June 2018, Oxford University Press (OUP)

    Timothy Mattes

  27. Relationships between the Abundance and Expression of Functional Genes from Vinyl Chloride (VC)-Degrading Bacteria and Geochemical Parameters at VC-Contaminated Sites

    Article • Environmental Science & Technology, October 2017, American Chemical Society (ACS)

    Timothy Mattes

  28. PCB dechlorination hotspots and reductive dehalogenase genes in sediments from a contaminated wastewater lagoon

    Article • Environmental Science and Pollution Research, August 2017, Springer Science + Business Media

    Timothy Mattes

  29. Temporal abundance and activity trends of vinyl chloride (VC)-degrading bacteria in a dilute VC plume at Naval Air Station Oceana

    Article • Environmental Science and Pollution Research, April 2017, Springer Science + Business Media

    Timothy Mattes

  30. Nocardioides, Sediminibacterium, Aquabacterium, Variovorax, and Pseudomonas linked to carbon uptake during aerobic vinyl chloride biodegradation

    Article • Environmental Science and Pollution Research, June 2016, Springer Science + Business Media

    Timothy Mattes

  31. Epoxyalkane:Coenzyme M Transferase Gene Diversity and Distribution in Groundwater Samples from Chlorinated-Ethene-Contaminated Sites

    Article • Applied and Environmental Microbiology, March 2016, ASM Journals

    Timothy Mattes

  32. Aerobic Vinyl Chloride Metabolism in Groundwater Microcosms by Methanotrophic and Etheneotrophic Bacteria

    Article • Environmental Science & Technology, March 2016, American Chemical Society (ACS)

    Timothy Mattes

  33. Abundance and activity of vinyl chloride (VC)-oxidizing bacteria in a dilute groundwater VC plume biostimulated with oxygen and ethene

    Article • Applied Microbiology and Biotechnology, July 2015, Springer Science + Business Media

    Timothy Mattes

  34. Elucidating carbon uptake from vinyl chloride using stable isotope probing and Illumina sequencing

    Article • Applied Microbiology and Biotechnology, May 2015, Springer Science + Business Media

    Timothy Mattes

  35. Microbial community analysis of switchgrass planted and unplanted soil microcosms displaying PCB dechlorination

    Article • Applied Microbiology and Biotechnology, March 2015, Springer Science + Business Media

    Timothy Mattes

  36. Partial nitritation ANAMMOX in submerged attached growth bioreactors with smart aeration at 20 °C

    Article • Environmental Science Processes & Impacts, January 2015, Royal Society of Chemistry

    Timothy Mattes

  37. Enhanced polychlorinated biphenyl removal in a switchgrass rhizosphere by bioaugmentation with Burkholderia xenovorans LB400

    Article • Ecological Engineering, October 2014, Elsevier

    Timothy Mattes

  38. N-Functionalized Carbon Nanotubes As a Source and Precursor of N-Nitrosodimethylamine: Implications for Environmental Fate, Transport, and Toxicity

    Article • Environmental Science & Technology, August 2014, American Chemical Society (ACS)

    Timothy Mattes

  39. Potential for polychlorinated biphenyl biodegradation in sediments from Indiana Harbor and Ship Canal

    Article • International Biodeterioration & Biodegradation, April 2014, Elsevier

    Timothy Mattes

  40. Sulfur oxidizers dominate carbon fixation at a biogeochemical hot spot in the dark ocean

    Article • The ISME Journal, July 2013, Oxford University Press (OUP)

    Prof. Dennis A. Hansell, Timothy Mattes

  41. Microbial Community Dynamics during Acetate Biostimulation of RDX-Contaminated Groundwater

    Article • Environmental Science & Technology, July 2013, American Chemical Society (ACS)

    Timothy Mattes

  42. Phylogenetic detection of novel C ryptomycota in an I owa ( U nited S

    Article • Environmental Microbiology, March 2013, Wiley

    Timothy Mattes

  43. Enantioselective oxidation by a cyclohexanone monooxygenase from the xenobiotic-degrading Polaromonas sp. strain JS666

    Article • Journal of Molecular Catalysis B Enzymatic, June 2012, Elsevier

    Timothy Mattes

  44. Assessment and modification of degenerate qPCR primers that amplify functional genes from etheneotrophs and vinyl chloride-assimilators

    Article • Letters in Applied Microbiology, September 2011, Oxford University Press (OUP)

    Timothy Mattes

  45. Genome Sequence of the Ethene- and Vinyl Chloride-Oxidizing Actinomycete Nocardioides sp. Strain JS614

    Article • Journal of Bacteriology, May 2011, ASM Journals

    Dr Nikos C Kyrpides, Timothy Mattes

  46. A Quantitative PCR Assay for Aerobic, Vinyl Chloride- and Ethene-Assimilating Microorganisms in Groundwater

    Article • Environmental Science & Technology, October 2010, American Chemical Society (ACS)

    Timothy Mattes

  47. Aerobic biodegradation of the chloroethenes: pathways, enzymes, ecology, and evolution

    Article • FEMS Microbiology Reviews, July 2010, Oxford University Press (OUP)

    Timothy Mattes

  48. Association of Missense Mutations in Epoxyalkane Coenzyme M Transferase with Adaptation of Mycobacterium sp. Strain JS623 to Growth on Vinyl Chloride

    Article • Applied and Environmental Microbiology, April 2010, ASM Journals

    Timothy Mattes

  49. Proteomic Analysis of Ethene-Enriched Groundwater Microcosms from a Vinyl Chloride-Contaminated Site

    Article • Environmental Science & Technology, February 2010, American Chemical Society (ACS)

    Timothy Mattes

  50. Gaseous alkene biotransformation and enantioselective epoxyalkane formation by Nocardioides sp. strain JS614

    Article • Applied Microbiology and Biotechnology, May 2009, Springer Science + Business Media

    Timothy Mattes

  51. The Genome of Polaromonas sp. Strain JS666: Insights into the Evolution of a Hydrocarbon- and Xenobiotic-Degrading Bacterium, and Features of Relevance to Biotechnology

    Article • Applied and Environmental Microbiology, August 2008, ASM Journals

    Timothy Mattes

  52. Adaptation of Aerobic, Ethene-Assimilating Mycobacterium Strains to Vinyl Chloride as a Growth Substrate

    Article • Environmental Science & Technology, June 2008, American Chemical Society (ACS)

    Timothy Mattes

  53. Identification of Polypeptides Expressed in Response to Vinyl Chloride, Ethene, and Epoxyethane in Nocardioides sp. Strain JS614 by Using Peptide Mass Fingerprinting

    Article • Applied and Environmental Microbiology, May 2007, ASM Journals

    Timothy Mattes

  54. Mechanism controlling the extended lag period associated with vinyl chloride starvation in Nocardioides sp. strain JS614

    Article • Archives of Microbiology, November 2006, Springer Science + Business Media

    Timothy Mattes

  55. Carbon Isotopic Fractionation during Aerobic Vinyl Chloride Degradation

    Article • Environmental Science & Technology, January 2005, American Chemical Society (ACS)

    Timothy Mattes

  56. Physiological and molecular genetic analyses of vinyl chloride and ethene biodegradation in Nocardioides sp. strain JS614

    Article • Archives of Microbiology, December 2004, Springer Science + Business Media

    Timothy Mattes

  57. Phylogenetic and Kinetic Diversity of Aerobic Vinyl Chloride-Assimilating Bacteria from Contaminated Sites

    Article • Applied and Environmental Microbiology, December 2002, ASM Journals

    Timothy Mattes

  58. Biodegradation of cis-Dichloroethene as the Sole Carbon Source by a β-Proteobacterium

    Article • Applied and Environmental Microbiology, June 2002, ASM Journals

    Timothy Mattes