Positions

Overview

  • My main focuses of research are: 1) ribotyping Escherichia coli to identify sources of fecal contamination in surface waters; 2) microbial cycling of mercury in estuarine and marine environments; 3) monitoring for toxic chemicals in the marine environment; 4) stormwater-related pollution of estuarine waters. I have many different projects that make up my research program, the majority of which are related to these 4 topic areas.
  • Publications

    Academic Article

    Year Title
    2018 Varying Success of Relaying To Reduce Vibrio parahaemolyticus Levels in Oysters ( Crassostrea virginica).Journal of Food Protection.  81:659-669. 2018
    2018 Varying Success of Relaying To Reduce Vibrio parahaemolyticus Levels in Oysters (Crassostrea virginica)Journal of Food Protection.  81:659-669. 2018
    2017 Parallel Evolution of Two Clades of an Atlantic-Endemic Pathogenic Lineage of Vibrio parahaemolyticus by Independent Acquisition of Related Pathogenicity Islands.Applied and Environmental Microbiology.  83:e01168-e01117. 2017
    2017 Sequence Type 631 Vibrio parahaemolyticus, an Emerging Foodborne Pathogen in North America.Journal of Clinical Microbiology.  55:645-648. 2017
    2016 Environmental Conditions Associated with Elevated Vibrio parahaemolyticus Concentrations in Great Bay Estuary, New Hampshire.PLoS ONE.  11:e0155018. 2016
    2015 Use of Whole-Genome Phylogeny and Comparisons for Development of a Multiplex PCR Assay To Identify Sequence Type 36 Vibrio parahaemolyticus.Journal of Clinical Microbiology.  53:1864-1872. 2015
    2015 Genetic characterization of clinical and environmental Vibrio parahaemolyticus from the Northeast USA reveals emerging resident and non-indigenous pathogen lineages.Frontiers in Microbiology.  6:272. 2015
    2012 Mercury sources and fate in the Gulf of Maine.Environmental Research.  119:27-41. 2012
    2012 Influence of seasonality on the genetic diversity of Vibrio parahaemolyticus in New Hampshire shellfish waters as determined by multilocus sequence analysis.Applied and Environmental Microbiology.  78:3778-3782. 2012
    2011 Ecology and genetic structure of a northern temperate Vibrio cholerae population related to toxigenic isolates.Applied and Environmental Microbiology.  77:7568-7575. 2011
    2010 Comparison of the pathogenic potentials of environmental and clinical vibrio parahaemolyticus strains indicates a role for temperature regulation in virulence.Applied and Environmental Microbiology.  76:7459-7465. 2010
    2009 Detecting water quality patterns in New Hampshire's estuaries using National Coastal Assessment probability-based survey data.Environmental Monitoring and Assessment.  150:129-142. 2009
    2009 BACTERIAL COMMUNITY PROFILING OF THE AMERICAN OYSTER (CRASSOSTREA VIRGINICA): COMPARISON OF CULTURE-DEPENDENT AND CULTURE-INDEPENDENT OUTCOMESJournal of Shellfish Research.  28. 2009
    2008 Integrated mercury monitoring program for temperate estuarine and marine ecosystems on the North American Atlantic coast.Ecosystem Health EcoHealth.  5:426-441. 2008
    2008 Characterization of Escherichia coli populations from gulls, landfill trash, and wastewater using ribotyping.Diseases of Aquatic Organisms.  81:53-63. 2008
    2005 Recovery of chlorine-exposed Escherichia coli in estuarine microcosms.Environmental Science & Technology.  39:3083-3089. 2005
    2002 Microbiology of summer flounder Paralichthys dentatus fingerling production at a marine fish hatcheryAquaculture.  211:9-28. 2002
    2001 Monitoring for toxic contaminants in Mytilus edulis from New Hampshire and the Gulf of MaineJournal of Shellfish Research.  20:1203-1214. 2001
    2001 Gulfwatch: monitoring spatial and temporal patterns of trace metal and organic contaminants in the Gulf of Maine (1991-1997) with the blue mussel, Mytilus edulis L.Marine Pollution Bulletin.  42:491-505. 2001
    1998 Incidence and detection of pathogenic Vibrio sp. in a northern New England Estuary, USAJournal of Shellfish Research.  17:1665-1669. 1998
    1998 Conversion of mercury(II) into mercury(O), monomethylmercury cation, and dimethylmercury in saltmarsh sediment slurriesChemosphere Chemosphere - Global Change Science.  36:1669-1687. 1998
    1995 INTERACTIONS OF TIN(IV) AND MONOMETHYLTIN CATION IN ESTUARINE WATER-SEDIMENT SLURRIES FROM THE GREAT-BAY-ESTUARY, NEW-HAMPSHIRE, USAApplied Organometallic Chemistry.  9:581-590. 1995
    1992 Seasonal incidence of Vibrio vulnificus in the Great Bay estuary of New Hampshire and Maine.Applied and Environmental Microbiology.  58:3257-3262. 1992
    1990 INCIDENCE OF VIBRIO-VULNIFICUS IN NORTHERN NEW-ENGLAND WATER AND SHELLFISHFEMS Microbiology Letters.  72:163-168. 1990
    1990 Incidence of Vibrio vulnificus in northern New England water and shellfish.FEMS Microbiology Letters.  60:163-167. 1990
    1987 A graphical presentation of three-dimensional joint mobility.Clinical Biomechanics.  2:14-21. 1987

    Conference Proceeding

    Year Title
    2015 GENETIC CHARACTERIZATION OF CLINICAL AND ENVIRONMENTAL VIBRIO PARAHAEMOLYTICUS FROM THE NORTHEASTERN US REVEALS EMERGING RESIDENT AND INVASIVE PATHOGEN LINEAGESJournal of Shellfish Research. 726-727. 2015
    2015 LONG-TERM TRENDS OF PATHOGENIC VIBRIO SPP. POPULATIONS IN NEW HAMPSHIRE OYSTERSJournal of Shellfish Research. 711-711. 2015
    2008 Enterococci populations in conventional, manufactured and LID stormwater treatment systemsWorld Environmental and Water Resources Congress 2008: Ahupua'a - Proceedings of the World Environmental and Water Resources Congress 2008. 1-9. 2008

    Principal Investigator On

  • Lamprey River Water Quality Monitoring Program for the Town of Newmarket  awarded by Town of Newmarket 2019 - 2022
  • 2018 - 19 DES Shellfish Vibrio Analysis  awarded by NH Department of Environmental Services 2018 - 2019
  • Oyster Culture and Harvest Practices to Reduce Pathogenic Vibrio Parahaemolyticus Concentrations in the Northeast US  awarded by Interstate Shellfish Sanitation Conference 2018 - 2019
  • Pease Wastewater Treatment Facility Antidegradation Study  awarded by Underwood Engineers Inc 2018 - 2019
  • Cocheco River Water Quality Monitoring  awarded by Rochester, NH (City of) 2018 - 2019
  • Bellamy River Sonde Deployment-2017  awarded by City of Dover 2017 - 2019
  • Microbial Source Tracking in Maine Beaches  awarded by Maine Department of Environmental Protection 2018 - 2019
  • Cocheco River Sonde Deployment-2017  awarded by Rochester, NH (City of) 2017 - 2018
  • 2017 NH Shellfish Vibrio Analysis  awarded by NH Department of Environmental Services 2017
  • 2016 Annual Datasonde Deployment in the Cocheco River  awarded by City of Dover 2016 - 2017
  • 2016 NHDES Shellfish Vibrio Studies  awarded by NH Department of Environmental Services 2016
  • 2015 UNH Monitoring to Support the NCCA in 2015  awarded by NH Department of Environmental Services 2015 - 2016
  • Impact of the Dover NH Wastwater Treatment Facility on Water Quality in the Great Bay Estuary and Sonde Deployment in the Cocheco River  awarded by City of Dover 2015
  • 2015 NHDES Shellfish Program Vibrio Analysis  awarded by NH Department of Environmental Services 2015
  • Bacteria and Weather Based Beach Modeling for York Maine  awarded by Town of York ME 2014 - 2015
  • Dissolved Oxygen Study in NH Tidal Rivers  awarded by City of Dover 2014 - 2015
  • Vibrio Parahaemolyticus Testing of Little Bay Oysters  awarded by NH Department of Environmental Services 2014
  • Piscataqua River-Portsmouth Harbor Water Transparency Field Study  awarded by City of Dover 2013
  • Piloting Citizen Volunteer Participation in Monitoring Stormwater Discharges in NH Seacoast Municipalities  awarded by NH Department of Environmental Services 2011 - 2012
  • Ecoli Ribotyping and Water Quality Monitoring for the Colchester VT IWRMP  awarded by Forcier Aldrich & Assoc 2009 - 2012
  • Coordination of 2011-2012 Gulfwatch Project  awarded by Gulf of Maine Council 2011 - 2012
  • Dissolved Oxygen and Nutrients in the Squamscott River  awarded by Portsmouth, NH (City of) 2011
  • UNH Monitoring Activities that Support the National Coastal Condition Assessment in 2010  awarded by NH Department of Environmental Services 2010 - 2011
  • Gulfwatch Program  awarded by Gulf of Maine Council 2010 - 2011
  • Monitoring to Support the NH National Coastal Assessment Program  awarded by NH Department of Environmental Services 2009 - 2010
  • Management of the Gulfwatch Mussel Monitoring Program  awarded by Gulf of Maine Council 2009 - 2010
  • 2008 NH National Coastal Assessment Monitoring Program - NHEP  awarded by NH Department of Environmental Services 2008 - 2009
  • Management of the Gulfwatch Toxic Contaminant Monitoring Program  awarded by Gulf of Maine Council 2007 - 2009
  • Management of the 2008 GOMC Gulfwatch Program  awarded by Canadian Delegates to Gulf of ME 2008 - 2009
  • New Hampshire National Coastal Assessment 2006  awarded by NH Department of Environmental Services 2006 - 2007
  • Management of the Gulf of Maine Gulfwatch Program  awarded by Gulf of Maine Council 2006 - 2007
  • Beach Program Total Maximum Daily Load Microbial Source Tracking Project  awarded by NH Department of Environmental Services 2006 - 2007
  • Pollution Source Identification Study of Berry's Brook  awarded by NH Department of Environmental Services 2006
  • 2005 New Hampshire National Coastal Assessment  awarded by NH Department of Environmental Services 2005 - 2006
  • New Hampshire National Coastal Assessment (2004), Estuarine Survey of Coastal NH  awarded by NH Department of Environmental Services 2004 - 2006
  • Pollution Tracking in Bellamy River  awarded by NH Department of Environmental Services 2006
  • Gulfwatch Mussel Monitoring Project  awarded by Gulf of Maine Council 2005 - 2006
  • Beach Program Total Maximum Daily Load Microbial Source Tracking Project  awarded by NH Department of Environmental Services 2005 - 2006
  • Management Non Human Sources Bacteria Hampton Harbor  awarded by NH Department of Environmental Services 2004 - 2005
  • Gulfwatch Mussel Monitoring  awarded by Gulf of Maine Council 2004 - 2005
  • E Coli Ribotyping in Cains Brook, NH  awarded by NH Department of Environmental Services 2004 - 2005
  • Characterization & Recommended Monitoring Hodgson Brook  awarded by NH Department of Environmental Services 2002 - 2004
  • Ribotyping E Coli NH Shellfish Program  awarded by NH Office of the Governor, Office of Energy & Pla 2003 - 2004
  • Gulfwatch Monitoring Program  awarded by Gulf of Maine Council 2003 - 2004
  • 2003 National Coastal Assessment Estuarine Survey  awarded by State of New Hampshire Miscellaneous Sponsor 2002 - 2004
  • Stormwater Technology Verification  awarded by NH Department of Environmental Services 2001 - 2004
  • Identify Bacterial Sources Public Beaches Microbial Source  awarded by NH Department of Environmental Services 2003 - 2004
  • 2001-2002 Gulfwatch Project  awarded by Gulf of Maine Council 2002 - 2003
  • Ribotyping Capacity Building For Microbial Source Tracking  awarded by NH Department of Environmental Services 2002 - 2003
  • Ribotyping of E. Coli to ID Fecal Contamination in Maine  awarded by Maine Department of Environmental Protection 2002 - 2003
  • 2002 NH National Coastal Assessment  awarded by NH Department of Environmental Services 2001 - 2003
  • Microbial Source Tracking in Little Harbor & Atlantic Coast  awarded by NH Department of Environmental Services 2001 - 2003
  • Coastal 2001 Estuarine Survey of NH  awarded by NH Department of Environmental Services 2000 - 2002
  • Ribotyping for Tracking Sources of Bacteria in NH Waters  awarded by NH Office of the Governor, Office of Energy & Pla 2000 - 2002
  • Coastal 2000 Estuarine Survey of NH  awarded by NH Department of Environmental Services 1999 - 2001
  • Gulfwatch Monitoring Program  awarded by Gulf of Maine Council 1999 - 2001
  • Microbial Source Tracking in Vermont Using Ribotyping  awarded by Environmental Protection Agency (EPA) 1999 - 2001
  • NH Estuaries Project  awarded by NH Office of the Governor, Office of Energy & Pla 1998 - 2001
  • Ribotyping E Coli Isolates from Estuarine Waters  awarded by NH Department of Environmental Services 1998 - 2001
  • Great Bay NERR Monitoring Program  awarded by NH Department of Fish & Game 1999 - 2000
  • Urban Rivers: Storm Contaminat Ion  awarded by NH Office of the Governor, Office of Energy & Pla 1999 - 2000
  • Little Harbor/Back Channel Sanitary Survey Analyses  awarded by NH Department of Environmental Services 1998 - 2000
  • Strategy for Identifying Urban Contamination Sources  awarded by NH Office of the Governor, Office of Energy & Pla 1998 - 2000
  • Mercury Cycling in New England Estuaries  awarded by Environmental Protection Agency (EPA) 1996 - 2000
  • Bacterial Phase Partitioning in Stormwater  awarded by NH Office of the Governor, Office of Energy & Pla 1998 - 1999
  • Great Bay NERR Monitoring Program  awarded by NH Department of Fish & Game 1998 - 1999
  • NH Estuaries Project  awarded by NH Office of the Governor, Office of Energy & Pla 1998 - 1999
  • Urban Stormwater Contamination of New Hampshire Tidal Rivers  awarded by NH Office of the Governor, Office of Energy & Pla 1997 - 1999
  • A Monitoring Program for the Great Bay NERR  awarded by NH Department of Fish & Game 1997 - 1998
  • Continue Gulfwatch Monitoring Program  awarded by Gulf of Maine Council 1997 - 1998
  • Public Health Significance of Stormwater Microorganisms  awarded by NH Department of Environmental Services 1996 - 1998
  • Stormwater Contamination of Coastal Surface Waters  awarded by NH Office of the Governor, Office of Energy & Pla 1996 - 1998
  • Dryweather Bacterial Levels in Stormwater Systems  awarded by NH Office of the Governor, Office of Energy & Pla 1996 - 1997
  • Fieldwork Support for Gulfwatch  awarded by Gulf of Maine Council 1996 - 1997
  • Five-Year Analysis of Gulfwatch  awarded by Gulf of Maine Council 1996 - 1997
  • Continuation of Gomene Gulfwater Monitoring Program  awarded by Gulf of Maine Council 1995 - 1997
  • Septic Tank Disconnection Impacts on Coastal Water Quality  awarded by NH Office of the Governor, Office of Energy & Pla 1995 - 1997
  • Monitoring Plan for Great Bay Estuarine Research Reserve  awarded by NH Department of Fish & Game 1993 - 1997
  • Assessment of Nonpoint Source Pollution in GBE Tributaries  awarded by NH Office of the Governor, Office of Energy & Pla 1995 - 1996
  • IRC Company Match  awarded by Great Bay Aquafarms, Inc. 1995 - 1996
  • Assessment of Clam Resources & Sanitary Quality of Waters  awarded by NH Office of the Governor, Office of Energy & Pla 1994 - 1996
  • Effectiveness of Storm Water Control Measures  awarded by NH Office of the Governor, Office of Energy & Pla 1994 - 1996
  • Septic System Design & Effects on Coastal Habitat & Water  awarded by NH Office of the Governor, Office of Energy & Pla 1994 - 1996
  • Assessing Pollution Impacts on Coastal Watersheds  awarded by NH Office of the Governor, Office of Energy & Pla 1993 - 1995
  • Assessment of Nonpoint Source Pollution in Great Bay Estuary  awarded by NH Office of the Governor, Office of Energy & Pla 1993 - 1995
  • Bacteria and Nutrients from Subsurface Disposal Systems  awarded by NH Office of the Governor, Office of Energy & Pla 1993 - 1995
  • Pollution Sources & Environment Factors Affecting Water  awarded by NH Department of Health & Human Services 1993 - 1995
  • Mitigation of Contaminated Water Using Constructed Wetlands  awarded by NH Office of the Governor, Office of Energy & Pla 1993 - 1994
  • Contaminated Sediment Database for Gulf of Maine  awarded by Woods Hole Oceanographic Institution 1992 - 1994
  • Influence of Nonpoint Source Pollution on Estuarine Bacteria  awarded by US DOC, National Oceanic & Atmospheric Administration (NOAA) 1992 - 1994
  • Land Use and Nonpoint Source Pollution in Coastal Watersheds  awarded by NH Office of the Governor, Office of Energy & Pla 1992 - 1994
  • Monitoring Plan for the Great Bay Estuary  awarded by NH Department of Fish & Game 1991 - 1994
  • Agricultural Contamination of Estuarine Water  awarded by NH Office of the Governor, Office of Energy & Pla 1992 - 1993
  • Nonpoint Source Pollution in Oyster River Watershed  awarded by NH Office of the Governor, Office of Energy & Pla 1992 - 1993
  • Investigator On

  • Assessing Microbial Safety Issues Associated with Emerging Shellfish Aquaculture Practices to Increase Productivity in the Northeast US  awarded by US DOC, National Oceanic & Atmospheric Administration (NOAA) 2018 - 2021
  • 2014-2017 NH Sea Grant Omnibus  awarded by US DOC, National Oceanic & Atmospheric Administration (NOAA) 2014 - 2019
  • Vibrio Detection With Phage  awarded by Cornell University 2017 - 2019
  • Piscataqua Region Estuaries Partnership - Year 20 Workplan (2015)  awarded by Environmental Protection Agency (EPA) 2015 - 2017
  • PREP Year 19  awarded by Environmental Protection Agency (EPA) 2014 - 2017
  • Piscataqua Region Estuaries Partnership's  awarded by Environmental Protection Agency (EPA) 2012 - 2016
  • Piscataqua Region Estuaries Partnership Year 15 Workplan to Implement the Management Plan for the Region's Estuaries in 2011  awarded by Environmental Protection Agency (EPA) 2010 - 2016
  • Sustaining Coastal Systems: Linking Science and Decision-Making to Reduce Pollution-Related Impairment  awarded by National Science Foundation (NSF) 2013 - 2016
  • PREP Year 18  awarded by Environmental Protection Agency (EPA) 2013 - 2015
  • Piscataqua Region Estuaries Partnership Year 16 Workplan to Implement the Management Plan for the Region's Estuaries in 2012  awarded by Environmental Protection Agency (EPA) 2011 - 2014
  • Piscataqua Region Estuaries Partnership Year 14 Work Plan to Implement the Management Plan for the Region's Estuaries in 2010  awarded by Environmental Protection Agency (EPA) 2009 - 2012
  • 2006-08 Sea Grant Program  awarded by US DOC, National Oceanic & Atmospheric Administration (NOAA) 2006 - 2012
  • New Hampshire Estuaries Project Year 13 Work Plan to Implement the Management Plan for NH's Estuaries in 2009  awarded by Environmental Protection Agency (EPA) 2008 - 2011
  • New Hampshire Estuaries Project Year 12 Work Plan to Implement the Management Plan for NH's Estuaries in 2008  awarded by Environmental Protection Agency (EPA) 2007 - 2011
  • Work Plan of New Hampshire Estuaries Project  awarded by Environmental Protection Agency (EPA) 2005 - 2008
  • UNH Monitoring Activities that Support the National Coastal Assessment in 2007  awarded by NH Department of Environmental Services 2007 - 2008
  • CICEET 2001-2003  awarded by US DOC, National Oceanic & Atmospheric Administration (NOAA) 2001 - 2004
  • Teaching Activities

  • Doctoral Thesis Taught course 2019
  • Doctoral Thesis Taught course 2018
  • Doctoral Research Taught course 2018
  • Doctoral Research Taught course 2017
  • Doctoral Research Taught course 2017
  • Doctoral Research Taught course 2017
  • Environmental Eng Microbiology Taught course 2017
  • Environmental Eng Microbiology Taught course 2017
  • Environmental Eng Microbiology Taught course 2017
  • Doctoral Research Taught course 2016
  • Doctoral Research Taught course 2016
  • Environmental Eng Microbiology Taught course 2016
  • Environmental Eng Microbiology Taught course 2016
  • Environmental Eng Microbiology Taught course 2016
  • Environmental Eng Microbiology Taught course 2016
  • Environmental Eng Microbiology Taught course 2016
  • Environmental Eng Microbiology Taught course 2016
  • Doctoral Research Taught course 2015
  • Doctoral Research Taught course 2015
  • Environmental Eng Microbiology Taught course 2015
  • Environmental Eng Microbiology Taught course 2015
  • Environmental Eng Microbiology Taught course 2015
  • Doctoral Research Taught course 2014
  • Doctoral Research Taught course 2014
  • Education And Training

  • B.S. Soil Science, University of Maine
  • M.S. Soil Science, University of Wisconsin
  • Ph.D. Bacteriology, University of Wisconsin
  • Full Name

  • Stephen Jones