John Clune


Current Research

Currently the principal investigator in Pennsylvania for the Bradford and Clinton County Groundwater Baseline Studies, Glaciated Regional Curves and Fishing Creek Nutrient Study.  Co-authoring a National Water-Quality Assessment (NAWQA) Program Circular to describe past/future changes in Nitrogen in the Chesapeake Bay from 1960-2060.  Investigating the Sediment Response of Stream Restoration Practices in Turtle Creek, Union County, PA.  Provided research in Maryland/Delaware for the NAWQA Program, USGS Priority Ecosystems, Chesapeake Bay Presidential Executive Order Small Watershed Studies, Bucks Branch Conservation Effectiveness, Principal Aquifer Assessment (PAA), Conservation Effects Assessment Project (CEAP) and Lake Linganore Sediment and Phosphorus Study.  Provided research previously in Pennsylvania for the EPA Nitrogen Source Tracking, Mid-Atlantic Nutrient Criteria, Pennsylvania Pesticides and Ground Water Strategy (PPGWS), Emerging Contaminants and Fish Health in PA Waters, Susquehanna River Small Mouth Bass Mortality and Schuylkill River Acid Mine Drainage Study.

Other Related Experience
Adjunct professor for stream ecology at York College, PA. Provided research for the National Park Service (Grand Teton), US Army Corps of Engineers, University of Pittsburgh, Queens University Belfast, UTC Pratt and Whitney and Lackawanna Conservation District.


B.S. Civil Engineering, 2000, University of Pittsburgh

M.S. Biology, 2008, East Stroudsburg University

Ph.D Forestry (Hydrology), currently pursuing, Penn State University

* Dissertation: Quantifying Nutrient Conditions in Streams and Rivers of Pennsylvania: Toward Development of Water Quality Criteria


Clune, J.W., and Cravotta, C.A., III, (currently in review), Groundwater Quality in Relation to Drinking Water Health Standards and Hydrogeologic and Geochemical Characteristics for 54 Domestic Wells in Clinton County, Pennsylvania, 2017: U.S. Geological Survey Scientific Investigations Report.

Clune, J.W., and Cravotta, C.A., III, 2019, Drinking water health standards comparison and chemical analysis of groundwater for 72 domestic wells in Bradford County, Pennsylvania, 2016: U.S. Geological Survey Scientific Investigations Report 2018–5170, 66 p.,

Clune, J.W., Chaplin, J.J., and White, K.E., 2018, Comparison of regression relations of bankfull discharge and channel geometry for the glaciated and nonglaciated settings of Pennsylvania and southern New York: U.S. Geological Survey Scientific Investigations Report 2018–5066, 20 p.,

Hyer, K.E., Denver, J.M., Langland, M.J., Webber, J.S., Böhlke, J.K., Hively, W.D., and Clune, J.W., 2016, Spatial and temporal variation of stream chemistry associated with contrasting geology and land-use patterns in the Chesapeake Bay watershed—Summary of results from Smith Creek, Virginia; Upper Chester River, Maryland; Conewago Creek, Pennsylvania; and Difficult Run, Virginia, 2010–2013: U.S. Geological Survey Scientific Investigations Report 2016–5093, 211 p. {Link}

Gellis, A.C., Noe, G.B., Clune, J.W., Myers, M.K., Hupp, C.R., Shenk, E.R., and Sshwarz, G.E., 2015, Sources of Fine-Grained Sediment in Linganore Creek watershed, Frederick and Carroll Counties, Maryland: 2008 to 2011: U.S. Geological Survey Scientific Investigations Report 2014-5147. [Link]

Denver, J.M., Ator, S.A., Lang, M.W., Fisher, T.R., Gustafson, A.B., Fox, R., Clune, J.W. and McCarty, G.W., 2014, Nitrogen fate and transport through palustrine depressional wetlands along an alteration gradient in an agricultural landscape, Upper Choptank Watershed, Maryland: Journal of Soil and Water Conservation vol. 69, p 1-16. [Link]

Clune, J.W., and Denver, J.M. 2012. Residence Time, Chemical and Isotopic Analysis of Nitrate in the Groundwater and Surface Water of a Small Agricultural Watershed in the Coastal Plain, Bucks Branch, Sussex County, Delaware: U.S. Geological Survey Scientific Investigations Report 2012-08, 18 p. [Link]

Clune, J.W., Gellis, A.C., and McKee, L.G. 2010. Agricultural Soil Erosion Rates for the Linganore Creek Watershed in the Piedmont Physiographic Province of the Chesapeake Bay Watershed: 2nd Joint Federal Interagency Proceedings, Las Vegas, NV, June 27 – July 1, 2010. [Link]

Loper, C.A., Breen, K.J., Zimmerman, T.M., and Clune, J.W. 2009. Pesticides in ground water in selected agricultural land-use areas and hydrogeologic settings in Pennsylvania, 2003–07: U.S. Geological Survey Scientific Investigations Report 2009–5139, 121 p. [Link]

Charles, D.F., Crawford, J.K., Beaman, J.R., Clune, J.W., Zalack, Nutrient Criteria for Mid‐Atlantic Streams ‐ A Response Based Approach: JAWRA. (In Review)

Clune, J.W. 2008. Nutrient Supply Rates Relationships for Primary Production of Shallow Streams in the Mid-Atlantic States. Master's Thesis, East Stroudsburg University, East Stroudsburg, PA.