A. Herlihy

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A Synoptic Survey of Nitrogen and Phosphorus in Tributary Streams and Great Rivers of the Upper Mississippi, Missouri, and Ohio River Basins

B. Hill, D. Bolgrien, A. Herlihy, 2011 .

Acidic Lakes and Streams in the United States: The Role of Acidic Deposition

A. Herlihy, J. Eilers, L. Baker, 1991, Science.

Performance-based environmental index weights: Are all metrics created equal?

Alan T. Herlihy, A. Herlihy, Moriah J. Bellenger, 2010 .

An economic approach to environmental indices

Alan T. Herlihy, A. Herlihy, Moriah J. Bellenger, 2009 .

Condition of stream ecosystems in the US: an overview of the first national assessment

Lester L. Yuan, J. Stoddard, A. Herlihy, 2008, Journal of the North American Benthological Society.

Assessing the extent and relative risk of aquatic stressors on stream macroinvertebrate assemblages in the neotropical savanna.

R. Hughes, A. Herlihy, M. Callisto, 2018, The Science of the total environment.

Isomorphic chain graphs for modeling spatial dependence in ecological data

A. Herlihy, A. Gitelman, 2007, Environmental and Ecological Statistics.

Algae–P relationships, thresholds, and frequency distributions guide nutrient criterion development

Lester L. Yuan, Susan B. Norton, Alan T. Herlihy, 2008, Journal of the North American Benthological Society.

Comparative application of indices of biotic integrity based on periphyton, macroinvertebrates, and fish to southern Rocky Mountain streams

Michael B. Griffith, Anthony R. Selle, Alan T. Herlihy, 2005 .

Valuing tradeoffs between agricultural production and wetland condition in the U.S. Mid-Atlantic region

A. Herlihy, M. Bostian, 2014 .

MULTIVARIATE ANALYSIS OF PERIPHYTON ASSEMBLAGES IN RELATION TO ENVIRONMENTAL GRADIENTS IN COLORADO ROCKY MOUNTAIN STREAMS 1

B. Hill, A. Herlihy, P. Kaufmann, 2002 .

Factors controlling the removal of sulfate and acidity from the waters of an acidified lake

A. Herlihy, A. Mills, 1989, Water, Air, and Soil Pollution.

Indicators of Ecological Stress and Their Extent in the Population of Northeastern Lakes: A Regional-Scale Assessment

S. A. Peterson, A. Herlihy, P. Kaufmann, 2002 .

Establishment of anaerobic, reducing conditions in lake sediment after deposition of acidic, aerobic sediment by a major storm

A. Herlihy, A. Mills, P. Bell, 1990 .

Assessing the relative and attributable risk of stressors to wetland condition across the conterminous United States

Mary E. Kentula, A. Herlihy, S. Paulsen, 2019, Environmental Monitoring and Assessment.

Large-scale macroinvertebrate assemblage patterns from least-disturbed wadeable stream sites across the 48 contiguous US states

A. Herlihy, J. Sifneos, W. Gerth, 2013 .

Characterizing nonnative plants in wetlands across the conterminous United States

A. Herlihy, K. Blocksom, A. Nahlik, 2019, Environmental Monitoring and Assessment.

Ion-chromatographic analysis of mixtures of ferrous and ferric iron.

A. Herlihy, A. Mills, J. Herman, 1988, Talanta.

Distribution of reduced inorganic sulfur compounds in lake sediments receiving acid mine drainage

A. Herlihy, A. Mills, J. Herman, 1988 .

Electrofishing Effort Requirements for Assessing Species Richness and Biotic Integrity in Western Oregon Streams

Stanley V. Gregory, Robert M. Hughes, Alan T. Herlihy, 2003 .

Electrofishing Distance Needed to Estimate Consistent Index of Biotic Integrity (IBI) Scores in Raftable Oregon Rivers

R. Hughes, A. Herlihy, 2007 .

A process for creating multimetric indices for large-scale aquatic surveys

Robert M. Hughes, John L. Stoddard, Alan T. Herlihy, 2008, Journal of the North American Benthological Society.

Genus-level, trait-based multimetric diatom indices for assessing the ecological condition of rivers and streams across the conterminous United States

J. Stoddard, A. Herlihy, P. Kaufmann, 2022, Ecological indicators.

Calibration of the Delaware Rapid Assessment Protocol to a Comprehensive Measure of Wetland Condition

A. Herlihy, M. Kentula, J. Sifneos, 2010, Wetlands.

Development of an Index of Biotic Integrity for the Mid-Atlantic Highlands Region

Robert M. Hughes, John L. Stoddard, Alan T. Herlihy, 2001 .

Summer Distribution and Species Richness of Non-native Fishes in the Mainstem Willamette River, Oregon, 1944–2006

R. Hughes, A. Herlihy, S. Gregory, 2008 .

Bioassessments to Detect Changes in Pacific Northwest River Fish Assemblages: A Malheur River Case Study

R. Hughes, A. Herlihy, Henry R. Lavigne, 2008 .

Quantifying the extent of human disturbance activities and anthropogenic stressors in wetlands across the conterminous United States: results from the National Wetland Condition Assessment

A. Herlihy, P. Kaufmann, G. Lomnicky, 2019, Environmental Monitoring and Assessment.

A calcium‐based invasion risk assessment for zebra and quagga mussels (Dreissena spp)

Suzanne M. Pierson, A. Herlihy, T. R. Whittier, 2008 .

Climatic forcing on zooplankton richness in lakes of the northeastern United States

A. Herlihy, S. Paulsen, D. Kugler, 1996 .

Modeling fate and transport of sulfate and alkalinity in an acidified lake

A. Herlihy, A. Mills, W. Lung, 1988 .

The importance of sediment sulfate reduction to the sulfate budget of an impoundment receiving acid mine drainage

G. Hornberger, A. Herlihy, A. Mills, 1987 .

Patterns in Catch Per Unit Effort of Native Prey Fish and Alien Piscivorous Fish in 7 Pacific Northwest USA Rivers

R. Hughes, A. Herlihy, 2012 .

The pH regime sediments underlying acidified waters

A. Herlihy, A. Mills, 1986 .

Microbial ecology and acidic pollution of impoundments

A. Herlihy, A. Mills, 1985 .

Level and extent of mercury contamination in Oregon, USA, lotic fish

S. A. Peterson, R. Hughes, A. Herlihy, 2002, Environmental toxicology and chemistry.

Sulfate Reduction inFreshwater Sediments Receiving AcidMine Drainage

A. Herlihy, A. Mills, 1985 .

Seasonal and spatial fluctuations in Oncorhynchus trout diet in a temperate mixed-forest watershed

A. Herlihy, Judith L. Li, D. Bateman, 2016 .

Seasonal and spatial fluctuations in Oncorhynchus trout diet in a temperate mixed-forest watershed 1

A. Herlihy, Judith L. Li, D. Bateman, 2016 .

Use of national-scale data to examine human-mediated additions of heavy metals to wetland soils of the US

Mary E. Kentula, A. Herlihy, S. Paulsen, 2019, Environmental Monitoring and Assessment.

Contamination of fish in streams of the Mid‐Atlantic Region: An approach to regional indicator selection and wildlife assessment

Tala R Henry, A. Herlihy, J. Lazorchak, 2003, Environmental toxicology and chemistry.

Sources of acidity in lakes and streams of the United States.

A. Herlihy, L. Baker, P. Kaufmann, 1992, Environmental pollution.

The Relation of Lotic Fish and Benthic Macroinvertebrate Condition Indices to Environmental Factors Across the Conterminous USA.

R. Hughes, A. Herlihy, D. V. Peck, 2020, Ecological indicators.

Striving for consistency in a national assessment: the challenges of applying a reference-condition approach at a continental scale

Lester L. Yuan, John Van Sickle, Steven G. Paulsen, 2008, Journal of the North American Benthological Society.

Effects of Grass Seed Agriculture on Aquatic Invertebrate Communities Inhabiting Seasonal Wetlands of the Southern Willamette Valley, Oregon

A. Herlihy, Judith L. Li, B. Dugger, 2013, Wetlands.

Influence of clearcut logging, flow duration, and season on emergent aquatic insects in headwater streams of the Central Oregon Coast Range

A. Herlihy, Judith L. Li, J. Banks, 2007, Journal of the North American Benthological Society.

Effect of sampling different habitat types in regional macroinvertebrate bioassessment surveys

Alan T. Herlihy, A. Herlihy, William J. Gerth, 2006, Journal of the North American Benthological Society.

Electrofishing Distance Needed to Estimate Fish Species Richness in Raftable Oregon Rivers

Robert M. Hughes, Alan T. Herlihy, R. Hughes, 2002 .

A process for developing and evaluating indices of fish assemblage integrity

R. Hughes, A. Herlihy, P. Kaufmann, 1998 .

Variability in stream macroinvertebrates at multiple spatial scales

David P. Larsen, Stanley V. Gregory, Alan T. Herlihy, 2001 .

SPATIAL PATTERNS AND ECOLOGICAL DETERMINANTS OF BENTHIC ALGAL ASSEMBLAGES IN MID‐ATLANTIC STREAMS, USA

B. Hill, A. Herlihy, P. Kaufmann, 1999 .

Regional estimates of acid mine drainage impact on streams in the mid-atlantic and Southeastern United States

A. Herlihy, P. Kaufmann, M. E. Mitch, 1990 .

The relative influence of geographic location and reach-scale habitat on benthic invertebrate assemblages in six ecoregions

A. Herlihy, I. Waite, M. Munn, 2009, Environmental monitoring and assessment.

Sulfate Reduction in Freshwater Sediments Receiving Acid Mine Drainage

A. Herlihy, A. Mills, 1985, Applied and environmental microbiology.

Methods Development and use of Macroinvertebrates as Indicators of Ecological Conditions for Streams in the Mid-Atlantic Highlands Region

Susan M. Cormier, Alan T. Herlihy, A. Herlihy, 2002, Environmental monitoring and assessment.

A Complete Fisheries Inventory of the Chulitna River Basin, Lake Clark National Park and Preserve, Alaska: Example of a Minimally Disturbed Basin

R. Hughes, A. Herlihy, G. Boxall, 2020 .

Estimating vertebrate, benthic macroinvertebrate, and diatom taxa richness in raftable Pacific Northwest rivers for bioassessment purposes

R. Hughes, A. Herlihy, W. Gerth, 2012, Environmental Monitoring and Assessment.

Rivers and Streams: Upgrading Monitoring of the Nation’s Freshwater Resources - Meeting the Spirit of the Clean Water Act

A. Herlihy, P. Kaufmann, S. Paulsen, 2020, Water Quality - Science, Assessments and Policy.

Acid-base characteristics of soils in the Adirondack Mountains, New York

T. Sullivan, A. Herlihy, C. Driscoll, 2006 .

An improved macroinvertebrate multimetric index for the assessment of wadeable streams in the neotropical savanna

R. Hughes, A. Herlihy, M. Callisto, 2017 .

Continental-Scale Increase in Lake and Stream Phosphorus: Are Oligotrophic Systems Disappearing in the United States?

A. Pollard, J. Stoddard, A. Herlihy, 2016, Environmental science & technology.

Regional Susceptibility of Northeast Lakes to Zebra Mussel Invasion

Suzanne M. Pierson, A. Herlihy, T. R. Whittier, 1995 .

Regionalization of disturbance‐induced nitrogen leakage from mid‐Appalachian forests using a linear systems model

A. Herlihy, J. R. Webb, K. N. Eshleman, 2001 .

Linkages among land-use, water quality, physical habitat conditions and lotic diatom assemblages: A multi-spatial scale assessment

A. Herlihy, P. Kaufmann, J. V. Van Sickle, 2004, Hydrobiologia.

National framework for ranking lakes by potential for anthropogenic hydro-alteration.

A. Pollard, A. Herlihy, P. Kaufmann, 2021, Ecological indicators.

USA-scale patterns in wetland water quality as determined from the 2011 National Wetland Condition Assessment

A. Herlihy, J. Nestlerode, Anett S. Trebitz, 2019, Environmental Monitoring and Assessment.

A synoptic survey of microbial respiration, organic matter decomposition, and carbon efflux in U.S. streams and rivers

B. Hill, A. Herlihy, T. Jicha, 2017, Limnology and oceanography.

Selecting reference sites for stream biological assessments: best professional judgment or objective criteria

J. Stoddard, A. Herlihy, T. R. Whittier, 2007, Journal of the North American Benthological Society.

A null model for the expected macroinvertebrate assemblage in streams

David P. Larsen, Charles P. Hawkins, Alan T. Herlihy, 2005, Journal of the North American Benthological Society.

Longitudinal patterns in riverine ecology within and among seven Pacific Northwest rivers: Implications for river research, monitoring and management

R. Hughes, A. Herlihy, W. Gerth, 2021, River Research and Applications.

Striving for consistency in the National Wetland Condition Assessment: developing a reference condition approach for assessing wetlands at a continental scale

Mary E. Kentula, A. Herlihy, A. Nahlik, 2019, Environmental Monitoring & Assessment.

Predicting aquatic vertebrate assemblages from environmental variables at three multistate geographic extents of the western USA

R. Hughes, A. Herlihy, J. Sifneos, 2015 .

Effects of Grass Seed Agriculture on Aquatic Invertebrate Communities Inhabiting Seasonal Wetlands of the Southern Willamette Valley, Oregon

A. Herlihy, Judith L. Li, B. Dugger, 2013, Wetlands.

Electrofishing Effort Required to Estimate Biotic Condition in Southern Idaho Rivers

A. Herlihy, T. R. Maret, D. S. Ott, 2007 .

Sampling Efforts for Estimating Fish Species Richness in Western USA River Sites.

R. Hughes, A. Herlihy, D. V. Peck, 2021, Limnologica.

Ecological effects of nitrogen and sulfur air pollution in the US: what do we know?

J. Lynch, T. Sullivan, B. Cosby, 2012 .

Development of diatom indicators of ecological conditions for streams of the western US

A. Herlihy, K. Manoylov, R. Stevenson, 2008, Journal of the North American Benthological Society.

Frontiers inEcology and the Environment Ecological effects of nitrogen and sulfur air pollution in the US : what do we know ?

J. Lynch, T. Sullivan, B. Cosby, 2012 .

Ecological effects ofnitrogen and sulfur air pollution in the US : what do we know ?

T. Sullivan, A. Herlihy, C. Goodale, 2012 .

A Structured Approach for Developing Indices of Biotic Integrity: Three Examples from Streams and Rivers in the Western USA

Robert M. Hughes, John L. Stoddard, Alan T. Herlihy, 2007 .

The effects of acidic deposition on streams in the Appalachian Mountain and Piedmont Region of the Mid‐Atlantic United States

A. Herlihy, J. R. Webb, P. Kaufmann, 1993 .

Target loads of atmospheric sulfur and nitrogen deposition for protection of acid sensitive aquatic resources in the Adirondack Mountains, New York

B. Cosby, A. Herlihy, C. Driscoll, 2012 .

Assessment of streams of the eastern United States using a periphyton index of biotic integrity

Alan T. Herlihy, B. Hill, A. Herlihy, 2003 .

Effects of Disturbance on Nitrogen Export from Forested Lands of the Chesapeake Bay Watershed

R. Gardner, A. Herlihy, J. Galloway, 2000 .

Microbial ecoenzyme stoichiometry, nutrient limitation, and organic matter decomposition in wetlands of the conterminous United States

B. Hill, A. Herlihy, T. Jicha, 2018, Wetlands Ecology and Management.

Benthic microbial respiration in Appalachian Mountain, Piedmont, and Coastal Plains streams of the eastern U.S.A.

B. Hill, A. Herlihy, P. Kaufmann, 2002 .

Interregional comparisons of sediment microbial respiration in streams

B. Hill, A. Herlihy, R. Hall, 2000 .

Using Diatoms as Indicators of Ecological Conditions in Lotic Systems: A Regional Assessment

Alan T. Herlihy, R. Jan Stevenson, B. Hill, 1996, Journal of the North American Benthological Society.

Developing nutrient criteria and classification schemes for wadeable streams in the conterminous US

A. Herlihy, J. Sifneos, 2008, Journal of the North American Benthological Society.

Relationships among exceedences of metals criteria, the results of ambient bioassays, and community metrics in mining‐impacted streams

A. Herlihy, J. Lazorchak, M. B. Griffith, 2004, Environmental toxicology and chemistry.

Use of periphyton assemblage data as an index of biotic integrity

R. J. Stevenson, Alan T. Herlihy, B. Hill, 2000, Journal of the North American Benthological Society.

Concordance of taxonomic richness patterns across multiple assemblages in lakes of the northeastern United States

R. O’Connor, R. Hughes, A. Herlihy, 1999 .

Comparison of correlations between environmental characteristics and stream diatom assemblages characterized at genus and species levels

B. Hill, A. Herlihy, P. Kaufmann, 2001, Journal of the North American Benthological Society.

Lake Water Levels and Associated Hydrologic Characteristics in the Conterminous U.S.

A. Pollard, A. Herlihy, P. Kaufmann, 2020, Journal of the American Water Resources Association.

Comparing strengths of geographic and nongeographic classifications of stream benthic macroinvertebrates in the Mid-Atlantic Highlands, USA

David P. Larsen, Alan T. Herlihy, A. Herlihy, 2000, Journal of the North American Benthological Society.

Context is Everything: Interacting Inputs and Landscape Characteristics Control Stream Nitrogen.

J. Stoddard, A. Herlihy, S. Paulsen, 2021, Environmental science & technology.

Mercury concentration in fish from streams and rivers throughout the western United States.

S. A. Peterson, R. Hughes, A. Herlihy, 2007, Environmental science & technology.

The Relationship Between Stream Chemistry and Watershed Land Cover Data in the Mid-Atlantic Region, U.S.

John L. Stoddard, Alan T. Herlihy, J. Stoddard, 1998 .

An Evaluation of Qualitative Indexes of Physical Habitat Applied to Agricultural Streams in Ten U.S. States 1

Robert M. Hughes, Alan T. Herlihy, R. Hughes, 2010 .

Influence of Rare Species on Electrofishing Distance When Estimating Species Richness of Stream and River Reaches

R. Hughes, A. Herlihy, J. Vokoun, 2009 .

The effects of macroinvertebrate taxonomic resolution in large landscape bioassessments: an example from the Mid-Atlantic Highlands, U.S.A.

N. S. Urquhart, David P. Larsen, N. Scott Urquhart, 2004 .

Stream chemistry in the eastern United States. 2. Current sources of acidity in acidic and low acid-neutralizing capacity streams

A. Herlihy, P. Kaufmann, M. E. Mitch, 1991 .

Stream chemistry in the eastern United States: 1. Synoptic survey design, acid‐base status, and regional patterns

A. Herlihy, P. Kaufmann, W. Overton, 1991 .

PROJECTING THE BIOLOGICAL CONDITION OF STREAMS UNDER ALTERNATIVE SCENARIOS OF HUMAN LAND USE

John Van Sickle, Peter B. Bayley, Stanley V. Gregory, 2004 .

Ecoregions and benthic diatom assemblages in Mid-Atlantic Highlands streams, USA

B. Hill, A. Herlihy, R. Stevenson, 2000, Journal of the North American Benthological Society.

Downstream variation in bankfull width of wadeable streams across the conterminous United States

Alan T. Herlihy, A. Herlihy, P. Kaufmann, 2009 .

Concordance of taxonomic composition patterns across multiple lake assemblages: effects of scale, body size, and land use

R. O’Connor, R. Hughes, A. Herlihy, 1999 .

Acidification and Prognosis for Future Recovery of Acid-Sensitive Streams in the Southern Blue Ridge Province

Timothy J. Sullivan, William A. Jackson, Bernard J. Cosby, 2011 .

An a priori process for selecting candidate reference lakes for a national survey

A. Herlihy, T. Sullivan, Ellen Tarquinio, 2013, Freshwater Science.

Using multiple approaches to develop nutrient criteria for lakes in the conterminous USA

A. Herlihy, D. Charles, R. Stevenson, 2013, Freshwater Science.

Comment on Bachmann et al. (2013): A nonrepresentative sample cannot describe the extent of cultural eutrophication of natural lakes in the United States

N. Lottig, A. Pollard, J. Stoddard, 2014 .

A Regional Climate Change Assessment Program for North America

A. Herlihy, P. Kaufmann, J. M. Faustini, 2009 .

Patterns in and predictors of stream and river macroinvertebrate genera and fish species richness across the conterminous USA.

R. Hughes, A. Herlihy, S. Paulsen, 2023, Knowledge and management of aquatic ecosystems.

Development and Evaluation of a Macroinvertebrate Biotic Integrity Index (MBII) for Regionally Assessing Mid-Atlantic Highlands Streams

J. Stoddard, R. Hughes, A. Herlihy, 2003, Environmental management.

The response of wetland quality indicators to human disturbance indicators across the United States

Mary E. Kentula, A. Herlihy, Anett S. Trebitz, 2019, Environmental Monitoring and Assessment.

Anthropogenically driven changes in chloride complicate interpretation of base cation trends in lakes recovering from acidic deposition.

K. Webster, A. Herlihy, S. Norton, 2007, Environmental science & technology.

Have U.S. surface waters responded to the 1990 Clean Air Act amendments?

N. S. Urquhart, K. Roy, J. Stoddard, 2004, Environmental science & technology.

Regional model projections of future effects of sulfur and nitrogen deposition on streams in the southern Appalachian Mountains

Timothy J. Sullivan, Bernard J. Cosby, James R. Webb, 2004 .

Comparing Drivers of Spatial Variability in U.S. Lake and Stream Phosphorus Concentrations

James N. Carleton, J. Stoddard, A. Herlihy, 2023, Journal of geophysical research. Biogeosciences.

The Dilemma of Sampling Streams for Macroinvertebrate Richness

A. Herlihy, D. P. Larsen, 1998, Journal of the North American Benthological Society.

Designing a Spatially Balanced, Randomized Site Selection Process for Regional Stream Surveys: The EMAP Mid-Atlantic Pilot Study

Steven G. Paulsen, N. S. Urquhart, David P. Larsen, 2000 .

Disentangling natural and anthropogenic effects on benthic macroinvertebrate assemblages in western US streams

A. Herlihy, P. Kaufmann, C. Fergus, 2023, Ecosphere.

Continental-Scale Increase in Lake and Stream Phosphorus: Are Oligotrophic Systems Disappearing in the United States?

A. Pollard, J. Stoddard, A. Herlihy, 2016, Environmental Science and Technology.

Joint species distribution models reveal taxon-specific sensitivities to potential anthropogenic alteration

J. Stoddard, A. Herlihy, P. Kaufmann, 2023, Freshwater Science.

Jewels across the Landscape: Monitoring and Assessing the Quality of Lakes and Reservoirs in the United States

A. Herlihy, P. Kaufmann, S. Paulsen, 2020 .

Spatial Distribution of Acid-sensitive and Acid-impacted Streams in Relation to Watershed Features in the Southern Appalachian Mountains

T. J. Sullivan, T. Sullivan, B. Cosby, 2007 .

Non-wadeable river bioassessment: spatial variation of benthic diatom assemblages in Pacific Northwest rivers, USA

R. Hughes, A. Herlihy, P. Kaufmann, 2012, Hydrobiologia.

Target loads of atmospheric sulfur deposition protect terrestrial resources in the Adirondack Mountains, New York against biological impacts caused by soil acidification

T. Sullivan, B. Cosby, A. Herlihy, 2011 .

An assessment of the condition of flowing waters in predominantly urban areas of the conterminous U.S. and its relationship to measures of environmental justice

Donald J. Benkendorf, A. Herlihy, Kerry L. Kuntz, 2023, Urban Ecosystems.

Fish Tissue Mercury in Lakes and the Moderating Effects of Selenium

A. Herlihy, Robert M. Hughes, Spencer A. Peterson (Retired), 2024, Fisheries.

Towards a National Evaluation of Compensatory Mitigation Sites: A Proposed Study Methodology

John J. Mack, Mary E. Kentula, Eric D. Stein, 2013 .

Wetland water quality patterns and anthropogenic pressure associations across the continental USA

A. Herlihy, Anett S. Trebitz, 2023, Wetlands.

Microbial ecoenzyme stoichiometry, nutrient limitation, and organic matter decomposition in wetlands of the conterminous United States

B. Hill, A. Herlihy, T. Jicha, 2017, Wetlands Ecology and Management.