Kelly Maloney is a Research Ecologist at Eastern Ecological Science Center located at Kearneysville, WV.
Dr. Kelly O. Maloney is an ecologist whose research focuses on the effects of anthropogenic activities on the quantity and quality of freshwater resources with a goal to synthesize scientific findings into tools to aid in the monitoring, assessment and management of these precious resources. Dr. Maloney conducts and coordinates a highly diverse range of research to address the informational needs of the DOI, its partners, state agencies and NGOs. Dr. Maloney has centered his research program on two areas: 1) ecological flow requirements of aquatic systems, and 2) effects of anthropogenic activities on aquatic ecosystem structure and function. Within each focal area he conducts research to answer questions at multiple scales, employing a combination of field surveys, statistical analyses, computer simulations and meta-analyses.
Professional Experience
2010-Present - U.S. Geological Survey Eastern Ecological Science Center (previously Leetown Science Center)
post-doctoral at the Illinois Natural History Survey and the Smithsonian Environmental Research Center
post-doctoral at the Smithsonian Environmental Research Center
Education and Certifications
B.S. Environmental Resource Management, 1994,The Pennsylvania State University
M.S. Earth and Environmental Science, 2000, Lehigh University
M.P.S. Discrete and Statistical Science, 2004, Auburn University
Ph.D. Biological Sciences, 2004, Auburn University
Science and Products
Observed monitoring data and predictive modelling help understand ongoing and future vulnerability of Chesapeake Bay watershed stream fish communities to climate and land-use change
Chesapeake Bay Aquatic Habitat Assessments
Assessing the habitat conditions to support freshwater fisheries in the Chesapeake Watershed
Tracking Status and Trends in Seven Key Indicators of River and Stream Condition in the Chesapeake Bay Watershed
Time marches on, but do factors driving instream habitat and biology remain consistent?
Altered flow affects the biological health of streams in the Chesapeake Bay watershed
Projecting stream conditions under future land-use and climate scenarios
Mapping riverine habitats of the Delaware River using bathymetric LiDAR
Assessing stream health and fish habitat in streams of the Chesapeake Bay Watershed
Exploring the potential effects of shale oil and gas development on freshwaters
Warm Freshwater Ecosystems
North American Bird Banding Program Dataset 1960-2023 retrieved 2023-07-12
Data from Assessing the added value of antecedent streamflow alteration in modelling stream condition
“ChesBay 24k – LU": Land Use/Land Cover Related Data Summaries for the Chesapeake Bay Watershed Within NHD Plus HR catchments
“ChesBay 24k – NE": Natural Environment Related Data Summaries for the Chesapeake Bay Watershed Within NHD Plus HR catchments
“ChesBay 24k – CL": Climate Related Data Summaries for the Chesapeake Bay Watershed Within NHD Plus HR catchments
“ChesBay 24k – HU": Human Related Data Summaries for the Chesapeake Bay Watershed Within NHD Plus HR catchments
Model predictions of biological condition for small streams in the Chesapeake Bay Watershed, USA
Attribution of Chessie BIBI and fish sampling data to NHDPlusV2 Catchments within the Chesapeake Bay Watershed
Fish community and species distribution predictions for streams and rivers of the Chesapeake Bay Watershed
North American Bird Banding Program Dataset 1960-2021 retrieved 2021-07-25
Community metrics from inter-agency compilation of inland fish sampling data within the Chesapeake Bay Watershed
North American Bird Banding Program Dataset 1960-2020 retrieved 2020-06-26
Assessing the added value of antecedent streamflow alteration information in modeling stream biological condition
Observed and projected functional reorganization of riverine fish assemblages from global change
Tracking status and trends in seven key indicators of stream health in the Chesapeake Bay watershed
Multispecies approaches to status assessments in support of endangered species classifications
Explainable machine learning improves interpretability in the predictive modeling of biological stream conditions in the Chesapeake Bay Watershed, USA
Using fish community and population indicators to assess the biological condition of streams and rivers of the Chesapeake Bay watershed, USA
Techniques to improve ecological interpretability of black box machine learning models
Time marches on, but do the causal pathways driving instream habitat and biology remain consistent?
Linking altered flow regimes to biological condition: An example using benthic macroinvertebrates in small streams of the Chesapeake Bay watershed
Using expert knowledge to support Endangered Species Act decision‐making for data‐deficient species
A Bayesian framework for assessing extinction risk based on ordinal categories of population condition and projected landscape change
Sediment dynamics and implications for management: State of the science from long‐term research in the Chesapeake Bay watershed, USA
Non-USGS Publications**
**Disclaimer: The views expressed in Non-USGS publications are those of the author and do not represent the views of the USGS, Department of the Interior, or the U.S. Government.
Science and Products
- Science
Observed monitoring data and predictive modelling help understand ongoing and future vulnerability of Chesapeake Bay watershed stream fish communities to climate and land-use change
Issue: The Chesapeake Bay Watershed (CBW) is experiencing effects of climate (warming temperatures and shifting precipitation patterns) and land-use/land-cover (LULC; transition from forest or agriculture to developed lands) change, and these trends are likely to continue under future scenarios of warming and population growth. Stream biodiversity may be vulnerable to ongoing and future climate...Chesapeake Bay Aquatic Habitat Assessments
Eastern Ecological Science Center research ecologists are working with state and local partners to develop multiple biological assessments of non-tidal stream and river conditions in the Chesapeake Bay watershed.Assessing the habitat conditions to support freshwater fisheries in the Chesapeake Watershed
Issue: The Chesapeake Bay Program partners are striving to improve habitat conditions for recreational fisheries and other native fishes in the Bay and its watershed. While national fish habitat assessments have been conducted, resource managers need more local information to focus restoration and protection efforts in Chesapeake Bay watershed. Conducting the fish-habitat assessments are...Tracking Status and Trends in Seven Key Indicators of River and Stream Condition in the Chesapeake Bay Watershed
Identifying and tracking the status of, and trends in, stream health within the Chesapeake Bay watershed is essential to understanding the past, present, and future trajectory of the watershed’s resources and ecological condition. A team of USGS ecosystem scientists is meeting this need with an initiative to track the status of, and trends in, key indicators of the health of non-tidal freshwater...Time marches on, but do factors driving instream habitat and biology remain consistent?
Issue: Stream ecosystems are affected by a complex set of interacting terrestrial and aquatic stressors. With many streams experiencing degraded conditions that often correspond with increased anthropogenic activities, an important outcome of the Chesapeake Bay Program is to improve stream health. The USGS is conducting research to better understand the complex factors affecting stream health...Altered flow affects the biological health of streams in the Chesapeake Bay watershed
Issue: The natural cycle of water flow, known as the flow regime, is one of the primary habitat conditions needed for healthy biological communities in streams. However, human activities have drastically altered the natural flow regime of most of the world’s rivers and streams, including those in the Chesapeake watershed, which has resulted in changes not only to the natural habitat but also...Projecting stream conditions under future land-use and climate scenarios
Issue: Global change, particularly changes in land use and climate, is dramatically altering stream conditions throughout the world. Healthy streams are important for freshwater fisheries, wildlife, and public recreation. The Chesapeake Bay Program (CBP) has a goal of improving the health of streams throughout the Chesapeake Bay watershed, which includes an outcome of improving the condition of 10...Mapping riverine habitats of the Delaware River using bathymetric LiDAR
Ecosystem management and assessment of rivers requires detailed data on bathymetry before estimates of aquatic habitats can be determined. However, mapping bathymetry in shallow rivers is challenging due to river depth limitations for watercraft.Assessing stream health and fish habitat in streams of the Chesapeake Bay Watershed
Streams and rivers provide habitat for a diverse array of aquatic and semi-aquatic species. However, human alteration to landscapes and riverscapes has affected this habitat resulting in its degradation and thus loss of habitat and associated sensitive aquatic species. While this relationship has been known for many years, only recently has the availability of data and analytical capabilities...Exploring the potential effects of shale oil and gas development on freshwaters
Widespread shale oil and gas (unconventional oil and gas, UOG) has only recently begun and many gaps in our knowledge of its potential effects to freshwaters exist.Warm Freshwater Ecosystems
These systems are characterized as 4th order and larger nontidal riverine systems, which includes many of the intermediate and larger size rivers, such as the Penobscot, Connecticut, Hudson, Delaware, and Susquehanna Rivers and their larger tributaries of the northeastern U.S. Fish passage, thermal stress, and ecological flows are likely important issues in these systems. Fish health issues and... - Data
Filter Total Items: 15
North American Bird Banding Program Dataset 1960-2023 retrieved 2023-07-12
The North American Bird Banding Program is administered through the U.S. Geological Survey (USGS) Bird Banding Laboratory (BBL), Eastern Ecological Science Center at the Patuxent Research Refuge (EESC) and the Bird Banding Office (BBO), Environment and Climate Change Canada (ECCC). The respective banding offices have similar functions and policies and use the same bands, reporting forms and data fData from Assessing the added value of antecedent streamflow alteration in modelling stream condition
The dataset contains long-term and short-term summaries of streamflow alteration and measures of biological condition (fish multi-metric index). Streamflow alteration metrics include the magnitude, duration, frequency, and seasonality of high and low flow streamflow. Biological condition was estimated from the National Rivers and Streams Assessment and National Water Quality Assessment fish sampli“ChesBay 24k – LU": Land Use/Land Cover Related Data Summaries for the Chesapeake Bay Watershed Within NHD Plus HR catchments
These tabular data are summaries of land use/land cover related variables within catchments of the Chesapeake Bay watershed using the Xstrm methodology at 1:24,000 scale. Variables being counted as land use/land cover related contain all land use and land cover data including datasets that are split off or combined from those data (eg. agriculture or impervious classes only datasets). Outputs cons“ChesBay 24k – NE": Natural Environment Related Data Summaries for the Chesapeake Bay Watershed Within NHD Plus HR catchments
These tabular data are summaries of natural environment related variables within catchments of the Chesapeake Bay watershed using the Xstrm methodology at 1:24,000 scale. Variables being counted as natural environment related include topography, soils/geology, hydrology/geomorphology, and other physical aspects of surface waters (temperature, flow, etc.). Outputs consist of tabular comma-separated“ChesBay 24k – CL": Climate Related Data Summaries for the Chesapeake Bay Watershed Within NHD Plus HR catchments
These tabular data are summaries of climate related variables within catchments of the Chesapeake Bay watershed using the Xstrm methodology at 1:24,000 scale. Variables being counted as climate related include temperature and precipitation by both annual and monthly values. Outputs consist of tabular comma-separated values files (CSVs) for the local catchment and network summaries linked to the Na“ChesBay 24k – HU": Human Related Data Summaries for the Chesapeake Bay Watershed Within NHD Plus HR catchments
These tabular data are summaries of human related landscape variables within catchments of the Chesapeake Bay watershed using the Xstrm methodology at 1:24,000 scale. Variables being counted as human related include agriculture, barriers, road density and road/stream crossing data. Outputs consist of tabular comma-separated values files (CSVs) for both local catchment and network summaries linkedModel predictions of biological condition for small streams in the Chesapeake Bay Watershed, USA
This data release contains predictions of stream biological condition as defined by the Chesapeake basin-wide index of biotic integrity for stream macroinvertebrates (Chessie BIBI) using Random Forest models with landscape data for small streams (≤ 200 km2 in upstream drainage) across the Chesapeake Bay Watershed (CBW). Predictions were made at eight time periods (2001, 2004, 2006, 2008, 2011, 201Attribution of Chessie BIBI and fish sampling data to NHDPlusV2 Catchments within the Chesapeake Bay Watershed
This data release links fish survey data from a suite of programs in the Chesapeake Bay watershed as well the benthic macroinvertebrate sites included in the Chesapeake Bay Basin-wide Index of Biotic Integrity (Chessie BIBI) developed by the Interstate Commission on the Potomac River Basin (ICPRB) and available from the Chesapeake Bay Program. The data set contains site name, survey program, coordFish community and species distribution predictions for streams and rivers of the Chesapeake Bay Watershed
This data release contains predictions of selected fish community metrics and fish species occurrence using Random Forest models with landscape data for inland reaches across the Chesapeake Bay Watershed (CBW). Predictions were made at four time intervals (2001, 2006, 2011, and 2016) according to changes in landcover using the National Land Cover Database (NLCD). The fish sampling data used to comNorth American Bird Banding Program Dataset 1960-2021 retrieved 2021-07-25
The North American Bird Banding Program is directed in the United States by the U.S. Geological Survey (USGS) Bird Banding Laboratory (BBL), Eastern Ecological Science Center at the Patuxent Research Refuge (EESC) and in Canada by the Bird Banding Office (BBO), Environment and Climate Change Canada (ECCC). The respective banding offices have similar functions and policies and use the same bands, rCommunity metrics from inter-agency compilation of inland fish sampling data within the Chesapeake Bay Watershed
This data release contains calculated metrics which summarize various biodiversity and functional/life history trait information about fish communities sampled across the Chesapeake Bay Watershed as well as ancillary data related to time/place of sampling and sampling methodology. The fish sampling data used to compute these metrics were compiled from various fish sampling programs conducted by stNorth American Bird Banding Program Dataset 1960-2020 retrieved 2020-06-26
The North American Bird Banding Program is directed in the United States by the U.S. Geological Survey (USGS) Bird Banding Laboratory (BBL), Eastern Ecological Science Center at the Patuxent Research Refuge (EESC) and in Canada by the Bird Banding Office (BBO), Environment and Climate Change Canada (ECCC). The respective banding offices have similar functions and policies and use the same bands, r - Multimedia
- Publications
Filter Total Items: 43
Assessing the added value of antecedent streamflow alteration information in modeling stream biological condition
In stream systems, disentangling relationships between biology and flow and subsequent prediction of these relationships to unsampled streams is a common objective of large-scale ecological modeling. Often, streamflow metrics are derived from aggregating continuous streamflow records available at a subset of stream gages into long-term flow regime descriptors. Despite demonstrated value, shortcomiAuthorsTaylor E Woods, Ken Eng, Daren Carlisle, Matt J. Cashman, Michael Meador, Karen R. Ryberg, Kelly O. MaloneyObserved and projected functional reorganization of riverine fish assemblages from global change
Climate and land-use/land-cover change (‘global change’) are restructuring biodiversity, globally. Broadly, environmental conditions are expected to become warmer, potentially drier (particularly in arid regions), and more anthropogenically developed in the future, with spatiotemporally complex effects on ecological communities. We used functional traits to inform Chesapeake Bay Watershed fish resAuthorsTaylor E Woods, Mary Freeman, Kevin P. Krause, Kelly O. MaloneyTracking status and trends in seven key indicators of stream health in the Chesapeake Bay watershed
“The Bay Connects us, the Bay reflects us” writes Tom Horton in the book “Turning the Tide—Saving the Chesapeake Bay”. The Chesapeake Bay watershed contains the largest estuary in the United States. The watershed stretches north to Cooperstown, New York, south to Lynchburg and Virginia Beach, Virginia, west to Pendleton County, West Virginia, and east to Seaford, Delaware, and Scranton, PennsylvanAuthorsSamuel H. Austin, Matt J. Cashman, John Clune, James E. Colgin, Rosemary M. Fanelli, Kevin P. Krause, Emily H. Majcher, Kelly O. Maloney, Chris A. Mason, Doug L. Moyer, Tammy M. ZimmermanByEcosystems Mission Area, Water Resources Mission Area, Environmental Health Program, Chesapeake Bay Activities, Eastern Ecological Science Center, Maryland-Delaware-D.C. Water Science Center, Pennsylvania Water Science Center, South Atlantic Water Science Center (SAWSC), Virginia and West Virginia Water Science CenterMultispecies approaches to status assessments in support of endangered species classifications
Multispecies risk assessments have developed within many international conservation programs, reflecting a widespread need for efficiency. Under the United States Endangered Species Act (ESA), multispecies assessments ultimately lead to species-level listing decisions. Although this approach provides opportunities for improved efficiency, it also risks overwhelming or biasing the assessment procesAuthorsDaniel Bruce Fitzgerald, Mary Freeman, Kelly O. Maloney, John A. Young, Amanda E. Rosenberger, David C. Kazyak, David R. SmithExplainable machine learning improves interpretability in the predictive modeling of biological stream conditions in the Chesapeake Bay Watershed, USA
Anthropogenic alterations have resulted in widespread degradation of stream conditions. To aid in stream restoration and management, baseline estimates of conditions and improved explanation of factors driving their degradation are needed. We used random forests to model biological conditions using a benthic macroinvertebrate index of biotic integrity for small, non-tidal streams (upstream area ≤2AuthorsKelly O. Maloney, Claire Buchanan, Rikke Jepsen, Kevin P. Krause, Matt J. Cashman, Benjamin Paul Gressler, John A. Young, Matthias SchmidUsing fish community and population indicators to assess the biological condition of streams and rivers of the Chesapeake Bay watershed, USA
The development of indicators to assess relative freshwater condition is critical for management and conservation. Predictive modeling can enhance the utility of indicators by providing estimates of condition for unsurveyed locations. Such approaches grant understanding of where “good” and “poor” conditions occur and provide insight into landscape contexts supporting such conditions. However, as aAuthorsKelly O. Maloney, Kevin P. Krause, Matt J. Cashman, Wesley Daniel, Benjamin Paul Gressler, Daniel J. Wieferich, John A. YoungTechniques to improve ecological interpretability of black box machine learning models
Statistical modeling of ecological data is often faced with a large number of variables as well as possible nonlinear relationships and higher-order interaction effects. Gradient boosted trees (GBT) have been successful in addressing these issues and have shown a good predictive performance in modeling nonlinear relationships, in particular in classification settings with a categorical response vaAuthorsThomas Welchowski, Kelly O. Maloney, Richard M. Mitchell, Matthias SchmidTime marches on, but do the causal pathways driving instream habitat and biology remain consistent?
Stream ecosystems are complex networks of interacting terrestrial and aquatic drivers. To untangle these ecological networks, efforts evaluating the direct and indirect effects of landscape, climate, and instream predictors on biological condition through time are needed. We used structural equation modeling and leveraged a stream survey program to identify and compare important predictors drivingAuthorsRichard H Walker, Matthew J. Ashton, Matt J. Cashman, Rosemary M. Fanelli, Kevin P. Krause, Gregory B. Noe, Kelly O. MaloneyLinking altered flow regimes to biological condition: An example using benthic macroinvertebrates in small streams of the Chesapeake Bay watershed
Regionally scaled assessments of hydrologic alteration for small streams and its effects on freshwater taxa are often inhibited by a low number of stream gages. To overcome this limitation, we paired modeled estimates of hydrologic alteration to a benthic macroinvertebrate index of biotic integrity data for 4522 stream reaches across the Chesapeake Bay watershed. Using separate random-forest modelAuthorsKelly O. Maloney, Daren Carlisle, Claire Buchanan, Jennifer L. Rapp, Samuel H. Austin, Matt J. Cashman, John A. YoungUsing expert knowledge to support Endangered Species Act decision‐making for data‐deficient species
Many questions relevant to conservation decision making are characterized by extreme uncertainty due to lack of empirical data and complexity of the underlying ecological processes, leading to a rapid increase in the use of structured protocols to elicit expert knowledge. Published ecological applications often employ a modified Delphi method, where experts provide judgments anonymously and mathemAuthorsDaniel Bruce Fitzgerald, David R. Smith, David C. Culver, Daniel Feller, Daniel W. Fong, Jeff Hajenga, Matthew L. Niemiller, Daniel C. Nolfi, Wil D. Orndorff, Barbara Douglas, Kelly O. Maloney, John A. YoungA Bayesian framework for assessing extinction risk based on ordinal categories of population condition and projected landscape change
Many at-risk species lack standardized surveys across their range or quantitative data capable of detecting demographic trends. As a result, extinction risk assessments often rely on ordinal categories of risk based on explicit criteria or expert elicitation. This study demonstrates a Bayesian approach to assessing extinction risk based on this common data structure, using three freshwater musselAuthorsDaniel Bruce Fitzgerald, Andrew R Henderson, Kelly O. Maloney, Mary Freeman, John A. Young, Amanda E. Rosenberger, David C. Kazyak, David R. SmithSediment dynamics and implications for management: State of the science from long‐term research in the Chesapeake Bay watershed, USA
This review aims to synthesize the current knowledge of sediment dynamics using insights from long‐term research conducted in the watershed draining to the Chesapeake Bay, the largest estuary in the U.S., to inform management actions to restore the estuary and its watershed. The sediment dynamics of the Chesapeake are typical of many impaired watersheds and estuaries around the world, and this synAuthorsGregory B. Noe, Matt J. Cashman, Katherine Skalak, Allen Gellis, Kristina G. Hopkins, Doug L. Moyer, James S. Webber, Adam Benthem, Kelly O. Maloney, John Brakebill, Andrew Sekellick, Michael J. Langland, Qian Zhang, Gary W. Shenk, Jennifer L. D. Keisman, Cliff R. HuppNon-USGS Publications**
Dale, V. H., P. J. Mulholland, L. M. Olsen, J. W. Feminella, K. O. Maloney, D. C. White, A. Peacock, and T. Foster. 2004. Selecting a suite of ecological indicators for resource management. L. A. Kapustka, H. Gilbraith, M. Luxon, and G. R. Biddinger (editors). Landscape ecology and wildlife habitat evaluation: critical information for ecological risk assessment, land-use, management activities and biodiversity enhancement practices. American Society for Testing and Materials STP 1458. ASTM International, West Conshohocken, PA.Maloney, K.O. and D.E. Weller. 2011. Anthropogenic disturbance and streams: land use and land-use change affect stream ecosystems via multiple pathways. Freshwater Biology 56: 611-626. https://onlinelibrary.wiley.com/doi/pdf/10.1111/j.1365-2427.2010.02522.x**Disclaimer: The views expressed in Non-USGS publications are those of the author and do not represent the views of the USGS, Department of the Interior, or the U.S. Government.