Jim is a Research Ecologist at the Eastern Ecological Science Center at the Patuxent Research Refuge in Laurel, MD.
Jim joined USGS as a Research Ecologist at the Patuxent Wildlife Research Center in 2016. Prior to joining USGS, he was a Wildlife Biologist with the U.S. Fish and Wildlife Service Division of Migratory Bird Management, also located at the Patuxent Research Refuge, from 2006–2016. He received a BS from University of Vermont and MS from Clemson University, both in Wildlife Biology, and a Ph.D. from Virginia Tech in Biology. His research interests include ecology and conservation of migratory birds and applications of decision analysis for natural resource management.
Professional Experience
2020-present, Research Ecologist, USGS Eastern Ecological Science Center at the Patuxent Research Refuge
2016-2020, Research Ecologist, USGS Patuxent Wildlife Research Center
2006-2016, Wildlife Biologist, USFWS Division of Migratory Bird Management at the Patuxent Research Refuge
2004-2006, Postdoctoral Research Associate, USGS Patuxent Wildlife Research Center
2002-2004, Lecturer, Department of Wildlife, Humboldt State University
2001-2002, Postdoctoral Research Associate, North Carolina State University
Education and Certifications
Ph.D. Biology, Virginia Polytechnic Institute and State University (2001)
M.S. Aquaculture, Fisheries, and Wildlife Biology, Clemson University (1994)
B.S. Wildlife and Fisheries Biology, University of Vermont (1986)
Affiliations and Memberships*
American Ornithological Society
Association of Field Ornithologists
Ecological Society of America
International Wader Study Group
Waterbird Society
The Wildlife Society
Wilson Ornithological Society
Honors and Awards
STAR Award, U.S. Fish and Wildlife Service. For work on the Adaptive Management Consultancy for Prescribed Fire at Blackwater National Wildlife Refuge (2008)
Rachel Carson Award for Scientific Excellence, U.S. Fish and Wildlife Service, Group Category, Awarded to the Branch of Population and Habitat Assessment (2009)
STAR Award, U.S. Fish and Wildlife Service. For work to develop a Strategic Plan to Monitor the Eastern Migratory Population of Whooping Cranes for the Whooping Crane Eastern Partnership (2009)
STAR Award, U.S. Fish and Wildlife Service. For work on Adaptive Monitoring of Salt Marsh Surface Elevation Dynamics and Prescribed Fire at Blackwater NWR(2014)
Elective Member, American Ornithologists’ Union (2014)
2018-2019 Top Downloaded Paper, Restoration Ecology
Honor Award for Conservation Partners, U.S. Fish and Wildlife Service Southeast Regional Director. “Gulf of Mexico Avian Monitoring Network” (2021)
Decision Analysis Society, Practice Award Finalist, Adaptive Management of Horseshoe Crab Harvest and Red Knot Conservation in the Delaware Bay
Science and Products
Population Ecology of Red Knots (C. c. roselaari) in the Pacific-Americas Flyway
Red Knot Migration and Population Ecology
Use of Structured Decision Making to Optimize Salt Marsh Management Decisions at Northeastern National Wildlife Refuges
Adaptive Management of Black Rails
Informing Management of Waterfowl Harvest in a Changing Climate
Marine Bird Populations and the Gulf of Mexico Marine Assessment Program for Protected Species (GoMMAPPS)
Structured Decision Making
Decision-Support for Migratory Bird Management in the Face of Uncertainty
Structured Decision Making: Methods, Applications, and Capacity-Building
Mountain Plover population and habitat assessments in Texas, 2019–2020
Elicited qualitative value of information scores for eastern black rail uncertainties on the Atlantic Coast from a 2020 adaptive management workshop
Qualitative value of information for the effects of prescribed fire in Gulf of Mexico marshes: Expert judgment scores from a 2020 adaptive management workshop
Spatial Integration of Biological and Social Objectives to Identify Priority Landscapes for Waterfowl Habitat Conservation
Trends and population estimate of the threatened Buff-breasted Sandpiper Calidris subruficollis wintering in coastal grasslands of southern Brazil
A simplified method for value of information using constructed scales
Qualitative value of information provides a transparent and repeatable method for identifying critical uncertainty
Red knot stopover population size and migration ecology at Delaware Bay, USA, 2022
Structured decision making to rank North American Wetland Conservation Act proposals within joint venture regions
Optimization of salt marsh management at the Petit Manan National Wildlife Refuge of the Maine Coastal Islands National Wildlife Refuge Complex, Maine, through use of structured decision making
Optimization of salt marsh management at the Eastern Shore of Virginia and Fisherman Island National Wildlife Refuges, Virginia, through use of structured decision making
Optimization of salt marsh management at the Moosehorn National Wildlife Refuge, Maine, through use of structured decision making
Optimization of salt marsh management at the Rachel Carson National Wildlife Refuge, Maine, through use of structured decision making
Structured decision making and optimal bird monitoring in the northern Gulf of Mexico
Optimization of salt marsh management at the Long Island National Wildlife Refuge Complex, New York, through use of structured decision making
Species-specific demographic and behavioral responses to food availability during migratory stopover
Optimal horseshoe crab harvest policies via approximate dynamic programming
Science and Products
- Science
Population Ecology of Red Knots (C. c. roselaari) in the Pacific-Americas Flyway
The Red Knot (Calidris canutus roselaari) is long-distance migrant in the Pacific-Americas Flyway. The subspecies relies on a small number of stopover sites between Mexico and Alaska during migration. Extreme site fidelity and small population size make it vulnerable to environmental impacts and the effects of climate change.Red Knot Migration and Population Ecology
Eastern Ecological Science Center biologists are studying migration and population ecology of the rufa red knot, a bird species that is dependent on horseshoe crab eggs to complete its trans-hemispheric migration. The birds' spring migration is timed with spawning of horseshoe crabs because the eggs are the perfect food for a migrating red knot.Use of Structured Decision Making to Optimize Salt Marsh Management Decisions at Northeastern National Wildlife Refuges
US Fish and Wildlife Service completed a regional assessment of salt marsh integrity (SMI) on 15 National Wildlife Refuges/Refuge Complexes in the northeastern US. Developed within a structured decision making (SDM) framework, the SMI assessment provides essential baseline data on salt marsh condition relative to regional management objectives. These data now provide the basis for applying the SDM...Adaptive Management of Black Rails
The Black Rail (Laterallus jamaicensis) is the most secretive of the secretive marsh birds and few aspects of its life history and ecology are well understood. The Eastern Black Rail subspecies (L. j. jamaicensis) is listed as endangered in five states along the Atlantic Coast and has been proposed as Threatened under the Endangered Species Act and is under review for federal listing. Historical...Informing Management of Waterfowl Harvest in a Changing Climate
The ability to effectively manage wildlife in North America is founded in an understanding of how human actions and the environment influence wildlife populations. Current management practices are informed by population monitoring data from the past to determine key ecological relationships and make predictions about future population status. In most cases, including the regulation of waterfowl huMarine Bird Populations and the Gulf of Mexico Marine Assessment Program for Protected Species (GoMMAPPS)
The Challenge: The Gulf of Mexico has critically important breeding, staging, and wintering habitats for North America’s migratory birds. Unfortunately, limited information is available to quantitatively characterize species composition, distribution, and abundance of birds Gulf-wide, particularly for seabirds. The number of platforms and cumulative level of oil and gas activity in the northern...Structured Decision Making
The biggest natural resource management challenges include competing views of the value and uses of those resources in society. Patuxent scientists develop methods to manage resources given those competing views under a “structured decision making” (SDM) framework. Our scientists both practice and train others in key SDM skills, such as model development and monitoring design.Decision-Support for Migratory Bird Management in the Face of Uncertainty
Migratory birds are responding to changes in climate in complex and sometimes unpredictable ways. The timing of breeding and migration typically coincide with the periods of peak food availability; however, these peaks are shifting as temperatures and precipitation patterns change, resulting in a mismatch in the timing of key events. The degree to which this mismatch is impacting migratory birds vStructured Decision Making: Methods, Applications, and Capacity-Building
The Challenge: The field of decision analysis is a rich and mature discipline that provides robust methods for helping decision makers understand the nature of their decisions, involve stakeholders and scientists in appropriate steps of the process, and develop transparent records for the public. The use of these structured approaches is emerging in natural resource management, and there is strong... - Data
Mountain Plover population and habitat assessments in Texas, 2019–2020
We conducted population and habitat assessments for Mountain Plovers in Texas during winters of 2019 and 2020. We used roadside surveys and distance-sampling to estimate bird density and calculate population totals for the study area, which included parts of five ecoregions (Chihuahuan Deserts, High Plains, Central Great Plains, Southern Texas Plains, Texas Blackland Prairies, and Western Gulf CoaElicited qualitative value of information scores for eastern black rail uncertainties on the Atlantic Coast from a 2020 adaptive management workshop
The eastern black rail (Laterallus jamaicensis jamaicensis; hereafter rail) is a small, cryptic marshbird that was recently listed as threatened under the U.S. Endangered Species Act. We organized a rapid prototyping workshop to initiate development of an adaptive management for rails on the Atlantic Coast. The in-person workshop spanned 2.5 days and was held in Titusville, Florida in January 2020Qualitative value of information for the effects of prescribed fire in Gulf of Mexico marshes: Expert judgment scores from a 2020 adaptive management workshop
This data set was collected as part of a structured decision-making workshop designed to identify sources of uncertainty and articulate alternative hypotheses about prescribed fire in high marshes of the Gulf of Mexico. Workshop participants independently scored alternative hypotheses based on a standard rubric using an online system. Following the workshop, we used the scores to compute QVoI forSpatial Integration of Biological and Social Objectives to Identify Priority Landscapes for Waterfowl Habitat Conservation
The information and data presented herein serve as the supplement to the report, Spatial Integration of Biological and Social Objectives to Identify Priority Landscapes for Waterfowl Habitat Conservation. The purpose of this supplemental material is to encourage exploration of the methods used to develop the spatially explicit products presented in the report. The in depth step-by-step methodology - Multimedia
- Publications
Filter Total Items: 57
Trends and population estimate of the threatened Buff-breasted Sandpiper Calidris subruficollis wintering in coastal grasslands of southern Brazil
Information about population sizes, trends, and habitat use is key for species conservation and management. The Buff-breasted Sandpiper Calidris subruficollis (BBSA) is a long-distance migratory shorebird that breeds in the Arctic and migrates to south-eastern South America, wintering in the grasslands of southern Brazil, Uruguay, and Argentina. Most studies of Nearctic migratory species occur inAuthorsFernando A. Faria, Rafael A. Dias, Glayson A. Bencke, Leandro Bugoni, Nathan R. Senner, Juliana B. Almeida, Guilherme Tavares Nunes, Maycon S. S. Gonçalves, James E. LyonsA simplified method for value of information using constructed scales
The value of information is a central concept in decision analysis, used to quantify how much the expected outcome of a decision would be improved if epistemic uncertainty could be resolved prior to committing to a course of action. One of the challenges, however, in quantitative analysis of the value of information is that the calculations are demanding, especially in requiring predictions of outAuthorsMichael C. Runge, Clark S. Rushing, James E. Lyons, Madeleine A. RubensteinQualitative value of information provides a transparent and repeatable method for identifying critical uncertainty
Conservation decisions are often made in the face of uncertainty because the urgency to act can preclude delaying management while uncertainty is resolved. In this context, adaptive management is attractive, allowing simultaneous management and learning. An adaptive program design requires the identification of critical uncertainties that impede the choice of management action. Quantitative evaluaAuthorsMichelle L Stantial, Abigail Jean Lawson, Auriel M.V. Fournier, Peter J. Kappes, Chelsea S. Kross, Michael C. Runge, Mark S. Woodrey, James E. LyonsRed knot stopover population size and migration ecology at Delaware Bay, USA, 2022
Red Knots (Calidris canutus rufa) stop at Delaware Bay on the mid-Atlantic coast of North America during northward migration to feed on eggs of horseshoe crabs (Limulus polyphemus). In the late 1990s and early 2000s, the number of Red Knots found at Delaware Bay declined from ~50,000 to ~13,000. Horseshoe crabs have been harvested for use as bait in eel (Anguilla rostrata) and whelk (Busycon) fishAuthorsJames E. LyonsStructured decision making to rank North American Wetland Conservation Act proposals within joint venture regions
The North American Wetlands Conservation Act (16 U.S.C. 4401-4412) provided funding and administration for wetland management and conservation projects. The North American Wetland Conservation Fund, enabled in 1989 with the Act, provides financial resources. Resource allocation decisions are based, in part, on regional experts, particularly migratory bird Joint Ventures (JVs) (i.e., partnerships fAuthorsAnastasia Krainyk, James E. Lyons, Gregory J. Soulliere, John M. Coluccy, Barry C. Wilson, Michael G. Brasher, Mohammed A Al-Saffar, Dale D. HumburgOptimization of salt marsh management at the Petit Manan National Wildlife Refuge of the Maine Coastal Islands National Wildlife Refuge Complex, Maine, through use of structured decision making
Structured decision making is a systematic, transparent process for improving the quality of complex decisions by identifying measurable management objectives and feasible management actions; predicting the potential consequences of management actions relative to the stated objectives; and selecting a course of action that maximizes the total benefit achieved and balances tradeoffs among objectiveAuthorsHilary A. Neckles, James E. Lyons, Jessica L. Nagel, Susan C. Adamowicz, Toni Mikula, Sara WilliamsOptimization of salt marsh management at the Eastern Shore of Virginia and Fisherman Island National Wildlife Refuges, Virginia, through use of structured decision making
Structured decision making is a systematic, transparent process for improving the quality of complex decisions by identifying measurable management objectives and feasible management actions; predicting the potential consequences of management actions relative to the stated objectives; and selecting a course of action that maximizes the total benefit achieved and balances tradeoffs among objectiveAuthorsHilary A. Neckles, James E. Lyons, Jessica L. Nagel, Susan C. Adamowicz, Toni Mikula, Pamela Denmon, Robert LeffelOptimization of salt marsh management at the Moosehorn National Wildlife Refuge, Maine, through use of structured decision making
Structured decision making is a systematic, transparent process for improving the quality of complex decisions by identifying measurable management objectives and feasible management actions; predicting the potential consequences of management actions relative to the stated objectives; and selecting a course of action that maximizes the total benefit achieved and balances tradeoffs among objectiveAuthorsHilary A. Neckles, James E. Lyons, Jessica L. Nagel, Susan C. Adamowicz, Toni Mikula, Maurice Mills, Raymond E. Brown, Keith RamosOptimization of salt marsh management at the Rachel Carson National Wildlife Refuge, Maine, through use of structured decision making
Structured decision making is a systematic, transparent process for improving the quality of complex decisions by identifying measurable management objectives and feasible management actions; predicting the potential consequences of management actions relative to the stated objectives; and selecting a course of action that maximizes the total benefit achieved and balances tradeoffs among objectiveAuthorsHilary A. Neckles, James E. Lyons, Jessica L. Nagel, Susan C. Adamowicz, Toni Mikula, Kathleen M. O'Brien, Bri Benvenuti, Ryan KleinertStructured decision making and optimal bird monitoring in the northern Gulf of Mexico
The avian conservation community struggles to design and implement large scale, long-term coordinated bird monitoring programs within the northern Gulf of Mexico due to the complexity of the conservation enterprise in the region; this complexity arises from the diverse stakeholders, multiple jurisdictions, complex ecological processes, myriad habitats, and over 500 species of birds using the regioAuthorsAuriel M.V. Fournier, R. Randy Wilson, James E. Lyons, Jeffrey S. Gleason, Evan M. Adams, Laurel M. Barnhill, Janell M. Brush, Robert J. Cooper, Stephen J. DeMaso, Melanie J.L. Driscoll, Mitchell J. Eaton, Peter C. Frederick, Michael G. Just, Michael A. Seymour, John M. Tirpak, Mark S. WoodreyOptimization of salt marsh management at the Long Island National Wildlife Refuge Complex, New York, through use of structured decision making
Structured decision making is a systematic, transparent process for improving the quality of complex decisions by identifying measurable management objectives and feasible management actions; predicting the potential consequences of management actions relative to the stated objectives; and selecting a course of action that maximizes the total benefit achieved and balances tradeoffs among objectiveAuthorsHilary A. Neckles, James E. Lyons, Jessica L. Nagel, Susan C. Adamowicz, Toni Mikula, Monica R. WilliamsSpecies-specific demographic and behavioral responses to food availability during migratory stopover
Understanding the effects of migratory stopover site conditions on both demographic rates and migratory behaviors is critical for interpreting changes in passage population sizes at stopover sites and predicting responses to future changes and conservation actions. We used a Bayesian formulation of the open robust design model to analyze mark-resight observations of three migratory shorebird speciAuthorsA. M. Tucker, Conor P. McGowan, James E. Lyons, A. Derose-Wilson, N. A. Clark - Software
Optimal horseshoe crab harvest policies via approximate dynamic programming
Approximate Dynamic Programming relies on forward simulation of the system, so two population projection models are used, one for crabs and one for red knots. The two models are linked: HSC abundance is a predictor variable in the REKN model. Other useful outputs are produced as well, such as predictions of future harvest.
*Disclaimer: Listing outside positions with professional scientific organizations on this Staff Profile are for informational purposes only and do not constitute an endorsement of those professional scientific organizations or their activities by the USGS, Department of the Interior, or U.S. Government