Geology topics

James E. Lyons

Publications and source records attributed to James E. Lyons.

66 records · Page 4Linked to original sources

USGS2016

A generalizable energetics-based model of avian migration to facilitate continental-scale waterbird conservation

Conserving migratory birds is made especially difficult because of movement among spatially disparate locations across the annual cycle. In light of challenges presented by the scale and ecology of migratory birds, successful conservation requires integrating objectives, management, and monitoring across scales, from local management units to ecoregional and flyway administrative boundaries. We present an integrated approach using a spatially explicit energetic-based mechanistic bird migration model useful to conservation decision-making across disparate scales and locations. This model moves a mallard-like bird (Anas platyrhynchos), through spring and fall migration as a function of caloric gains and losses across a continental scale energy landscape. We predicted with this model that fall migration, where birds moved from breeding to wintering habitat, took a mean of 27.5 days of flight with a mean seasonal survivorship of 90.5% (95% CI = 89.2%, 91.9%) whereas spring migration took a mean of 23.5 days of flight with mean seasonal survivorship of 93.6% (95% CI = 92.5%, 94.7%). Sensitivity analyses suggested that survival during migration was sensitive to flight speed, flight cost, the amount of energy the animal could carry and the spatial pattern of energy availability, but generally insensitive to total energy availability per se. Nevertheless, continental patterns in the bird-use days occurred principally in relation to wetland cover and agricultural habitat in the fall. Bird-use days were highest in both spring and fall in the Mississippi Alluvial Valley and along the coast and near-shore environments of South Carolina. Spatial sensitivity analyses suggested that locations nearer to migratory endpoints were less important to survivorship; for instance, removing energy from a 1,036 km2 stopover site at a time from the Atlantic Flyway suggested coastal areas between New Jersey and North Carolina, including Chesapeake Bay and the North Carolina piedmont, are essential locations for efficient migration and increasing survivorship during spring migration but not locations in Ontario and Massachusetts. This sort of spatially explicit information may allow decision-makers to prioritize their conservation actions toward locations most influential to migratory success. Thus, this mechanistic model of avian migration provides a decision-analytic medium integrating the potential consequences of local actions to flyway-scale phenomena.

Ecological Applications↗

USGS2015

An evaluation of rapid methods for monitoring vegetation characteristics of wetland bird habitat

Wetland managers benefit from monitoring data of sufficient precision and accuracy to assess wildlife habitat conditions and to evaluate and learn from past management decisions. For large-scale monitoring programs focused on waterbirds (waterfowl, wading birds, secretive marsh birds, and shorebirds), precision and accuracy of habitat measurements must be balanced with fiscal and logistic constraints. We evaluated a set of protocols for rapid, visual estimates of key waterbird habitat characteristics made from the wetland perimeter against estimates from (1) plots sampled within wetlands, and (2) cover maps made from aerial photographs. Estimated percent cover of annuals and perennials using a perimeter-based protocol fell within 10 percent of plot-based estimates, and percent cover estimates for seven vegetation height classes were within 20 % of plot-based estimates. Perimeter-based estimates of total emergent vegetation cover did not differ significantly from cover map estimates. Post-hoc analyses revealed evidence for observer effects in estimates of annual and perennial covers and vegetation height. Median time required to complete perimeter-based methods was less than 7 percent of the time needed for intensive plot-based methods. Our results show that rapid, perimeter-based assessments, which increase sample size and efficiency, provide vegetation estimates comparable to more intensive methods.

Wetlands Ecology and Management↗

USGS2015

Population size and stopover duration estimation using mark–resight data and Bayesian analysis of a superpopulation model

We present a novel formulation of a mark–recapture–resight model that allows estimation of population size, stopover duration, and arrival and departure schedules at migration areas. Estimation is based on encounter histories of uniquely marked individuals and relative counts of marked and unmarked animals. We use a Bayesian analysis of a state–space formulation of the Jolly–Seber mark–recapture model, integrated with a binomial model for counts of unmarked animals, to derive estimates of population size and arrival and departure probabilities. We also provide a novel estimator for stopover duration that is derived from the latent state variable representing the interim between arrival and departure in the state–space model. We conduct a simulation study of field sampling protocols to understand the impact of superpopulation size, proportion marked, and number of animals sampled on bias and precision of estimates. Simulation results indicate that relative bias of estimates of the proportion of the population with marks was low for all sampling scenarios and never exceeded 2%. Our approach does not require enumeration of all unmarked animals detected or direct knowledge of the number of marked animals in the population at the time of the study. This provides flexibility and potential application in a variety of sampling situations (e.g., migratory birds, breeding seabirds, sea turtles, fish, pinnipeds, etc.). Application of the methods is demonstrated with data from a study of migratory sandpipers.

Biometrics↗

USGS2015

Evaluating predictors of local dabbling duck abundance during migration: Managing the spectrum of conditions faced by migrants

The development of robust modelling techniques to derive inferences from large-scale migratory bird monitoring data at appropriate scales has direct relevance to their management. The Integrated Waterbird Management and Monitoring programme (IWMM) represents one of the few attempts to monitor migrating waterbirds across entire flyways using targeted local surveys. This dataset included 13,208,785 waterfowl (eight Anas species) counted during 28,000 surveys at nearly 1,000 locations across the eastern United States between autumn 2010 and spring 2013 and was used to evaluate potential predictors of waterfowl abundance at the wetland scale. Mixed-effects, log-linear models of local abundance were built for the Atlantic and Mississippi flyways during spring and autumn migration to identify factors relating to habitat structure, forage availability, and migration timing that influence target dabbling duck species abundance. Results indicated that migrating dabbling ducks responded differently to environmental factors. While the factors identified demonstrated a high degree of importance, they were inconsistent across species, flyways and seasons. Furthermore, the direction and magnitude of the importance of each covariate group considered here varied across species. Given our results, actionable policy recommendations are likely to be most effective if they consider species-level variation within targeted taxonomic units and across management areas. The methods implemented here can easily be applied to other contexts, and serve as a novel investigation into local-level population patterns using data from broad-scale monitoring programmes.

Wildfowl↗

USGS2014

Developing objectives with multiple stakeholders: adaptive management of horseshoe crabs and Red Knots in the Delaware Bay

Structured decision making (SDM) is an increasingly utilized approach and set of tools for addressing complex decisions in environmental management. SDM is a value-focused thinking approach that places paramount importance on first establishing clear management objectives that reflect core values of stakeholders. To be useful for management, objectives must be transparently stated in unambiguous and measurable terms. We used these concepts to develop consensus objectives for the multiple stakeholders of horseshoe crab harvest in Delaware Bay. Participating stakeholders first agreed on a qualitative statement of fundamental objectives, and then worked to convert those objectives to specific and measurable quantities, so that management decisions could be assessed. We used a constraint-based approach where the conservation objectives for Red Knots, a species of migratory shorebird that relies on horseshoe crab eggs as a food resource during migration, constrained the utility of crab harvest. Developing utility functions to effectively reflect the management objectives allowed us to incorporate stakeholder risk aversion even though different stakeholder groups were averse to different or competing risks. While measurable objectives and quantitative utility functions seem scientific, developing these objectives was fundamentally driven by the values of the participating stakeholders.

Environmental Management↗

USGS2014

Use of structured decision making to identify monitoring variables and management priorities for salt marsh ecosystems

Most salt marshes in the USA have been degraded by human activities, and coastal managers are faced with complex choices among possible actions to restore or enhance ecosystem integrity. We applied structured decision making (SDM) to guide selection of monitoring variables and management priorities for salt marshes within the National Wildlife Refuge System in the northeastern USA. In general, SDM is a systematic process for decomposing a decision into its essential elements. We first engaged stakeholders in clarifying regional salt marsh decision problems, defining objectives and attributes to evaluate whether objectives are achieved, and developing a pool of alternative management actions for achieving objectives. Through this process, we identified salt marsh attributes that were applicable to monitoring National Wildlife Refuges on a regional scale and that targeted management needs. We then analyzed management decisions within three salt marsh units at Prime Hook National Wildlife Refuge, coastal Delaware, as a case example of prioritizing management alternatives. Values for salt marsh attributes were estimated from 2 years of baseline monitoring data and expert opinion. We used linear value modeling to aggregate multiple attributes into a single performance score for each alternative, constrained optimization to identify alternatives that maximized total management benefits subject to refuge-wide cost constraints, and used graphical analysis to identify the optimal set of alternatives for the refuge. SDM offers an efficient, transparent approach for integrating monitoring into management practice and improving the quality of management decisions.

Estuaries and Coasts↗

USGS2013

Evaluating a multispecies adaptive management framework: Must uncertainty impede effective decision-making?

Application of adaptive management to complex natural resource systems requires careful evaluation to ensure that the process leads to improved decision-making. As part of that evaluation, adaptive policies can be compared with alternative nonadaptive management scenarios. Also, the value of reducing structural (ecological) uncertainty to achieving management objectives can be quantified. A multispecies adaptive management framework was recently adopted by the Atlantic States Marine Fisheries Commission for sustainable harvest of Delaware Bay horseshoe crabs Limulus polyphemus, while maintaining adequate stopover habitat for migrating red knots Calidris canutus rufa , the focal shorebird species. The predictive model set encompassed the structural uncertainty in the relationships between horseshoe crab spawning, red knot weight gain and red knot vital rates. Stochastic dynamic programming was used to generate a state-dependent strategy for harvest decisions given that uncertainty. In this paper, we employed a management strategy evaluation approach to evaluate the performance of this adaptive management framework. Active adaptive management was used by including model weights as state variables in the optimization and reducing structural uncertainty by model weight updating. We found that the value of information for reducing structural uncertainty is expected to be low, because the uncertainty does not appear to impede effective management. Harvest policy responded to abundance levels of both species regardless of uncertainty in the specific relationship that generated those abundances. Thus, the expected horseshoe crab harvest and red knot abundance were similar when the population generating model was uncertain or known, and harvest policy was robust to structural uncertainty as specified. Synthesis and applications . The combination of management strategy evaluation with state-dependent strategies from stochastic dynamic programming was an informative approach to evaluate adaptive management performance and value of learning. Although natural resource decisions are characterized by uncertainty, not all uncertainty will cause decisions to be altered substantially, as we found in this case. It is important to incorporate uncertainty into the decision framing and evaluate the effect of reducing that uncertainty on achieving the desired outcomes

Journal of Applied Ecology↗

USGS2012

Large-scale monitoring of shorebird populations using count data and N-mixture models: Black Oystercatcher ( Haematopus bachmani ) surveys by land and sea

Large-scale monitoring of bird populations is often based on count data collected across spatial scales that may include multiple physiographic regions and habitat types. Monitoring at large spatial scales may require multiple survey platforms (e.g., from boats and land when monitoring coastal species) and multiple survey methods. It becomes especially important to explicitly account for detection probability when analyzing count data that have been collected using multiple survey platforms or methods. We evaluated a new analytical framework, N -mixture models, to estimate actual abundance while accounting for multiple detection biases. During May 2006, we made repeated counts of Black Oystercatchers ( Haematopus bachmani ) from boats in the Puget Sound area of Washington ( n = 55 sites) and from land along the coast of Oregon ( n = 56 sites). We used a Bayesian analysis of N-mixture models to (1) assess detection probability as a function of environmental and survey covariates and (2) estimate total Black Oystercatcher abundance during the breeding season in the two regions. Probability of detecting individuals during boat-based surveys was 0.75 (95% credible interval: 0.42–0.91) and was not influenced by tidal stage. Detection probability from surveys conducted on foot was 0.68 (0.39–0.90); the latter was not influenced by fog, wind, or number of observers but was ~35% lower during rain. The estimated population size was 321 birds (262–511) in Washington and 311 (276–382) in Oregon. N-mixture models provide a flexible framework for modeling count data and covariates in large-scale bird monitoring programs designed to understand population change.

Oregon;Washington↗

USGS2012

Population size of snowy plovers breeding in North America

Snowy Plovers ( Charadrius nivosus ) may be one of the rarest shorebirds in North America yet a comprehensive assessment of their abundance and distribution has not been completed. During 2007 and 2008, 557 discrete wetlands were surveyed and nine additional large wetland complexes sampled in México and the USA. From these surveys, a population of 23,555 (95% CI = 17,299 – 29,859) breeding Snowy Plovers was estimated. Combining the estimate with information from areas not surveyed, the total North American population was assessed at 25,869 (95% CI = 18,917 – 32,173). Approximately 42% of all breeding Snowy Plovers in North America resided at two sites (Great Salt Lake, Utah, and Salt Plains National Wildlife Refuge, Oklahoma), and 33% of all these were on wetlands in the Great Basin (including Great Salt Lake). Also, coastal habitats in central and southern Texas supported large numbers of breeding plovers. New breeding sites were discovered in interior deserts and highlands and along the Pacific coast of México; approximately 9% of the North American breeding population occurred in México. Because of uncertainties about effects of climate change and current stresses to breeding habitats, the species should be a management and conservation priority. Periodic monitoring should be undertaken at important sites to ensure high quality habitat is available to support the Snowy Plover population.

Waterbirds↗

USGS2011

Which uncertainty? Using expert elicitation and expected value of information to design an adaptive program

Natural resource management is plagued with uncertainty of many kinds, but not all uncertainties are equally important to resolve. The promise of adaptive management is that learning in the short-term will improve management in the long-term; that promise is best kept if the focus of learning is on those uncertainties that most impede achievement of management objectives. In this context, an existing tool of decision analysis, the expected value of perfect information (EVPI), is particularly valuable in identifying the most important uncertainties. Expert elicitation can be used to develop preliminary predictions of management response under a series of hypotheses, as well as prior weights for those hypotheses, and the EVPI can be used to determine how much management could improve if uncertainty was resolved. These methods were applied to management of whooping cranes ( Grus americana ), an endangered migratory bird that is being reintroduced in several places in North America. The Eastern Migratory Population of whooping cranes had exhibited almost no successful reproduction through 2009. Several dozen hypotheses can be advanced to explain this failure, and many of them lead to very different management responses. An expert panel articulated the hypotheses, provided prior weights for them, developed potential management strategies, and made predictions about the response of the population to each strategy under each hypothesis. Multi-criteria decision analysis identified a preferred strategy in the face of uncertainty, and analysis of the expected value of information identified how informative each strategy could be. These results provide the foundation for design of an adaptive management program.

Biological Conservation↗

USGS2011

Demographic consequences of migratory stopover: Linking red knot survival to horseshoe crab spawning abundance

Understanding how events during one period of the annual cycle carry over to affect survival and other fitness components in other periods is essential to understanding migratory bird demography and conservation needs. Previous research has suggested that western Atlantic red knot ( Calidris canutus rufa ) populations are greatly affected by horseshoe crab ( Limulus polyphemus ) egg availability at Delaware Bay stopover sites during their spring northward migration. We present a mass‐based multistate, capture‐recapture/resighting model linking (1) red knot stopover mass gain to horseshoe crab spawning abundance and (2) subsequent apparent annual survival to mass state at the time of departure from the Delaware Bay stopover area. The model and analysis use capture‐recapture/resighting data with over 16,000 individual captures and 13,000 resightings collected in Delaware Bay over a 12 year period from 1997–2008, and the results are used to evaluate the central management hypothesis that red knot populations can be influenced by horseshoe crab harvest regulations as part of a larger adaptive management effort. Model selection statistics showed support for a positive relationship between horseshoe crab spawning abundance during the stopover and the probability of red knots gaining mass (parameter coefficient from the top model b̂ = 1.71, = 0.46). Our analyses also supported the link between red knot mass and apparent annual survival, although average estimates for the two mass classes differed only slightly. The addition of arctic snow depth as a covariate influencing apparent survival improved the fit of the data to the models (parameter coefficient from the top model b̂ = 0.50, = 0.08). Our results indicate that managing horseshoe crab resources in the Delaware Bay has the potential to improve red knot population status.

Delaware, New Jersey↗

USGS2002

Western Sandpipers ( Calidris mauri ) during the non-breeding season: Spatial segregation on a hemispheric scale

The nonbreeding distribution of Western Sandpipers ( Calidris mauri ) was documented using 19 data sets from 13 sites along the Pacific and Atlantic coasts of the Americas. Western Sandpipers showed latitudinal segregation with regard to sex and age. Females wintered farther south than males. A “U” shaped pattern was found with respect to age, with juveniles occurring at higher proportions at both the northern and southern ends of the range. Distribution of sexes might be affected by differences in bill length and a latitudinal trend in depth distribution of prey. For age class distribution, two different life-history tactics of juveniles might exist that are related to the higher cost of feather wear for juveniles compared to adults. Most juveniles complete three long-distance migrations on one set of flight feathers whereas adults complete two. Juveniles may winter either far north, thereby reducing feather wear induced by ultraviolet light, migration, or both, or far south and spend the summer on the nonbreeding area.

The Auk↗