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Accounting for false-positive acoustic detections of bats using occupancy models

1. Acoustic surveys have become a common survey method for bats and other vocal taxa. Previous work shows that bat echolocation may be misidentified, but common analytic methods, such as occupancy models, assume that misidentifications do not occur. Unless rare, such misidentifications could lead to incorrect inferences with significant management implications. 2. We fit a false-positive occupancy model to data from paired bat detector and mist-net surveys to estimate probability of presence when survey data may include false positives. We compared estimated occupancy and detection rates to those obtained from a standard occupancy model. We also derived a formula to estimate the probability that bats were present at a site given its detection history. As an example, we analysed survey data for little brown bats Myotis lucifugus from 135 sites in Washington and Oregon, USA. 3. We estimated that at an unoccupied site, acoustic surveys had a 14% chance per night of producing spurious M. lucifugus detections. Estimated detection rates were higher and occupancy rates were lower under the false-positive model, relative to a standard occupancy model. Un-modelled false positives also affected inferences about occupancy at individual sites. For example, probability of occupancy at individual sites with acoustic detections but no captures ranged from 2% to 100% under the false-positive occupancy model, but was always 100% under a standard occupancy model. 4. Synthesis and applications. Our results suggest that false positives sufficient to affect inferences may be common in acoustic surveys for bats. We demonstrate an approach that can estimate occupancy, regardless of the false-positive rate, when acoustic surveys are paired with capture surveys. Applications of this approach include monitoring the spread of White-Nose Syndrome, estimating the impact of climate change and informing conservation listing decisions. We calculate a site-specific probability of occupancy, conditional on survey results, which could inform local permitting decisions, such as for wind energy projects. More generally, the magnitude of false positives suggests that false-positive occupancy models can improve accuracy in research and monitoring of bats and provide wildlife managers with more reliable information.

Oregon, Washington↗

Mycobacterium avium subsp. paratuberculosis in scavenging mammals in Wisconsin

The presence of Mycobacterium avium subsp. paratuberculosis (MAP) in non-ruminant wildlife has raised questions regarding the role of these species in Johne's disease transmission. In this study we tested 472 tissues from 212 animals of six different species of scavenging mammals. All animals were taken from within a 210-square-mile area in Dane and Iowa counties of south central Wisconsin from September to May in 2003–04 and tested for the presence of MAP. We detected MAP-specific DNA in 81 of 212 (38%) scavenging mammals, in 98 of the 472 (21%) tissues; viable MAP was cultured from one coyote's ileum and lymph node tissue. Despite the low numbers of viable MAP isolated in this study, our data adds to the increasing evidence demonstrating the potential for transmission and infection of MAP in nonruminant species and provides possible evidence of interspecies transmission. The apparently high exposure of nonruminant wildlife provides potential evidence of a spill-over of MAP to wildlife species and raises the question of spillback to domestic and wild ruminants. These results demonstrate the importance of understanding the role of wildlife species in developing management strategies for Johne's disease in domestic livestock.

Wisconsin↗

A serosurvey of diseases of free-ranging gray wolves (Canis lupus) in Minnesota

We tested serum samples from 387 free-ranging wolves ( Canis lupus ) from 2007 to 2013 for exposure to eight canid pathogens to establish baseline data on disease prevalence and spatial distribution in Minnesota's wolf population. We found high exposure to canine adenoviruses 1 and 2 (88% adults, 45% pups), canine parvovirus (82% adults, 24% pups), and Lyme disease (76% adults, 39% pups). Sixty-six percent of adults and 36% of pups exhibited exposure to the protozoan parasite Neospora caninum . Exposure to arboviruses was confirmed, including West Nile virus (37% adults, 18% pups) and eastern equine encephalitis (3% adults). Exposure rates were lower for canine distemper (19% adults, 5% pups) and heartworm (7% adults, 3% pups). Significant spatial trends were observed in wolves exposed to canine parvovirus and Lyme disease. Serologic data do not confirm clinical disease, but better understanding of disease ecology of wolves can provide valuable insight into wildlife population dynamics and improve management of these species.

Minnesota↗

Factors influencing reproductive performance of northern bobwhite in South Florida

Reproductive success is a critical component of individual fitness, and also an important determinant of growth rates of populations characterized by early maturity and high fecundity. We used radiotelemetry data collected during 2003–2008 to estimate reproductive parameters in a declining northern bobwhite ( Colinus virginianus ) population in South Florida, and to test hypotheses regarding factors influencing these parameters. The overall clutch size was 12.10 ± 0.22, but females laid more eggs in their first clutch (12.43 ± 0.24) than in subsequent clutches (10.19 ± 0.53) within a nesting season. Daily nest survival was higher for first (0.966 ± 0.003) than subsequent nests (0.936 ± 0.011). Hatchability (proportion of laid eggs that hatched conditional upon nest survival to hatching) was 0.853 ± 0.008, but was higher for nests incubated by females (0.873 ± 0.009) than those incubated by males (0.798 ± 0.018). The proportion of individuals attempting a second nest was 0.112 ± 0.024 and 0.281 ± 0.040 when the first nest was successful and failed, respectively. Hatchability was lower when the nesting habitat was burned the previous winter. We found no evidence that food strip density (a management practice to provide supplemental food) influenced any of the reproductive parameters. Mean summer temperature affected hatchability, nest survival, and proportion of nests incubated by males. Overall, the reproductive output in our study population was lower than that reported for most other bobwhite populations, indicating that low reproductive performance may have contributed to bobwhite population declines in our study site. These results suggest that current management practices, particularly those related to habitat and harvest management, need careful evaluation.

Florida↗

Community attachment and stewardship identity influence responsibility to manage wildlife

Managing wildlife in landscapes under private ownership requires partnership between landowners, resource users, and governing agencies. Agencies often call on landowners to voluntarily change their practices to achieve collective goals. Landowner support for management action is partially a function of normative beliefs about managing wildlife. Understanding factors that support development of normative beliefs is important for program design, with implications beyond deer. Drawing on norm activation theory, identity theory, and community attachment, we hypothesized that landowners’ ascription of responsibility to manage deer were a function of their identity as a wildlife steward and attachment to their community. We tested our hypotheses using structural equation modeling with data from a survey of southeast Minnesota landowners. Results revealed ascribed responsibility to be a function of identity. In turn, identity was predicted by affect toward the community. Findings suggest community-based approaches to wildlife management could improve goal achievement.

Minnesota↗

U.S. Geological Survey science for the Wyoming Landscape Conservation Initiative—2016 annual report

This is the ninth annual report highlighting U.S. Geological Survey (USGS) science and decision-support activities conducted for the Wyoming Landscape Conservation Initiative (WLCI). The activities address specific management needs identified by WLCI partner agencies. In fiscal year (FY) 2016, there were 26 active USGS WLCI science-based projects. Of these 26 projects, one project was new for FY2016, and three were completed by the end of the fiscal year (though final products were still in preparation or review). USGS WLCI projects were grouped under five categories: (1) Baseline Synthesis, (2) Long-Term Monitoring, (3) Effectiveness Monitoring, (4) Mechanistic Studies of Wildlife, and (5) Data and Information Management. Each of these topic areas is designed to address WLCI management needs: identifying key drivers of change, identifying the condition and distribution of key wildlife species and habitats and of species’ habitat requirements, development of an integrated inventory and monitoring strategy, use of emerging technologies and development and testing of innovative methods for maximizing the efficiency and efficacy of monitoring efforts, evaluating the effectiveness of habitat treatment projects, evaluating the responses of wildlife to development, and developing a data clearinghouse and information management framework to support and provide access to results of most USGS WLCI projects. In FY2016, we assisted with updating the WLCI Conservation Action Plan and associated databases as part of the Comprehensive Assessment, and we also assisted with the Bureau of Land Management 2015 WLCI annual report. By the end of FY2016, we completed or had nearly completed assessments of WLCI energy and mineral resources and had submitted a manuscript on modeled effects of oil and gas development on wildlife to a peer-reviewed journal. We also initiated a study on the effects of wind energy on wildlife in the WLCI region. A USGS circular on WLCI long-term monitoring was in review at the end of the fiscal year, and seven projects monitoring water and vegetation (including changes in sagebrush cover and patterns of sagebrush mortality) continued through the year. USGS scientists continued many projects in FY2016 that evaluate the effectiveness of habitat conservation actions (including sagebrush, cheatgrass, and aspen habitat treatments) and provide tools in support of mechanistic studies of wildlife. In FY2016, USGS scientists, along with university and State partners, continued work on five focal wildlife species/communities (pygmy rabbits [ Brachylagus idahoensis ], greater sage grouse , mule deer, sagebrush songbirds, and native fish). In FY2016, the USGS Information Management Team presented information to WLCI scientists on how USGS tools and resources can be used to fulfill the requirements of new USGS policies regarding data release, data management, and data visualization.

Wyoming↗

Age- and season-specific variation in local and long-distance movement behavior of golden eagles

Animal movements can determine the population dynamics of wildlife. We used telemetry data to provide insight into the causes and consequences of local and long-distance movements of multiple age classes of conservation-reliant golden eagles ( Aquila chrysaetos) in the foothills and mountains near Tehachapi, California. We estimated size and habitat-related correlates of 324 monthly 95 % home ranges and 317 monthly 50 % core areas for 25 birds moving locally over 2.5 years. We also calculated daily, hourly, and total distances traveled for the five of these birds that engaged in long-distance movements. Mean (±SD) monthly home-range size was 253.6 ± 429.4 km 2 and core-area size was 26.4 ± 49.7 km 2 . Consistent with expectations, space used by pre-adults increased with age and was season-dependent but, unexpectedly, was not sex-dependent. For all ages and sexes, home ranges and core areas were dominated by both forest & woodland and shrubland & grassland habitat types. When moving long distances, eagles traveled up to 1588.4 km (1-way) in a season at highly variable speeds (63.7 ± 69.0 km/day and 5.2 ± 10.4 km/h) that were dependent on time of day. Patterns of long-distance movements by eagles were determined by age, yet these movements had characteristics of more than one previously described movement category (migration, dispersal, etc.). Our results provide a context for differentiating among types of movement behaviors and their population-level consequences and, thus, have implications for management and conservation of golden eagle populations. .

California, Idaho, Montana, Nevada, Oregon, Utah, ↗

Use of underwater videography to quantify conditions utilized by endangered Moapa Dace While spawning

Advances in underwater camera technology provide an affordable means to quantify the environmental conditions under which fish spawn. This information is important for investigating spawning ecology, managing habitat, or providing information for captive breeding programs. We deployed 12 modified security cameras underwater to identify environmental conditions related to the spawning behavior of the critically endangered Moapa Dace Moapa coriacea , a Mojave Desert stream-dwelling cyprinid that had never been observed spawning and that had fallen to a low of 459 individual fish 4 years prior to this study. Camera sites were selected systematically along the stream to represent the variety of conditions available. We divided the field of view in front of each camera into a grid, and we estimated both the available environment and the habitat over which Moapa Dace showed spawning behavior. From over 4,000 10-min video clips that were randomly selected for analysis, 13 spawning events were identified. Using nonparametric contingency table analyses, we found that Moapa Dace selected depths between 30 and 34 cm, water velocities between 0.11 and 0.17 m/s, cobble substrate, and overhead instream cover. Although the recorded sample size of spawning events was small (13), our sample represents a large proportion of events given that the world's entire population of Moapa Dace at the time was approximately 650 fish distributed over multiple kilometers of stream length. Environmental conditions identified by this study were replicated in laboratory facilities to successfully propagate Moapa Dace for the first time in captivity. These propagation methods are now used in a management setting by the Nevada Department of Wildlife to maintain a captive population of this rare fish. Camera methods can be effective in helping to identify spawning conditions where water clarity is sufficient.

Nevada↗

The economics of roadside bear viewing

Viewing bears along roadside habitats is a popular recreational activity in certain national parks throughout the United States. However, safely managing visitors during traffic jams that result from this activity often requires the use of limited park resources. Using unique visitor survey data, this study quantifies economic values associated with roadside bear viewing in Yellowstone National Park, monetary values that could be used to determine whether this continued use of park resources is warranted on economic grounds. Based on visitor expenditure data and results of a contingent visitation question, it is estimated that summer Park visitation would decrease if bears were no longer allowed to stay along roadside habitats, resulting in a loss of 155 jobs in the local economy. Results from a nonmarket valuation survey question indicate that on average, visitors to Yellowstone National Park are willing to pay around $41 more in Park entrance fees to ensure that bears are allowed to remain along roads within the Park. Generalizing this value to the relevant population of visitors indicates that the economic benefits of allowing this wildlife viewing opportunity to continue could outweigh the costs of using additional resources to effectively manage these traffic jams.

Idaho, Montana, Wyoming↗

Spatially explicit power analyses to inform occupancy‐based multi‐species wildlife monitoring programmes

1. Current and accurate information on wildlife populations is integral to successful biodiversity management and conservation globally. Nevertheless, many monitoring programs fail in their attempts to accurately monitor populations of interest due to interlinked issues including insufficient sample sizes, inappropriate duration, lack of reproducibility, and lack of clearly stated objectives. These common pitfalls could be avoided through the elicitation of explicit monitoring objectives and the a priori use of simulations to inform minimum sampling design requirements to meet said objectives. 2. Here, we provide a blueprint for using spatially explicit power analyses to inform the design and implementation of multi-species monitoring programs on landscape-scales. As a demonstration, we used spatially explicit simulations to devise a suitable sampling regime to meet clearly specified monitoring objectives in New York State: to use annual occupancy-based monitoring to be able to detect 25% and 50% changes in abundance of populations over five- and ten- year periods for all species of management interest in New York State, USA. We focused our simulation efforts on three challenging focal species (black bear, Ursus americanus, bobcat, Lynx rufus, and American marten, Martes americana) that differ notably in their morphology, life histories, space use, detection probability, habitat suitability, and population sizes/trajectories, and thus provide extremes in the challenges presented when it comes to sampling appropriately to detect changes in abundance. 3. Our simulations demonstrate variable context dependent trade-offs in sampling designs (i.e. number of sites [J] and number of sampling occasions [K]), and identify necessary minimum detection probabilities that must be attained to achieve statistical power to detect changes of varying magnitudes in populations of varying sizes in the three focal species. The simulations also highlight that monitoring population increases is likely beyond the reach of occupancy-based monitoring programs for wide-ranging or locally abundant species. 4. Synthesis and applications : We combine the results from the single-species simulations to produce a multi-species sampling design that meets the specified objectives for all three species. While the case study is centered on developing a multi-species sampling regime for New York State, it provides a reproducible step-by-step framework using established methods for wildlife managers and other practitioners to inform their own context- and objective- specific multi-species occupancy-based monitoring programs.

New York↗

Mortality patterns in endangered Hawaiian geese (Nene; Branta sandvicensis )

Understanding causes of death can aid management and recovery of endangered bird populations. Toward those ends, we systematically examined 300 carcasses of endangered Hawaiian Geese (Nene; Branta sandvicensis ) from Hawaii, Maui, Molokai, and Kauai between 1992 and 2013. The most common cause of death was emaciation, followed by trauma (vehicular strikes and predation), and infectious/inflammatory diseases of which toxoplasmosis (infection with Toxoplasma gondii ) predominated. Toxicoses were less common and were dominated by lead poisoning or botulism. For captive birds, inflammatory conditions predominated, whereas emaciation, trauma, and inflammation were common in free-ranging birds. Mortality patterns were similar for males and females. Trauma predominated for adults, whereas emaciation was more common for goslings. Causes of death varied among islands, with trauma dominating on Molokai, emaciation and inflammation on Kauai, emaciation on Hawaii, and inflammation and trauma on Maui. Understanding habitat or genetic-related factors that predispose Nene (particularly goslings) to emaciation might reduce the impact of this finding. In addition, trauma and infection with T. gondii are human-related problems that may be attenuated if effectively managed (e.g., road signs, enforcement of speed limits, feral cat [ Felis catus ] control). Such management actions might serve to enhance recovery of this endangered species.

Hawaii↗

Mottled duck (Anas fulvigula) movements in the Texas Chenier Plain Region

As a surrogate species for Strategic Habitat Conservation, the mottled duck (Anas fulgivula) is an indicator species to coastal marsh health and function. Currently, biologists have a relatively poor understanding of regional mottled duck movements. We outfitted adult female mottled ducks with solar satellite transmitters during summer 2009–2011. Movement patterns were measured among years and phenology, in relation to available habitat at the landscape level, and in association to potential disturbance. Movement distances were measured in ArcGIS and then evaluated using analysis of variance for independent variables of year, month, biological time period, and season. Average weekly distances traveled by mottled ducks were relatively short (<5,000m) compared to other waterfowl. Movement occurrence and distance were linked to biological season with longest distances documented during the molt period. Movements also differed among years, with drought conditions associated with longer movement distances. Magnitude of movements may be an indicator of habitat quality for mottled ducks in the Texas Chenier Plain Region. By focusing on providing large freshwater pools and fresh/intermediate marsh during the molt period, managers could positively impact mottled ducks.

Texas↗

Effects of repeated simulated removal activities on feral swine movements and space use

Abundance and distribution of feral swine ( Sus scrofa ) in the USA have increased dramatically during the last 30 years. Effective measures are needed to control and eradicate feral swine populations without displacing animals over wider areas. Our objective was to investigate effects of repeated simulated removal activities on feral swine movements and space use. We analyzed location data from 21 feral swine that we fitted with Global Positioning System harnesses in southern MO, USA. Various removal activities were applied over time to eight feral swine before lethal removal, including trapped-and-released, chased with dogs, chased with hunter, and chased with helicopter. We found that core space-use areas were reduced following the first removal activity, whereas overall space-use areas and diurnal movement distances increased following the second removal activity. Mean geographic centroid shifts did not differ between pre- and post-periods for either the first or second removal activities. Our information on feral swine movements and space use precipitated by human removal activities, such as hunting, trapping, and chasing with dogs, helps fill a knowledge void and will aid wildlife managers. Strategies to optimize management are needed to reduce feral swine populations while preventing enlarged home ranges and displacing individuals, which could lead to increased disease transmission risk and human-feral swine conflict in adjacent areas.

European Journal of Wildlife Research↗

Clinical pathology and assessment of pathogen exposure in southern and Alaskan sea otters

The southern sea otter ( Enhydra lutris nereis ) population in California (USA) and the Alaskan sea otter ( E. lutris kenyoni ) population in the Aleutian Islands (USA) chain have recently declined. In order to evaluate disease as a contributing factor to the declines, health assessments of these two sea otter populations were conducted by evaluating hematologic and/or serum biochemical values and exposure to six marine and terrestrial pathogens using blood collected during ongoing studies from 1995 through 2000. Samples from 72 free-ranging Alaskan, 78 free-ranging southern, and (for pathogen exposure only) 41 debilitated southern sea otters in rehabilitation facilities were evaluated and compared to investigate regional differences. Serum chemistry and hematology values did not indicate a specific disease process as a cause for the declines. Statistically significant differences were found between free-ranging adult southern and Alaskan population mean serum levels of creatinine kinase, alkaline phosphatase, alanine aminotransferase, aspartate aminotransferase, calcium, cholesterol, creatinine, glucose, phosphorous, total bilirubin, blood urea nitrogen, and sodium. These were likely due to varying parasite loads, contaminant exposures, and physiologic or nutrition statuses. No free-ranging sea otters had signs of disease at capture, and prevalences of exposure to calicivirus, Brucella spp., and Leptospira spp. were low. The high prevalence (35%) of antibodies to Toxoplasma gondii in free-ranging southern sea otters, lack of antibodies to this parasite in Alaskan sea otters, and the pathogen's propensity to cause mortality in southern sea otters suggests that this parasite may be important to sea otter population dynamics in California but not in Alaska. The evidence for exposure to pathogens of public health importance (e.g., Leptospira spp., T. gondii ) in the southern sea otter population, and the naïveté of both populations to other pathogens (e.g., morbillivirus and Coccidiodes immitis ) may have important implications for their management and recovery.

Journal of Wildlife Diseases↗

Distribution of summer-habitat for the Indiana bat on the Monongahela National Forest, West Virginia

Hierarchical conservation and management of Indiana bat ( Myotis sodalis ) habitat may benefit from use of species distribution models. White-nose syndrome has caused additional declines for this endangered bat, requiring use of historical presence locations for habitat-related analy- ses. We created random forest presence/pseudo-absence models to assess the distribution and availability of Indiana bat habitat across the 670,000-ha Monongahela National Forest (MNF), West Virginia, USA. We collated historical roost and capture locations, both individually and in combination, to examine impacts of various biotic and abiotic predictors on roosting and foraging habitat of Indiana bats. Our final concordance map suggests that Indiana bat habitat was abundant (37.2% of the MNF) but localized, with predicted suitable areas often associated with edges of dry-calcareous forests. We observed significant variation between models, with the capture-only model independently identifying the greatest amount of potential habitat (47.8%). However, 21.9% of all potential Indiana bat habitat was identified by complete inter-model agreement. Our SDM outputs may assist land managers in identifying avoidance areas and new survey sites (i.e., capture and acoustic sampling) to support forest management activities.

West Viginia↗

Diversity and distribution of white-tailed deer mtDNA lineages in chronic wasting disease (CWD) outbreak areas in southern Wisconsin, USA

Chronic wasting disease (CWD) is a transmissible spongiform encephalopathy affecting North American cervids. Because it is uniformly fatal, the disease is a major concern in the management of white-tailed deer populations. Management programs to control CWD require improved knowledge of deer interaction, movement, and population connectivity that could influence disease transmission and spread. Genetic methods were employed to evaluate connectivity among populations in the CWD management zone of southern Wisconsin. A 576-base-pair region of the mitochondrial DNA of 359 white-tailed deer from 12 sample populations was analyzed. Fifty-eight variable sites were detected within the sequence, defining 43 haplotypes. While most sample populations displayed similar levels of haplotype diversity, individual haplotypes were clustered on the landscape. Spatial clusters of different haplotypes were apparent in distinct ecoregions surrounding CWD outbreak areas. The spatial distribution of mtDNA haplotypes suggests that clustering of the deer matrilineal groups and population connectivity are associated with broad-scale geographic landscape features. These landscape characteristics may also influence the contact rates between groups and therefore the potential spread of CWD; this may be especially true of local disease spread between female social groups. Our results suggest that optimal CWD management needs to be tailored to fit gender-specific dispersal behaviors and regional differences in deer population connectivity. This information will help wildlife managers design surveillance and monitoring efforts based on population interactions and potential deer movement among CWD-affected and unaffected areas.

Wisconsin↗

Population dynamics of bowfin in a south Georgia reservoir: latitudinal comparisons of population structure, growth, and mortality

The objectives of this study were to evaluate the population dynamics of bowfin (Amia calva) in Lake Lindsay Grace, Georgia, and to compare those dynamics to other bowfin populations. Relative abundance of bowfin sampled in 2010 in Lake Lindsay Grace was low and variable (mean&plusmn;SD; 2.7&plusmn;4.7 fish per hour of electrofishing). Total length (TL) of bowfin collected in Lake Lindsay Grace varied from 233&ndash;683 mm. Age of bowfin in Lake Lindsay Grace varied from 0&ndash;5 yr. Total annual mortality (A) was estimated at 68%. Both sexes appeared to be fully mature by age 2 with gonadosomatic index values above 8 for females and close to 1 for males. The majority of females were older, longer, and heavier than males. Bowfin in Lake Lindsay Grace had fast growth up to age 4 and higher total annual mortality than the other populations examined in this study. A chi-square test indicated that size structure of bowfin from Lake Lindsay Grace was different than those of a Louisiana population and two bowfin populations from the upper Mississippi River. To further assess bowfin size structure, we proposed standard length (i.e., TL) categories: stock (200 mm, 8 inches), quality (350 mm, 14 inches), preferred (460 mm, 18 inches), memorable (560 mm, 22, inches), and trophy (710 mm, 28 inches). Because our knowledge of bowfin ecology is limited, additional understanding of bowfin population dynamics provides important insight that can be used in management of bowfin across their distribution.

Georgia↗

Passive and active adaptive management: Approaches and an example

Adaptive management is a framework for resource conservation that promotes iterative learning-based decision making. Yet there remains considerable confusion about what adaptive management entails, and how to actually make resource decisions adaptively. A key but somewhat ambiguous distinction in adaptive management is between active and passive forms of adaptive decision making. The objective of this paper is to illustrate some approaches to active and passive adaptive management with a simple example involving the drawdown of water impoundments on a wildlife refuge. The approaches are illustrated for the drawdown example, and contrasted in terms of objectives, costs, and potential learning rates. Some key challenges to the actual practice of AM are discussed, and tradeoffs between implementation costs and long-term benefits are highlighted.

Journal of Environmental Management↗