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At least 541 records · Page 30Linked to original sources

USGS1993

Disappearance of the cascades frog Rana cascadae at the southern end of its range, California, USA

It has recently become evident that amphibian species in many areas of the world have suffered serious declines. Healthy, seemingly well-protected populations have disappeared for no obvious reason. Data from historic accounts and museum records indicate that the Cascades frog, Rana cascadae , was once abundant at the southern end of its range in the vicinity of Lassen Volcanic National Park, California, USA. We conducted intensive searches at all 16 sites where R. cascadae had previously been recorded in the Lassen area, plus 34 additional sites with suitable habitat. Whereas earlier biologists could sometimes find 40 or more frogs at some of these sites, we were only able to locate two frogs at a single locality. This represents a precipitous decline over a period of <15 years. The decline seems to have been caused by a combination of local factors, including (1) the presence of non-native, predatory fish which have restricted habitat and limited dispersal of frogs; (2) loss of breeding habitat due to a five-year drought; and (3) the gradual loss of open meadows and associated aquatic habitats. The loss of frogs suggests that some common management practices in parks and wilderness areas may be endangering some of the species these areas are intended to protect. Similar local factors may account for amphibian declines reported elsewhere and should be carefully evaluated along with possible global effects.

California↗

USGS2025

Triangulating habitat suitability for the locally extirpated California grizzly bear

Reintroducing locally extirpated wildlife species is often necessary to meet recovery goals. However, because current field data cannot be gathered about these species, efforts to identify suitable habitat are often complicated and controversial. Here we present a case study examining a novel approach for identifying suitable habitat for the locally extirpated brown bear, known as the “grizzly,” in California, USA. Once home to a large population of grizzlies, the last credible sighting of a grizzly in California was in 1924, but recent discussions have explored a reintroduction. To study potential grizzly bear habitat suitability in California, we use a multi-model approach in which we consider three indirect methods, or “analogies,” each of which incorporates both environmental and social variables. In the “historical analogy,” we used a unique record of human encounters and museum specimens to build a habitat model of grizzlies in California 150 years ago. In the “geographic analogy,” we used data about contemporary brown bears in Europe and North America to identify potential suitable habitat in California. In the “taxonomic analogy,” we examined data from other large carnivores currently extant in California to draw conclusions about grizzlies. Because these methods yield varying results, we adopt a process known in the social sciences as “triangulation” to compare them. We show that a triangulation approach can improve our understanding of potential suitable habitat, clarifying the strengths and weaknesses of various methods and producing robust yet conservative estimates. Our findings suggest that large areas of suitable habitat for grizzlies exist in California. However, we note that place-based social science research and long-term investment in co-existence would be necessary to maintain suitability. The “analogy and triangulation” approach demonstrates the value of multi-model approaches for habitat suitability, especially for reintroductions.

California↗

USGS2025

Population genomics of recovery and extinction in Hawaiian honeycreepers

Native Hawaiian forest birds are experiencing an unprecedented extinction crisis. In particular, the iconic Hawaiian honeycreeper radiation has declined to just 17 out of ∼60 species remaining, most threatened with extinction due to avian malaria. Here, we investigate the genomic signatures of these declines in three honeycreeper species: the critically endangered ʻakikiki ( Oreomystis bairdi ) and ʻakekeʻe ( Loxops caeruleirostris ) and the extinct poʻouli ( Melamprosops phaeosoma ). Surprisingly, we find that Hawaiian honeycreepers, even the last known po‘ouli individual, maintain high heterozygosity compared with other island birds, reflecting historically large population sizes. This high heterozygosity may contribute to an elevated impact of inbreeding depression, as evidenced by reduced survival and reproductive success among highly inbred ‘akikiki. Demographic analysis revealed that recent precipitous declines in ‘akikiki and ‘akekeʻe coincide with the spread of avian malaria in the late 20 th century, consistent with malaria being the primary driver of population collapse. Using predictive population viability modeling, we explore potential recovery scenarios for ʻakekeʻe, which has recently declined below 100 individuals in the wild. Our models predict that, under current conditions, ‘akekeʻe is likely to go extinct in the near future. However, if mosquito control campaigns are effective at reducing malaria, recovery can still occur. These findings emphasize the urgency of ongoing mosquito control efforts, demonstrating hope for a species nearing the brink of extinction. More broadly, our study provides a detailed examination of genomic diversity, inbreeding depression, and extinction risk in a collapsing adaptive radiation, with implications for conservation of other endangered island species.

Hawaii↗

USGS2000

Historical forest patterns of Oregon's central Coast Range

To describe the composition and pattern of unmanaged forestland in Oregon's central Coast Range, we analyzed forest conditions from a random sample of 18 prelogging (1949 and earlier) landscapes. We also compared the amount and variability of old forest (conifer-dominated stands > 53 cm dbh) in the prelogging landscapes with that in the current landscapes. Sixty-three percent of the prelogging landscape comprised old forest, approximately 21% of which also had a significant (> 20% cover) hardwood component. The proportions of forest types across the 18 prelogging landscapes varied greatly for both early seral stages (cv = 81194) and hardwoods (cv = 127) and moderately for old forest (cv = 39). With increasing distance from streams, the amount of hardwoods and nonforest decreased, whereas the amount of seedling/sapling/pole and young conifers increased. The amount of old forest was significantly greater (p < 0.002) in prelogging forests than in current landscapes. Old-forest patterns also differed significantly (p < 0.015) between prelogging and current landscapes; patch density, coefficient of variation of patch size, edge density, and fragmentation were greater in current landscapes and mean patch size, largest patch size, and core habitat were greater in prelogging forests. Generally, old-forest landscape pattern variables showed a greater range in prelogging landscapes than in current landscapes. Management strategies designed to increase the amount of old forest and the range in landscape patterns would result in a landscape more closely resembling that found prior to intensive logging. (C) 2000 Elsevier Science Ltd.

Biological Conservation↗

USGS2018

Exotic predators may threaten another island ecosystem: A comprehensive assessment of python and boa reports from the Florida Keys

Summarizing historical records of potentially invasive species increases understanding of propagule pressure, spatiotemporal trends, and establishment risk of these species. We compiled records of non-native pythons and boas from the Florida Keys, cross-referenced them to eliminate duplicates, and categorized each record’s credibility. We report on 159 observations of six python and boa species in the Florida Keys over the past 17 years. Burmese pythons (Python bivittatus), boa constrictors (Boa constrictor), and ball pythons (Python regius) are the most frequently reported species, but credible records of three additional species were also reported. Among the most notable records, we report on three hatchling and multiple reproductive Burmese pythons captured on North Key Largo since 2016, indicating that the species is now established on that island. The expanding mainland Burmese python population and ongoing python and boa introductions via pet and cargo pathways are likely to keep propagule pressure high in coming years. Both effective public outreach to solicit reporting of sightings and effective early detection and rapid response networks may help to prevent further establishment and associated ecological impacts of python and boa species in the Florida Keys.

Florida↗

USGS2025

Quantifying sea otter abundance, distribution, habitat use, and foraging intake in Cook Inlet, Alaska

Following near extirpation from the fur trade, sea otters ( Enhydra lutris ) have returned to occupy lower Cook Inlet since the 1950s, or earlier, with numbers increasing to ~11,000 and ~9,000 on the west and east side, respectively, by 2017. Northward range expansion on the west side has been negligible for decades with few animals found north of Kamishak Bay, while northward expansion on the east side has been more pronounced in recent decades. The reasons for these contrasting distribution patterns are not certain. Possible explanations for lack of expansion on the west side included 1) poor sea otter habitat north of Kamishak Bay; 2) adequate habitat north of Kamishak Bay but no incentive for sea otters to move north because of abundant food in Kamishak Bay, and/or sea otters discouraged from moving north of Kamishak Bay; 3) seasonal ice formation; or 4) seasonal presence of killer whales. This project was designed to document current sea otter abundance and distribution in lower Cook Inlet, including seasonal variation, and evaluate drivers of habitat use and foraging conditions, including how these overlap with Bureau of Ocean Energy Management (BOEM) Lease Sale blocks. We found that the probability of sea otter presence in lower Cook Inlet was significantly related to depth and distance from shore with the highest probabilities of sea otter presence in areas ~7–8 kilometers (km) from shore in water ~20–30 meters (m) deep. Historical survey data suggest sea otter distribution has not changed dramatically since 2002, and while we detected significant seasonal changes including due to presence of heavy sea ice, the seasonal changes were modest and primarily related to locations with consistent winter ice formation on the west side of lower Cook Inlet. Overall, throughout the year, sea otters appeared to be utilizing most of the habitat within the 40-m depth contour on the east side of lower Cook Inlet, including Kachemak Bay. Sea otters on the west side reside largely within Kamishak Bay. Because of the shallow bathymetry of lower Cook Inlet, sea otters consistently occurred farther offshore than in many other areas of Alaska. The presence of sea otters, including females with pups, in these offshore waters indicates that sea otters can forage productively in these open water areas. Importantly, we documented that sea otters, including females with pups, occurred in most of the eastern BOEM lease blocks including the original Lease Sale 244 blocks 7064, 7114, 6162, 6310, 6360, 6410, 6458 and 6457. The relinquishments for these 7 leases were effective September 17, 2024: OCS-Y-02434 (block # 7064), OCS-Y-02435 (7114), OCS-Y-02436 (6162), OCS-Y-02438 (6357), OCS-Y-02442 (6407), OCS-Y02446 (6457), OCS-Y-02447 (6458) https://www.boem.gov/sites/default/files/documents/environment/Map%20of%20Active%20Leases%20 Cook%20Inlet%20OCS_0.pdf Regarding differential northward expansion on the east and west side of lower Cook Inlet, we found that wind and water circulation patterns make winter sea ice more prominent on the west side, but this had minimal effects on sea otter distribution. In addition, although there have been observations of killer whale ( Orcinus orca ) predation on sea otters in Cook Inlet, we did not see behavioral or distributional evidence that it was prevalent enough to have strong effects on sea otter habitat use. Benthic surveys using a remotely operated vehicle (ROV) indicated that epibenthic substrate and biological community heterogeneity differed between areas with and without otters, suggesting that these factors may explain the current distribution of otters within lower Cook Inlet. However, ROV surveys cannot assess infaunal prey abundance, making assessments of the role of prey availability difficult. The existence of a healthy Pacific razor clam ( Siliqua patula ) fishery along western lower Cook Inlet along the Lake Clark coast north of Kamishak Bay suggests there may still be a resource base for eventual expansion of sea otters into this area. Our shore-based forage observations indicated that sea otters exist near carrying capacity densities relative to nearshore prey resources. However, our distribution model suggests the bulk of the population lives offshore beyond our ability to observe their feeding activity. The fact that sea otters are a consistent presence in offshore areas suggests that prey resources in these areas were relatively abundant in comparison to nearshore prey resources, making foraging in offshore areas, with water depths of 0–40 m, energetically profitable. Prey types in these offshore areas of lower Cook Inlet likely included epifauna such as crabs and large urchins, in addition to infaunal clams based on the soft substrate habitat types that characterize lower Cook Inlet. Collectively, our results suggest that sea otters occupy most areas of lower Cook Inlet with appropriate benthic habitat types and prey resources, which includes areas within BOEM Lease Sale blocks. With the exception of the Lake Clark coast, sea otters may be approaching a food- and habitat-limited distribution and carrying capacity, suggesting that the current status of sea otters in lower Cook Inlet is likely to remain similar in the absence of significant changes to prey, habitat, predation, or anthropogenic disturbance.

Alaska↗

USGS1999

Sedimentation and bathymetry changes in Suisun Bay: 1867-1990

Understanding patterns of historical erosion and deposition in San Francisco Bay is crucial in managing such issues as locating deposits of sediment-associated contaminants, and the restoration of wetland areas. These problems were addressed by quantitatively examining historical hydrographic surveys. The data from five hydrographic surveys, made from 1867 to 1990, were analyzed using surface modeling software to determine long-term changes in the sediment system of Suisun Bay and surrounding areas. A surface grid displaying the bathymetry was created for each survey period, and the bathymetric change between survey periods was computed by differencing these grids. Patterns and volumes of erosion and deposition, sedimentation rates, and shoreline changes were derived from the resulting change grids. Approximately 115 million cubic meters of sediment were deposited in the Suisun Bay area from 1867 to 1887, the majority of which was debris from hydraulic gold mining in the Sierra Nevada. Just under two-thirds of the area of the study site was depositional during this time period, while less than one-third of it was erosional. However, over the entire study period, the Suisun Bay area lost sediment, indicating that a large amount of erosion occurred from1887 to 1990. In fact, this area lost sediment during each of the change periods between 1887 and 1990. Because erosion and deposition are processes that may vary over space and time, further analyses of more specific areas were done to examine spatial and temporal patterns. The change in the Suisun Bay area from being a largely depositional environment to an erosional one is the result of a combination of several factors. These factors include the regulation and subsequent cessation of hydraulic mining practices, and the increase in flood control and water distribution projects that have decreased sediment supply to the bay by reducing the frequency and duration of peak flow conditions. Another pattern shown by the changing bathymetry is the substantial decrease in the area of tidal flat (defined in this study as the area between mean lower low water and the shoreline), particularly in Grizzly Bay and Honker Bay. These tidal flats are important to the bay ecosystem, providing stability and biologic diversity.

California↗

USGS2002

Avian species richness in different-aged stands of riparian forest along the middle Rio Grande, New Mexico

Riparian forests are important for maintaining vertebrate species richness in the southwestern United States, but they have become restricted in distribution due to both historical and current management practices. In order to counteract continued loss of this habitat, several mitigation programs were developed in the middle Rio Grande Valley of New Mexico. Three areas ranging from 50 to 140 ha were revegetated with native trees using pole planting and cattle exclosures, and changes in vegetation structure were quantified after 2, 3, and 5 years of growth. As expected, the older site contained the most heterogeneous mix of plant species and the greatest structural diversity. We compared year-round avian use of the revegetated sites with a mature cottonwood forest site of approximately 30 years of age. As the revegetated sites matured and salient habitat features changed, the population dynamics of individual avian species and patterns of guild structure varied. The older revegetated sites showed a greater similarity to the mature cottonwood site, suggesting that reclamation efforts established quality riparian habitats for birds in as little as 5 years. The revegetated sites appeared especially important for Neotropical-migrant birds. We suggest that a mosaic of riparian woodlands containing mixtures of native tree and shrub species of different size classes is necessary to maintain avian species richness in the middle Rio Grande drainage, and probably throughout the southwestern United States.

New Mexico↗

USGS2004

Seafloor habitat mapping and classification in Glacier Bay, Alaska: Phase 1 & 2 1996-2004

Glacier Bay is a diverse fjord ecosystem with multiple sills, numerous tidewater glaciers and a highly complex oceanographic system. The Bay was completely glaciated prior to the 1700’s and subsequently experienced the fastest glacial retreat recorded in historical times. Currently, some of the highest sedimentation rates ever observed occur in the Bay, along with rapid uplift (up to 2.5 cm/year) due to a combination of plate tectonics and isostatic rebound. Glacier Bay is the second deepest fjord in Alaska, with depths over 500 meters. This variety of physical processes and bathymetry creates many diverse habitats within a relatively small area (1,255 km 2 ). Habitat can be defined as the locality, including resources and environmental conditions, occupied by a species or population of organisms (Morrison et al 1992). Mapping and characterization of benthic habitat is crucial to an understanding of marine species and can serve a variety of purposes including: understanding species distributions and improving stock assessments, designing special management areas and marine protected areas, monitoring and protecting important habitats, and assessing habitat change due to natural or human impacts. In 1996, Congress recognized the importance of understanding benthic habitat for fisheries management by reauthorizing the Magnuson-Stevens Fishery Conservation and Management Act and amending it with the Sustainable Fisheries Act (SFA). This amendment emphasizes the importance of habitat protection to healthy fisheries and requires identification of essential fish habitat in management decisions. Recently, the National Park Service’s Ocean Stewardship Strategy identified the creation of benthic habitat maps and sediment maps as crucial components to complete basic ocean park resource inventories (Davis 2003). Glacier Bay National Park managers currently have very limited knowledge about the bathymetry, sediment types, and various marine habitats of ecological importance in the Park. Ocean floor bathymetry and sediment type are the building blocks of marine communities. Bottom type and shape affects the kinds of benthic communities that develop in a particular environment as well as the oceanographic conditions that communities are subject to. Accurate mapping of the ocean floor is essential for park manager’s understanding of existing marine communities and will be important in assessing human induced changes (e.g., vessel traffic and commercial fishing), biological change (e.g., rapid sea otter recolonization), and geological processes of change (e.g., deglaciation). Information on animal-habitat relationships, particularly within a marine reserve framework, will be valuable to agencies making decisions about critical habitats, marine reserve design, as well as fishery management. Identification and mapping of benthic habitat provides National Park Service mangers with tools to increase the effectiveness of resource management. The primary objective of this project is to investigate the geological characteristics of the biological habitats of halibut, Dungeness crab, king crab, and Tanner crab within Glacier Bay National Park. Additionally, habitat classification of shallow water regions of Glacier Bay will provide crucial information on the relationship between benthic habitat features and the abundance of benthic prey items for a variety of marine predators, including sea ducks, the rapidly increasing population of sea otters, and other marine mammals.

Alaska↗

USGS2016

A review of the relationships between drought and forest fire in the United States

The historical and pre-settlement relationships between drought and wildfire are well documented in North America, with forest fire occurrence and area clearly increasing in response to drought. There is also evidence that drought interacts with other controls (forest productivity, topography, fire weather, management activities) to affect fire intensity, severity, extent, and frequency. Fire regime characteristics arise across many individual fires at a variety of spatial and temporal scales, so both weather and climate—including short- and long-term droughts—are important and influence several, but not all, aspects of fire regimes. We review relationships between drought and fire regimes in United States forests, fire-related drought metrics and expected changes in fire risk, and implications for fire management under climate change. Collectively, this points to a conceptual model of fire on real landscapes: fire regimes, and how they change through time, are products of fuels and how other factors affect their availability (abundance, arrangement, continuity) and flammability (moisture, chemical composition). Climate, management, and land use all affect availability, flammability, and probability of ignition differently in different parts of North America. From a fire ecology perspective, the concept of drought varies with scale, application, scientific or management objective, and ecosystem.

Global Change Biology↗

USGS2018

Accounting for location uncertainty in azimuthaltelemetry data improves ecological inference

Background Characterizing animal space use is critical for understanding ecological relationships. Animal telemetry technology has revolutionized the fields of ecology and conservation biology by providing high quality spatial data on animal movement. Radio-telemetry with very high frequency (VHF) radio signals continues to be a useful technology because of its low cost, miniaturization, and low battery requirements. Despite a number of statistical developments synthetically integrating animal location estimation and uncertainty with spatial process models using satellite telemetry data, we are unaware of similar developments for azimuthal telemetry data. As such, there are few statistical options to handle these unique data and no synthetic framework for modeling animal location uncertainty and accounting for it in ecological models. We developed a hierarchical modeling framework to provide robust animal location estimates from one or more intersecting or non-intersecting azimuths. We used our azimuthal telemetry model (ATM) to account for azimuthal uncertainty with covariates and propagate location uncertainty into spatial ecological models. We evaluate the ATM with commonly used estimators (Lenth (1981) maximum likelihood and M-Estimators) using simulation. We also provide illustrative empirical examples, demonstrating the impact of ignoring location uncertainty within home range and resource selection analyses. We further use simulation to better understand the relationship among location uncertainty, spatial covariate autocorrelation, and resource selection inference. Results We found the ATM to have good performance in estimating locations and the only model that has appropriate measures of coverage. Ignoring animal location uncertainty when estimating resource selection or home ranges can have pernicious effects on ecological inference. Home range estimates can be overly confident and conservative when ignoring location uncertainty and resource selection coefficients can lead to incorrect inference and over confidence in the magnitude of selection. Furthermore, our simulation study clarified that incorporating location uncertainty helps reduce bias in resource selection coefficients across all levels of covariate spatial autocorrelation. Conclusion The ATM can accommodate one or more azimuths when estimating animal locations, regardless of how they intersect; this ensures that all data collected are used for ecological inference. Our findings and model development have important implications for interpreting historical analyses using this type of data and the future design of radio-telemetry studies.

Movement Ecology↗

USGS2005

Forestry practices and aquatic biodiversity: Fish

In the Pacific Northwest, fish communities are found in a diverse array of aquatic habitats ranging from the large coastal rivers of the temperate rainforests, to the fragmented and sometimes ephemeral streams of the xeric interior basins, and high-elevation streams and lakes in the mountainous areas (Rieman et al. 2003). Only high-elevation lakes and streams isolated above barriers to fish passage remained historically devoid of fish because they were never invaded following Pleistocene glaciation (Smith 1981). Despite this widespread distribution and once great population abundances, taxonomic diversity of fishes in these forested systems is naturally lower than in aquatic habitats in the eastern U.S. (Reeves, Bisson, and Dambacher 1998). Interactions among factors that influence species richness in aquatic systems (e.g., basin size, long-term stability of habitat, and barriers to colonization; Smith 1981) continue to influence the occurrence and persistence of fishes in these systems today. Consequently, the larger low-elevation rivers and estuaries support the greatest variety of fish species. In the high-elevation tributary streams, fish communities are less complex because these aquatic systems were less climatically and geologically stable, and fish populations were smaller and more prone to local extirpation. Furthermore, barriers to fish passage inhibited dispersal and colonization (Smith 1981). Streams in forested landscapes generally support salmon and trout, Oncorhynchus spp., whitefish Prosopium spp., sculpins Cottus spp., suckers Catostomus spp., and minnows (Cyprinidae), but in some of the colder streams, chars (e.g., Salvelinus confluentus and Salvelinus malma ) and lampreys (Petromyzontidae)may also occur (Rieman et al. 2003). Although biodiversity defined in terms of fish species richness is low in the Pacific Northwest, intraspecific variability is high, and polytypic fish species are common in the diverse aquatic habitats of the region. For example, the salmonids in the coastal rivers and streams, and the larger interconnected streams, rivers, and lakes of the interior exhibit a variety of ecotypes and migratory life histories (Healey 1986; Trotter 1989; Larson and McIntire 1993; Northcote 1997). This life-history variation appears to be associated with adaptation to spatial and temporal variation in environment (e.g., Schaffer and Elson 1975; Carl and Healey 1984; Beacham and Murray 1987), and there is some evidence of the genetic heritability of life-history traits (Carl and Healey 1984; Gharrett and Smoker 1993; Hankin, Nicholas, and Downey 1993). Persistence of any level of biological organization (e.g., life-history type, population, metapopulation, subspecies, species, community) is related to the interaction of environmental and biological components, and intraspecific diversity is a means of spreading risk ( sensu den Boer 1968) of extirpation in dynamic environments (Gresswell 1999). Unfortunately, despite the broad distribution and extensive intraspecific diversity, persistence of native fishes is uncertain in the Pacific Northwest. Many populations of anadromous salmonids, once synonymous with vigorous biological communities throughout the region, are threatened with extinction (Nehlsen, Williams, and Lichatowich 1991; Frissell 1993; Thurow, Lee, and Rieman 1997). Furthermore, over half of the native taxa in the Columbia River Basin are either listed under the Endangered Species Act, are being considered for listing, or are deemed sensitive by the management agencies (Lee et al. 1997; Thurow, Lee, and Rieman 1997). Potamodromous species like bull trout Salvelinus confluentus are estimated to occur as strong populations in less than 5% of their potential range (Rieman, Lee, and Thurow 1997). Although not currently listed under the endangered species list, the coastal cutthroat trout Oncorhynchus clarki is managed as a sensitive species in Oregon and California (Hall, Bisson, and Gresswell 1997). Native non-game fishes have rarely been monitored, but populations of species such as large-scale suckers ( Catostomus macrocheilus ), squawfish ( Ptychocheilus umpquae ), and Pacific lamprey ( Lampetra tridentata ) also are declining in some drainages (Oregon Department of Fish and Wildlife, unpublished data).

Pacific Northwest↗

USGS2008

Genetic structure along an elevational gradient in Hawaiian honeycreepers reveals contrasting evolutionary responses to avian malaria

Background. The Hawaiian honeycreepers (Drepanidinae) are one of the best-known examples of an adaptive radiation, but their persistence today is threatened by the introduction of exotic pathogens and their vector, the mosquito Culex quinquefasciatus. Historically, species such as the amakihi (Hemignathus virens), the apapane (Himatione sanguinea), and the iiwi (Vestiaria coccinea) were found from the coastal lowlands to the high elevation forests, but by the late 1800's they had become extremely rare in habitats below 900 m. Recently, however, populations of amakihi and apapane have been observed in low elevation habitats. We used twelve polymorphic microsatellite loci to investigate patterns of genetic structure, and to infer responses of these species to introduced avian malaria along an elevational gradient on the eastern flanks of Mauna Loa and Kilauea volcanoes on the island of Hawaii. Results. Our results indicate that amakihi have genetically distinct, spatially structured populations that correspond with altitude. We detected very few apapane and no iiwi in low-elevation habitats, and genetic results reveal only minimal differentiation between populations at different altitudes in either of these species. Conclusion. Our results suggest that amakihi populations in low elevation habitats have not been recolonized by individuals from mid or high elevation refuges. After generations of strong selection for pathogen resistance, these populations have rebounded and amakihi have become common in regions in which they were previously rare or absent. ?? 2008 Eggert et al; licensee BioMed Central Ltd.

BMC Evolutionary Biology↗

USGS2023

A highly-contiguous and annotated genome assembly of the Lesser Prairie-Chicken (Tympanuchus pallidicinctus).

The Lesser Prairie-Chicken ( Tympanuchus pallidicinctus ; LEPC) is an iconic North American prairie grouse, renowned for ornate and spectacular breeding season displays. Unfortunately, the species has disappeared across much of its historical range, with corresponding precipitous declines in contemporary population abundance, largely due to climatic and anthropogenic factors. These declines led to a 2022 US Fish and Wildlife decision to identify and list two distinct population segments (DPSs; i.e., northern and southern DPSs) as threatened or endangered under the 1973 Endangered Species Act. Herein, we describe an annotated reference genome that was generated from a LEPC sample collected from the southern DPS. We chose a representative from the southern DPS because of the potential for introgression in the northern DPS, where some populations hybridize with the Greater Prairie-Chicken ( Tympanuchus cupido ). This new LEPC reference assembly consists of 206 scaffolds, an N50 of 45 Mb, and 15,563 predicted protein-coding genes. We demonstrate the utility of this new genome assembly by estimating genome-wide heterozygosity in a representative LEPC and in related species. Heterozygosity in a LEPC sample was 0.0024, near the middle of the range (0.0003–0.0050) of related species. Overall, this new assembly provides a valuable resource that will enhance evolutionary and conservation genetic research in prairie grouse.

Genome Biology and Evolution↗

USGS2023

Carbon dioxide (CO2) gas and eDNA monitoring as tools for eradicating invasive fish from anchialine pools in Hawai‘i

Invasive fish can profoundly affect communities they invade. In Hawai‘i, invasive fishes have become established in many anchialine pools, threatening the persistence of resident invertebrates, including several endangered species. Tools to eradicate invasive fishes from these pools are lacking. This study tested the efficacy of carbon dioxide (CO2) gas diffused into anchialine pool water as a method to eradicate invasive Mozambique tilapia (Oreochromis mossambicus), guppies (Poecilia reticulata), and western mosquitofish (Gambusia affinis). We first conducted aquarium trials to identify how these fishes were affected by elevated CO2 and the concomitant reduction in pH. We then carried out field trials in pools containing these fish in one pool each at two national historical parks on the Island of Hawai‘i during July 2021–January 2022. We also developed environmental DNA (eDNA) protocols to detect fish that may have survived CO2 treatments. The effect of CO2 on fish behavior varied among species; at pH 5.3 (CO2 = 255 mg/L) for tilapia and 5.0 (CO2 = 488 mg/L) for tilapia, guppies, and mosquitofish, all generally lost their ability to swim, showed slow or no gill movement, and altered their position in the water column. No tilapia survived the trials (n = 4 and 6 individuals at pH 5.3 and 5.0, respectively). In contrast, 41.7% (n = 12) of adult guppies and 66.7% (n = 12) of adult mosquitofish survived treatment at pH 5.0. In the field we were unable to reduce anchialine pool water pH below 5.7. Regardless, we were able to eradicate tilapia from one pool over four sequential treatments. Post-treatment eDNA assessments supported visual surveys, confirming our results. We were not able to eradicate guppies and mosquitofish. Results from this study show that CO2 can be an effective tool for eradicating invasive tilapia from anchialine pools, and post-treatment eDNA assessments can provide managers with a method for evaluating the success of eradication efforts.

Hawaii↗

USGS2020

Benthic habitat is an integral part of freshwater Mysis ecology

Diel vertical migration (DVM) is common in aquatic organisms. The trade‐off between reduced predation risk in deeper, darker waters during the day and increased foraging opportunities closer to the surface at night is a leading hypothesis for DVM behaviour. Diel vertical migration behaviour has dominated research and assessment frameworks for Mysis , an omnivorous mid‐trophic level macroinvertebrate that exhibits strong DVM between benthic and pelagic habitats and plays key roles in many deep lake ecosystems. However, some historical literature and more recent evidence indicate that mysids also remain on the bottom at night, counter to expectations of DVM. We surveyed the freshwater Mysis literature using Web of Science (WoS; 1945–2019) to quantify the frequency of studies on demographics, diets, and feeding experiments that considered, assessed, or included Mysis that did not migrate vertically but remained in benthic habitats. We supplemented our WoS survey with literature searches for relevant papers published prior to 1945, journal articles and theses not listed in WoS, and additional references known to the authors but missing from WoS (e.g. only 47% of the papers used to evaluate in situ diets were identified by WoS). Results from the survey suggest that relatively little attention has been paid to the benthic components of Mysis ecology. Moreover, the literature suggests that reliance on Mysis sampling protocols using pelagic gear at night provides an incomplete picture of Mysis populations and their role in ecosystem structure and function. We summarise current knowledge of Mysis DVM and provide an expanded framework that more fully considers the role of benthic habitat. Acknowledging benthic habitat as an integral part of Mysis ecology will enable research to better understand the role of Mysis in food web processes.

Freshwater Biology↗

USGS2018

Plasticity in physiological condition of female brown bears across diverse ecosystems

Variation in life history strategies facilitates the near global distribution of mammals by expanding realized niche width. We investigated physiological plasticity in the spring body composition of adult female brown bears ( Ursus arctos ) across 4 diverse Alaskan ecosystems. Brown bears are a highly intelligent omnivore with a historic range spanning much of North America, Europe, and Asia. We hypothesized that body mass, fat mass, lean mass, and total caloric content would increase across populations with increasing food resource availability. Throughout their range, brown bears enter a period of torpor during winter months, decreasing their metabolic rate as an adaptation to this period of reduced food availability. They also give birth to and nourish offspring during this time. Due to this specific life history strategy, we further hypothesized that proportional body fat and the proportion of total calories derived from fat would be consistent across populations. Our results supported our first hypothesis: body, fat, and lean masses, and caloric content of bears across populations increased with the quality and abundance of available food. However, the proportional body fat content and proportion of calories from fat differed across populations indicating population-specific strategies to meet the demands of reduced seasonal food availability, offspring production and rearing, and climate as well as some plasticity to respond to environmental change or ecosystem perturbations. Investigations of body condition and energetics benefit from combined assessments of absolute, proportional, and caloric metrics to understand the nuances of brown bear physiological dynamics across and within populations.

Alaska↗

USGS2017

Genetic assessment of the effects of streamscape succession on coho salmon Oncorhynchus kisutch colonization in recently deglaciated streams

Measures of genetic diversity within and among populations and historical geomorphological data on stream landscapes were used in model simulations based on approximate Bayesian computation (ABC) to examine hypotheses of the relative importance of stream features (geomorphology and age) associated with colonization events and gene flow for coho salmon Oncorhynchus kisutch breeding in recently deglaciated streams (50–240 years b.p .) in Glacier Bay National Park (GBNP), Alaska. Population estimates of genetic diversity including heterozygosity and allelic richness declined significantly and monotonically from the oldest and largest to youngest and smallest GBNP streams. Interpopulation variance in allele frequency increased with increasing distance between streams ( r = 0·435, P < 0·01) and was inversely related to stream age ( r = –0·281, P < 0·01). The most supported model of colonization involved ongoing or recent (<10 generations before sampling) colonization originating from large populations outside Glacier Bay proper into all other GBNP streams sampled. Results here show that sustained gene flow from large source populations is important to recently established O. kisutch metapopulations. Studies that document how genetic and demographic characteristics of newly founded populations vary associated with successional changes in stream habitat are of particular importance to and have significant implications for, restoration of declining or repatriation of extirpated populations in other regions of the species' native range.

Alaska↗