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At least 613 records · Page 34Linked to original sources
USGS2024

The LTAR Grazing Land Common Experiment at the Jornada Experimental Range: Old genetics, new precision technologies, and adaptive value chains

Rangelands and the supply chains connected to them are central to the agrifood systems of the Southwestern United States. Local ranchers are simultaneously arid lands managers, herd managers, and marketing managers. To stay in business, they must constantly adapt to unpredictable forage resources and markets while conserving soils and vegetation resources for the long term. As climate warming and drying exacerbate the complexity and difficulty of day-to-day production, producers and policy-makers are seeking alternatives to “business as usual”. To meet this need, the LTAR-Jornada team has developed a package of strategies to help producers adapt to the local and inter-regional challenges. The package includes heritage cattle, precision ranching systems, and adaptive value chains. Five ranches across the Southwest have adopted different combinations of the strategies and are partnering to measure their benefits and drawbacks in real-world conditions. Opportunities for controlled experimentation differ among the ranches, so we use LTAR’s indicator system to assess and compare results. Even as we invest in co-producing knowledge about these three strategies, we recognize that progressive aridification and urbanization of Southwestern rangelands create challenges for which a single “silver bullet” agricultural innovation is unlikely to provide durable solutions. We are learning from our customers and stakeholders about ways to adjust the development of new options.

New Mexico↗
USGS2014

Adverse outcome pathway and risks of anticoagulant rodenticides to predatory wildlife

Despite a long history of successful use, routine application of some anticoagulant rodenticides (ARs) may be at a crossroad due to new regulatory guidelines intended to mitigate risk. An adverse outcome pathway for ARs was developed to identify information gaps and end points to assess the effectiveness of regulations. This framework describes chemical properties of ARs, established macromolecular interactions by inhibition of vitamin K epoxide reductase, cellular responses including altered clotting factor processing and coagulopathy, organ level effects such as hemorrhage, organism responses with linkages to reduced fitness and mortality, and potential consequences to predator populations. Risk assessments have led to restrictions affecting use of some second-generation ARs (SGARs) in North America. While the European regulatory community highlighted significant or unacceptable risk of ARs to nontarget wildlife, use of SGARs in most EU member states remains authorized due to public health concerns and the absence of safe alternatives. For purposes of conservation and restoration of island habitats, SGARs remain a mainstay for eradication of invasive species. There are significant data gaps related to exposure pathways, comparative species sensitivity, consequences of sublethal effects, potential hazards of greater AR residues in genetically resistant prey, effects of low-level exposure to multiple rodenticides, and quantitative data on the magnitude of nontarget wildlife mortality.

Environmental Science & Technology↗
USGS2003

Phylogeography of Canada Geese ( Branta canadensis ) in western North America

Using molecular genetic markers that differ in mode of inheritance and rate of evolution, we examined levels and partitioning of genetic variation for seven nominal subspecies (11 breeding populations) of Canada Geese (Branta canadensis) in western North America. Gene trees constructed from mtDNA control region sequence data show that subspecies of Canada Geese do not have distinct mtDNA. Large- and small-bodied forms of Canada Geese were highly diverged (0. 077 average sequence divergence) and represent monophyletic groups. A majority (65%) of 20 haplotypes resolved were observed in single breeding locales. However, within both large- and small-bodied forms certain haplotypes occurred across multiple subspecies. Population trees for both nuclear (microsatellites) and mitochondrial markers were generally concordant and provide resolution of population and subspecific relationships indicating incomplete lineage sorting. All populations and subspecies were genetically diverged, but to varying degrees. Analyses of molecular variance, nested-clade and coalescence-based analyses of mtDNA suggest that both historical (past fragmentation) and contemporary forces have been important in shaping current spatial genetic distributions. Gene flow appears to be ongoing though at different rates, even among currently recognized subspecies. The efficacy of current subspecific taxonomy is discussed in light of hypothesized historical vicariance and current demographic trends of management and conservation concern.

The Auk↗
USGS2014

Predicting connectivity of green turtles at Palmyra Atoll, central Pacific: a focus on mtDNA and dispersal modelling

Population connectivity and spatial distribution are fundamentally related to ecology, evolution and behaviour. Here, we combined powerful genetic analysis with simulations of particle dispersal in a high-resolution ocean circulation model to investigate the distribution of green turtles foraging at the remote Palmyra Atoll National Wildlife Refuge, central Pacific. We analysed mitochondrial sequences from turtles ( n = 349) collected there over 5 years (2008–2012). Genetic analysis assigned natal origins almost exclusively (approx. 97%) to the West Central and South Central Pacific combined Regional Management Units. Further, our modelling results indicated that turtles could potentially drift from rookeries to Palmyra Atoll via surface currents along a near-Equatorial swathe traversing the Pacific. Comparing findings from genetics and modelling highlighted the complex impacts of ocean currents and behaviour on natal origins. Although the Palmyra feeding ground was highly differentiated genetically from others in the Indo-Pacific, there was no significant differentiation among years, sexes or stage-classes at the Refuge. Understanding the distribution of this foraging population advances knowledge of green turtles and contributes to effective conservation planning for this threatened species.

Journal of the Royal Society Interface↗
USGS2016

Accounting for adaptive capacity and uncertainty in assessments of species’ climate-change vulnerability

Climate change vulnerability assessments (CCVAs) are valuable tools for assessing species’ vulnerability to climatic changes, yet failure to include measures of adaptive capacity and to account for sources of uncertainty may limit their effectiveness. Here, we provide a more comprehensive CCVA approach that incorporates all three elements used for assessing species’ climate change vulnerability: exposure, sensitivity, and adaptive capacity. We illustrate our approach using case studies of two threatened salmonids with different life histories – anadromous steelhead trout ( Oncorhynchus mykiss ) and non-anadromous bull trout ( Salvelinus confluentus ) – within the Columbia River Basin, USA. We identified general patterns of high vulnerability in low-elevation and southernmost habitats for both species. However, vulnerability rankings varied widely depending on the factors (climate, habitat, demographic, and genetic) included in the CCVA and often differed for the two species at locations where they were sympatric. Our findings illustrate that CCVA results are highly sensitive to data inputs and that spatial differences can complicate multi-species conservation. Our results highlight how CCVAs should be considered within a broader conceptual and computational framework for refining hypotheses, guiding research, and comparing plausible scenarios of species’ vulnerability for ongoing and projected climate change.

Columbia River Basin↗
USGS2016

Coral-associated bacterial diversity is conserved across two deep-sea Anthothela species

Cold-water corals, similar to tropical corals, contain diverse and complex microbial assemblages. These bacteria provide essential biological functions within coral holobionts, facilitating increased nutrient utilization and production of antimicrobial compounds. To date, few cold-water octocoral species have been analyzed to explore the diversity and abundance of their microbial associates. For this study, 23 samples of the family Anthothelidae were collected from Norfolk (n = 12) and Baltimore Canyons (n = 11) from the western Atlantic in August 2012 and May 2013. Genetic testing found that these samples comprised two Anthothela species (Anthothela grandiflora and Anthothela sp.) and Alcyonium grandiflorum. DNA was extracted and sequenced with primers targeting the V4-V5 variable region of the 16S rRNA gene using 454 pyrosequencing with GS FLX Titanium chemistry. Results demonstrated that the coral host was the primary driver of bacterial community composition. Al. grandiflorum, dominated by Alteromonadales and Pirellulales had much higher species richness, and a distinct bacterial community compared to Anthothela samples. Anthothela species (A. grandiflora and Anthothela sp.) had very similar bacterial communities, dominated by Oceanospirillales and Spirochaetes. Additional analysis of core-conserved bacteria at 90% sample coverage revealed genus level conservation across Anthothela samples. This core included unclassified Oceanospirillales, Kiloniellales, Campylobacterales, and genus Spirochaeta. Members of this core were previously recognized for their functional capabilities in nitrogen cycling and suggest the possibility of a nearly complete nitrogen cycle within Anthothela species. Overall, many of the bacterial associates identified in this study have the potential to contribute to the acquisition and cycling of nutrients within the coral holobiont.

Norfolk Canyon; Baltimore Canyon↗
USGS2015

Improving conservation outcomes with a new paradigm for understanding species’ fundamental and realized adaptive capacity

Worldwide, many species are responding to ongoing climate change with shifts in distribution, abundance, phenology, or behavior. Consequently, natural-resource managers face increasingly urgent conservation questions related to biodiversity loss, expansion of invasive species, and deteriorating ecosystem services. We argue that our ability to address these questions is hampered by the lack of explicit consideration of species’ adaptive capacity (AC). AC is the ability of a species or population to cope with climatic changes and is characterized by three fundamental components: phenotypic plasticity, dispersal ability, and genetic diversity. However, few studies simultaneously address all elements; often, AC is confused with sensitivity or omitted altogether from climate-change vulnerability assessments. Improved understanding, consistent definition, and comprehensive evaluations of AC are needed. Using classic ecological-niche theory as an analogy, we propose a new paradigm that considers fundamental and realized AC: the former reflects aspects inherent to species, whereas the latter denotes how extrinsic factors constrain AC to what is actually expressed or observed. Through this conceptualization, we identify ecological attributes contributing to AC, outline areas of research necessary to advance understanding of AC, and provide examples demonstrating how the inclusion of AC can better inform conservation and natural-resource management.

Conservation Letters↗
USGS2024

A phylogeographical study of the discontinuously distributed Harlequin Duck (Histrionicus histrionicus)

Species distributions are often indicative of historical biogeographical events and contemporary spatial biodiversity patterns. The Harlequin Duck Histrionicus histrionicus is a sea duck of conservation concern that has a disjunct distribution, with discrete portions of its range associated with northern Pacific and Atlantic Ocean basins. Movement data indicate migratory connectivity within regions of each ocean basin but not cross-continent dispersal, suggesting that genetic structuring could exist at multiple spatial scales. Little is known regarding the impacts of past vicariance events on the species phylogeographical structure and historical demography, or rates of gene flow at different spatial scales. We used data from microsatellite loci and mitochondrial DNA (mtDNA) sequences to quantify levels of genetic diversity within, and the extent of spatial genetic differentiation among locations sampled at multiple spatial scales across the species range. Samples were collected at nonbreeding locations, which represent groupings appropriate for characterizing genetically differentiated subgroups at regional and continental scales. Collectively, genetic data and coalescence modelling suggested that individuals colonized regions currently occupied within both ocean basins in the Holocene from a single refuge in the Atlantic. Further, it seems likely there was secondary contact with lineages derived from populations in Asia, based on the shallow species-wide mtDNA phylogeny and high incidence of recently derived private mtDNA haplotypes. Estimates of inter-location variance in microsatellite allele and mtDNA haplotype frequency were moderate and significant between western (Pacific – North America) and eastern (Atlantic – North America, Greenland and Iceland) ocean basins and among sampling groups within each ocean basin. Genetic differentiation among sampling groups was particularly evident at the species distributional margins in the Atlantic (Iceland) and the Pacific (Shemya Island) Ocean basins. Coalescent modelling results suggest that contemporary spatial genetic patterns in the species arose through the combined influences of secondary contact, shared ancestry and gene flow after the last glacial maxima.

Ibis↗
USGS2005

Individual-based modeling of ecological and evolutionary processes

Individual-based models (IBMs) allow the explicit inclusion of individual variation in greater detail than do classical differential-equation and difference-equation models. Inclusion of such variation is important for continued progress in ecological and evolutionary theory. We provide a conceptual basis for IBMs by describing five major types of individual variation in IBMs: spatial, ontogenetic, phenotypic, cognitive, and genetic. IBMs are now used in almost all subfields of ecology and evolutionary biology. We map those subfields and look more closely at selected key papers on fish recruitment, forest dynamics, sympatric speciation, metapopulation dynamics, maintenance of diversity, and species conservation. Theorists are currently divided on whether IBMs represent only a practical tool for extending classical theory to more complex situations, or whether individual-based theory represents a radically new research program. We feel that the tension between these two poles of thinking can be a source of creativity in ecology and evolutionary theory.

Annual Review of Ecology, Evolution, and Systemati↗
USGS2022

Caretta caretta (Loggerhead Sea Turtle) nesting exchange

The Northwest Atlantic population of Loggerhead Sea Turtles ( Caretta caretta ) is one of the largest C. caretta populations in the world and is listed as threatened. This population was divided into five genetically distinct subpopulations, including the Northern Gulf of Mexico (NGoM) subpopulation (Shamblin et al. 2017 Mar. Bio. 164:138). Across the NGoM, the majority of C. caretta nesting occurs in Franklin and Gulf Counties, Florida, USA (Florida Fish and Wildlife Conservation Commission, https://myfwc.com/research/wildlife/sea-turtles/nesting/nesting-atlas/). Few C. caretta nests are documented on Texas, USA, beaches and as such, less is known about the individuals that nest in Texas (see Shaver et al. 2020 Front. Mar. Sci. 7:1, Frandsen et al. 2020 Herp. Review 51:825) as compared to those that nest on beaches in the eastern part of the range (Lamont et al. 2014 Mar. Bio. 161:2659). Although C. caretta individuals have been tracked to Texas from nesting beaches throughout the Southeastern USA (Hart et al. 2014, PLoS One, 9), movements of C. caretta away from Texas beaches are rare. Here we detail the exchange of an adult female C. caretta that emerged and was tagged on the beach in Texas and then subsequently documented nesting in Northwest Florida.

Texas↗
USGS2026

Line transect distance sampling and genetic analyses reveal a small but genetically diverse coastal Gopher Tortoise (Gopherus polyphemus) population

Gopher Tortoises inhabit coastal systems, including barrier islands, across the southeastern U.S. St. Vincent National Wildlife Refuge is an uninhabited barrier island located off the coast of northwestern Florida. Although tortoises have been observed on the island, no information is available on the status of the population. We conducted a line transect distance sampling survey to evaluate the Gopher Tortoise population on St. Vincent Island. Additionally, we collected samples for genetic analyses from 11 individual tortoises captured opportunistically and via bucket traps on the island and 15 tortoises captured at nearby mainland sites. Surveys covered approximately 43% of the sampling frame and resulted in 55 burrows, 28 of which were occupied. The abundance estimate for the island was 52 tortoises (95% confidence interval [CI] = 27–100) and the density was relatively low at 0.071 tortoises/ha (95% CI = 0.037–0.136). Genetic analyses of two mtDNA markers identified a new haplotype unique to St. Vincent Island and another three haplotypes previously found across the southeastern U.S. The genetic composition of Gopher Tortoises on St. Vincent Island is representative of the entire southeastern U.S. but most closely aligns with tortoise populations east of the Apalachicola-Chattahoochee River system. Although the tortoise population on this island is small, the extent of seemingly appropriate habitat on the island and the genetic diversity of the population suggests the potential for growth with added management intervention.

Florida↗
USGS2003

A conservation plan for native fishes of the Lower Colorado River

The native fish fauna of the lower Colorado River, in the western United States, includes four “big-river” fishes that are federally listed as endangered. Existing recovery implementation plans are inadequate for these critically imperiled species. We describe a realistic, proactive management program founded on demographic and genetic principles and crafted to avoid potential conflicts with nonnative sport fisheries. In this program, native species would breed and their progeny grow in isolated, protected, off-channel habitats in the absence of nonnative fishes. Panmictic adult populations would reside in the main channel and connected waters, exchanging reproductive adults and repatriated subadults with populations occupying isolated habitats. Implementation of the plan would greatly enhance recovery potential of the four listed fishes.

BioScience↗
USGS2022

Minimizing extinction risk in the face of uncertainty: Developing conservation strategies for 2 rapidly declining forest bird species on Kaua‘i Island

Many species around the world are declining precipitously as a result of multiple threats and changing climate. Managers tasked with protecting species often face difficult decisions in regard to identifying which threats should be addressed, given limited resources and uncertainty in the success of any identified management action. On Kaua‘i Island, Hawai‘i, USA, forest bird species have experienced accelerated declines over the last 20 years, and 2 species, the ‘akikiki ( Oreomystis bairdi ) and ‘akeke‘e ( Loxops caeruleirostris ), are now at the brink of extinction. Both species face multiple threats, and managers face difficult decisions on whether to mitigate threats in the wild, establish a captive population as insurance against extinction, translocate birds to novel locations, or some combination of these actions. Each set of actions (alternatives) would require substantial resources with considerable uncertainty in success. In 2014, we brought together 14 experts representing biologists and managers familiar with the species and island to develop a conservation strategy under a structured decision making (SDM) framework, an approach for making complex decisions under uncertainty. The group's challenge was to identify a set of alternatives that reduces the risk of extinction, set the foundation for one or more genetically viable, reproducing, stable to increasing populations in 10 years, and promote conditions for long-term persistence in the wild. Multiple alternatives were evaluated, via expert judgement, in terms of the probability they would achieve the objectives concerning immediate extinction risk, near-term viability, and adequacy of habitat. Factors that might impede the success of each action were also evaluated. The process identified the establishment of a captive population and efforts to stabilize the existing wild population as the approach most likely to meet the objectives of preventing imminent extinction and ensuring long-term viability.

Hawaii↗
USGS2016

From tails to toes: developing nonlethal tissue indicators of mercury exposure in five amphibian species

Exposure to environmental contaminants has been implicated as a factor in global amphibian decline. Mercury (Hg) is a particularly widespread contaminant that biomagnifies in amphibians and can cause a suite of deleterious effects. However, monitoring contaminant exposure in amphibian tissues may conflict with conservation goals if lethal take is required. Thus, there is a need to develop non-lethal tissue sampling techniques to quantify contaminant exposure in amphibians. Some minimally invasive sampling techniques, such as toe-clipping, are common in population-genetic research, but it is unclear if these methods can adequately characterize contaminant exposure. We examined the relationships between mercury (Hg) concentrations in non-lethally sampled tissues and paired whole-bodies in five amphibian species. Specifically, we examined the utility of three different tail-clip sections from four salamander species and toe-clips from one anuran species. Both tail and toe-clips accurately predicted whole-body THg concentrations, but the relationships differed among species and the specific tail-clip section or toe that was used. Tail-clips comprised of the distal 0–2 cm segment performed the best across all salamander species, explaining between 82 and 92 % of the variation in paired whole-body THg concentrations. Toe-clips were less effective predictors of frog THg concentrations, but THg concentrations in outer rear toes accounted for up to 79 % of the variability in frog whole-body THg concentrations. These findings suggest non-lethal sampling of tails and toes has potential applications for monitoring contaminant exposure and risk in amphibians, but care must be taken to ensure consistent collection and interpretation of samples.

Ecotoxicology↗
USGS2023

Genomic insights into isolation of the threatened Florida crested caracara (Caracara plancus)

We conducted a population genomic study of the crested caracara ( Caracara plancus ) using samples ( n = 290) collected from individuals in Florida, Texas, and Arizona, United States. Crested caracaras are non-migratory raptors ranging from the southern tip of South America to the southern United States, including a federally protected relict population in Florida long thought to have been isolated since the last ice age. Our objectives were to evaluate genetic diversity and population structure of Florida’s apparently isolated population and to evaluate taxonomic relationships of crested caracaras at the northern edge of their range. Using DNA purified from blood samples, we conducted double-digest restriction site associated DNA sequencing and sequenced the mitochondrial ND2 gene. Analyses of population structure using over 9,000 SNPs suggest that two major clusters are best supported, one cluster including only Florida individuals and the other cluster including Arizona and Texas individuals. Both SNPs and mitochondrial haplotypes reveal the Florida population to be highly differentiated genetically from Arizona and Texas populations, whereas, Arizona and Texas populations are moderately differentiated from each other. The Florida population’s mitochondrial haplotypes form a separate monophyletic group, while Arizona and Texas populations share mitochondrial haplotypes. Results of this study provide substantial genetic evidence that Florida’s crested caracaras have experienced long-term isolation from caracaras in Arizona and Texas and thus, represent a distinct evolutionary lineage possibly warranting distinction as an Evolutionarily Significant Unit (ESU) or subspecies. This study will inform conservation strategies focused on long-term survival of Florida’s distinct, panmictic population.

Journal of Heredity↗
USGS2020

Forests do not limit bumble bee foraging movements in a montane meadow complex

1. Understanding the roles of habitat fragmentation and resource availability in shaping animal movement are integral for promoting species persistence and conservation. For insects like bumble bees, their movement patterns affect the survival and reproductive potential of their colonies as well as the pollen flow of plant species. However, our understanding of their mobility or the impact of putative barriers in natural environments is limited due to the technical difficulties of studying wild populations. 2. We used genetic mark-recapture to estimate the foraging distance, resource use, and site connectivity of two bumble bee species in a montane meadow complex composed of open meadows within a matrix of forest. 3. There was no evidence that forests or changes in landcover function as barriers to the fine‐scale movement for either species. Substantially greater colony‐specific foraging distances were found for Bombus vosnesenskii (maximum: 1867 m) compared to Bombus bifarius (maximum: 362 m). Despite this difference in absolute range, both species were detected across putative forest barriers at frequencies expected by uninhibited movement. Siblings separated by greater distances were more likely to be foraging on different floral species, potentially suggesting a resource‐based motivation for movement. 4. These results suggest that bumble bee foraging patterns are influenced by species-specific differences in movement capacity, with little influence of matrix composition between resource patches. They also support the perspective that habitat conservation for bumble bees should prioritize providing abundant and diverse patches of resources within species-specific movement radii with less emphasis on matrix composition.

Ecological Entomology↗
USGS2024

Monarch butterfly (Danaus plexippus) roost site-selection criteria and locations east of the Appalachian Mountains, U.S.A.

The monarch butterfly is a flagship species and pollinator whose populations have declined by 85% in the recent two decades. Their largest population overwinters in Mexico, then disperses across eastern North America during March to August. During September-December, they return south using two flyways, one that spans the central United States and another that follows the Atlantic coast. Migrating monarchs fly diurnally and roost in groups nocturnally. We sought to determine the criteria this species uses to select roost sites, and the landscape context where those sites are found. We developed species distribution models of the landscape context of Atlantic flyway roost sites via citizen scientist observations and environmental variables that affect monarchs in the adult stage prior to migration, using two algorithms (Maximum Entropy and Genetic Algorithm for Ruleset Prediction). We developed two model validation methods: a citizen scientist smartphone application and peer-informed comparisons with aerial imagery. Proximity to surface water, elevation, and vegetative cover were the most important criteria for monarch roost site selection. Our model predicted 2.6 million ha (2.9% of the study area) of suitable roosting habitat in the Atlantic flyway, with the greatest availability along the Atlantic coastal plain and Appalachian Mountain ridges. Conservation of this species is difficult, as monarchs range over both large areas and various habitat types, and most current monarch research and conservation efforts are focused on the breeding and overwintering periods. These models can serve to help prioritize surveys of roosting sites and conservation efforts during the monarchs’ fall migration.

Journal of Insect Behavior↗
USGS2024

Floral Composition of Pollen Collected from a Rusty Patched Bumble Bee (Bombus affinis, Cresson) Nest in Southeastern Minnesota

Understanding the forage diets of imperiled bumble bees can improve conservation planning and habitat restoration efforts. In this study, we describe the taxonomic composition of bee-collected pollen from 2 Rusty Patched Bumble Bee ( Bombus affinis , Cresson) nests located in southeastern Minnesota. This is the first published reporting of pollen collected from active B. affinis nests. We also compared pollen identification via traditional palynological light microscopy with genetic identification via ITS metabarcoding. Among the 49 pollen samples analyzed, we detected 41 and 56 distinct taxa via light microscopy and metabarcoding, respectively. Furthermore, 27 of 47 total genera overlapped between the 2 methods. Bittersweet Nightshade ( Solanum dulcamara , Linnaeus) was the most detected species for both metabarcoding and microscopy identification for pollen prevalence. Pollen volume from the microscopy data showed that Lesser Burdock ( Arctium minus , Bernhardi), Alfalfa ( Medicago sativa , Linnaeus), Bittersweet Nightshade ( Solanum dulcamara , Linnaeus), Plumeless Thistle ( Carduus acanthoides , Linnaeus), and Red Clover ( Trifolium pratense , Linnaeus) together comprised more than half of the total volume of pollen. Light microscopy and metabarcoding revealed compositionally distinct plant communities when analyzed at the species level. Methodological concordance improved when analyzing pollen data at genus level, but both methods still reveal marginally distinct groupings. Our study highlights specific plant taxa that are important components of B. affinis pollen diets and provides actionable research for conservation efforts in urban systems. Our study also supports that B. affinis is a generalist forager and will collect pollen from a variety of native and non-native host plants.

Minnesota↗