Search USGS⌕ Search

SEARCH · Search USGS

Results for “Nature Ecology and Evolution”

Search indexed USGS publications on groundwater, aquifers, geologic maps, mineral resources and earthquakes. Explore source records by subject and place.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 73 records · Page 4Linked to original sources
USGS2022

Ecological divergence of wild birds drives avian influenza spillover and global spread

The diversity of influenza A viruses (IAV) is primarily hosted by two highly divergent avian orders: Anseriformes (ducks, swans and geese) and Charadriiformes (gulls, terns and shorebirds). Studies of IAV have historically focused on Anseriformes, specifically dabbling ducks, overlooking the diversity of hosts in nature, including gull and goose species that have successfully adapted to human habitats. This study sought to address this imbalance by characterizing spillover dynamics and global transmission patterns of IAV over 10 years at greater taxonomic resolution than previously considered. Furthermore, the circulation of viral subtypes in birds that are either host-adapted (low pathogenic H13, H16) or host-generalist (highly pathogenic avian influenza—HPAI H5) provided a unique opportunity to test and extend models of viral evolution. Using Bayesian phylodynamic modelling we uncovered a complex transmission network that relied on ecologically divergent bird hosts. The generalist subtype, HPAI H5 was driven largely by wild geese and swans that acted as a source for wild ducks, gulls, land birds, and domestic geese. Gulls were responsible for moving HPAI H5 more rapidly than any other host, a finding that may reflect their long-distance, pelagic movements and their immuno-naïve status against this subtype. Wild ducks, long viewed as primary hosts for spillover, occupied an optimal space for viral transmission, contributing to geographic expansion and rapid dispersal of HPAI H5. Evidence of inter-hemispheric dispersal via both the Pacific and Atlantic Rims was detected, supporting surveillance at high latitudes along continental margins to achieve early detection. Both neutral (geographic expansion) and non-neutral (antigenic selection) evolutionary processes were found to shape subtype evolution which manifested as unique geographic hotspots for each subtype at the global scale. This study reveals how a diversity of avian hosts contribute to viral spread and spillover with the potential to improve surveillance in an era of rapid global change.

PLoS Pathogens↗
USGS2024

Large-scale assessment of genetic structure to assess risk of populations of a large herbivore to disease

Chronic wasting disease (CWD) can spread among cervids by direct and indirect transmission, the former being more likely in emerging areas. Identifying subpopulations allows the delineation of focal areas to target for intervention. We aimed to assess the population structure of white-tailed deer ( Odocoileus virginianus ) in the northeastern United States at a regional scale to inform managers regarding gene flow throughout the region. We genotyped 10 microsatellites in 5701 wild deer samples from Maryland, New York, Ohio, Pennsylvania, and Virginia. We evaluated the distribution of genetic variability through spatial principal component analysis and inferred genetic structure using non-spatial and spatial Bayesian clustering algorithms (BCAs). We simulated populations representing each inferred wild cluster, wild deer in each state and each physiographic province, total wild population, and a captive population. We conducted genetic assignment tests using these potential sources, calculating the probability of samples being correctly assigned to their origin. Non-spatial BCA identified two clusters across the region, while spatial BCA suggested a maximum of nine clusters. Assignment tests correctly placed deer into captive or wild origin in most cases (94%), as previously reported, but performance varied when assigning wild deer to more specific origins. Assignments to clusters inferred via non-spatial BCA performed well, but efficiency was greatly reduced when assigning samples to clusters inferred via spatial BCA. Differences between spatial BCA clusters are not strong enough to make assignment tests a reliable method for inferring the geographic origin of deer using 10 microsatellites. However, the genetic distinction between clusters may indicate natural and anthropogenic barriers of interest for management.

Maryland, New York, Ohio, Pennsylvania, West Virgi↗
USGS2026

Estimation of parental abundance using hierarchical Bayesian modeling with data augmentation

Pedigree-based estimation methods leverage the fact that each offspring in a cohort is genotypically “marked” by its parents and represent a recent and promising toolset for estimating population dynamics. This includes pedigree accumulation estimators that model the “accumulation” of inferred unique parents within a given cohort to estimate parental abundance. Unlike close-kin mark-recapture approaches, which rely on intercohort comparisons, pedigree accumulation modeling can be completed solely using intracohort samples. This is particularly advantageous for semelparous species, where intercohort pairs are impossible and adult life stages can be difficult to sample without affecting their likelihood of successfully reproducing. Previous work has evaluated a range of estimators for such datasets, concluding that the non-parametric Chao estimator provides the most accurate and precise estimates for feasible levels of sampling effort. We used simulated data to evaluate an alternative estimator based on hierarchical modeling and data augmentation in a Bayesian framework. Results indicate that estimates from the hierarchical Bayesian estimator had comparable accuracy and better precision than both the previously tested Chao1 estimator and the improved iChao formulation across a range of sample sizes and sex ratios. Furthermore, the Bayesian estimator was far more robust to simulated errors in pedigree reconstruction, especially the presence of false negatives. Hierarchical Bayesian pedigree accumulation models can also provide additional insight into underlying reproductive ecology through their use of an explicit observation process, allowing for the incorporation or estimation of species- and population-specific reproductive dynamics. More broadly, the parametric nature of these models offers opportunities to efficiently pool information among datasets as well as to propagate uncertainty within more complex models.

Ecology and Evolution↗
USGS1998

The role of natural history collections in documenting species declines

Efforts to document the decline of extant populations require a historical record of previous occurrences. Natural history museums contain such information for most regions of the world, at least at a coarse spatial scale. Museum collections have been successfully used to analyse declines in a wide range of plants and animals, at spatial scales ranging from single localities to large biotic and political regions. Natural history museum collections, when properly analysed, can be an invaluable tool in documenting changes in biodiversity during the past century.

Trends in Ecology and Evolution↗
USGS2006

Spatial and Temporal Migration Patterns of Neotropical Migrants in the Southwest Revealed by Stable Isotopes

Executive Summary We used stable hydrogen isotopes (?D) to investigate both temporal and spatial patterns during spring migration for three warbler species, Wilson's Warbler (Wilsonia pusilla), MacGillivray's Warbler (Oporornis tolmiei), and Nashville Warbler (Vermivora ruficapilla), across multiple migration routes in southwest North America. A strong correlation between stable hydrogen isotope values of feathers and the local precipitation at sites where feathers where collected across the breeding range for all three species reaffirmed that stable hydrogen isotopes were a good predictor of breeding locations. For the Wilson's Warbler, we found a significant negative relationship between the date when warblers passed through the sampling station and ?D values of their feathers, indicating that warblers who bred the previous season at southern latitudes migrated through the migration stations earlier than did warblers that had previously bred at more northern latitudes. This pattern was consistent across their southwestern migration route (5 sites sampled) and was consistent between years. Comparing ?D values between migration stations also showed a shift towards more negative ?D values from the western to the eastern migration stations sampled in this study, which corresponded to different geographical regions of the Wilson's Warblers' western breeding range. For MacGillivray's Warbler we found the same temporal pattern as Wilson's Warbler, with warblers that bred the previous season at southern latitudes migrating through the migration stations earlier than warblers that had previously bred at more northern latitudes. This pattern was consistent at the Lower Colorado River and Arivaca Creek, the two sites where sample sizes were adequate to test these hypotheses. Comparison of the ?D between the two sites indicated that the majority of warblers migrating through these stations were breeding within a geographically limited area of MacGillivray's Warblers' overall breeding range. This is in contrast to the larger range of ?D values for Wilson's Warblers at these two sites, which corresponded to a broader area across their breeding range. Feathers were also collected across MacGillivray's Warblers' wintering range, and stable hydrogen isotope analysis indicated a significant positive relationship with wintering latitude. Because the ?D value of MacGillivray's Warblers' feathers reflects the ?D value of their breeding locations, with more negative values representing more northerly breeding latitudes, this positive relationship between feather ?D and wintering latitude indicated that warblers wintering at more southern latitudes bred at more northern latitudes. This supports a leapfrog migration system for MacGillivray's Warblers and is the first documentation of such a pattern. We did not find a temporal pattern to the spring migration of Nashville Warblers. This lack of temporal pattern could be due to the reduced size of the breeding and wintering ranges of Nashville Warblers, both of which could decrease the advantages of a temporal migration pattern. A small population of Nashville Warblers also breeds on the California coast and the sporadic nature of migration for Nashville Warblers in the southwest suggests that in some years more Nashville Warblers may winter along the California coast. The information in this study has increased our understanding of both spatial and temporal patterns of migration for three neotropical migrant birds and has important implications for understanding the ecology and evolution of migrants and factors influencing overall population dynamics.

Open-File Report↗
USGS2015

Hydrology: The interdisciplinary science of water

We live in a world where biophysical and social processes are tightly coupled. Hydrologic systems change in response to a variety of natural and human forces such as climate variability and change, water use and water infrastructure, and land cover change. In turn, changes in hydrologic systems impact socioeconomic, ecological, and climate systems at a number of scales, leading to a coevolution of these interlinked systems. The Harvard Water Program, Hydrosociology, Integrated Water Resources Management, Ecohydrology, Hydromorphology, and Sociohydrology were all introduced to provide distinct, interdisciplinary perspectives on water problems to address the contemporary dynamics of human interaction with the hydrosphere and the evolution of the Earth’s hydrologic systems. Each of them addresses scientific, social, and engineering challenges related to how humans influence water systems and vice versa. There are now numerous examples in the literature of how holistic approaches can provide a structure and vision of the future of hydrology. We review selected examples, which taken together, describe the type of theoretical and applied integrated hydrologic analyses and associated curricular content required to address the societal issue of water resources sustainability. We describe a modern interdisciplinary science of hydrology needed to develop an in-depth understanding of the dynamics of the connectedness between human and natural systems and to determine effective solutions to resolve the complex water problems that the world faces today. Nearly, every theoretical hydrologic model introduced previously is in need of revision to accommodate how climate, land, vegetation, and socioeconomic factors interact, change, and evolve over time.

Water Resources Research↗
USGS2023

Future marsh evolution due to tidal changes induced by human adaptation to sea level rise

With sea level rise threatening coastal development, decision-makers are beginning to act by modifying shorelines. Previous research has shown that hardening or softening shorelines may change the tidal range under future sea level rise. Tidal range can also be changed by natural factors. Coastal marshes, which humans increasingly depend on for shoreline protection, are ecologically sensitive to tidal range. Therefore, it is critical to examine how changes in tidal range could influence marsh processes. A marsh accretion model was used to investigate the ecological response of a San Francisco Bay, California, USA marsh to multiple tidal range scenarios and sea level rise from 2010 to 2100. The scenarios include a baseline scenario with no shoreline modifications in the estuary, a shoreline hardening scenario that amplifies the tidal range, and 14 tidal range scenarios as a sensitivity analysis that span tidal amplification and reduction of the baseline scenario. The modeling results expose key tradeoffs to consider when planning for sea level rise. Compared to the baseline, the hardening scenario shows minor differences. However, further tidal amplification prolongs marsh survival but decreases Sarcocornia pacifica cover, an important species for certain threatened wildlife and an effective attenuator of wave energy. Conversely, tidal reduction precipitates marsh drowning but shows gains in Sarcocornia pacifica cover. These mixed impacts of tidal amplification and reduction shown by the model indicate potential tradeoffs in relation to marsh survival, habitat characteristics, and shoreline protection. This study suggests the need for a cross-sectoral, regional approach to sea level rise adaptation.

California↗
USGS2022

Scat as a source of DNA for population monitoring

Sampling fecal droppings (scat) to genetically identify individual animals is an established method for monitoring mammal populations and could be highly useful for monitoring reptile populations. Whereas existing protocols for obtaining DNA from reptile scat focus on analyses of whole, fresh scat deposited during animal handling, the collection of scat naturally deposited by reptiles in situ, as required for non-invasive population monitoring, requires protocols to extract highly degraded DNA. Using surface swabs from such scats can reduce PCR inhibition, ecological impacts of removing scat, and zoonotic risks. We report on three related but independently designed studies of DNA analyses from scat swabs of herbivorous reptiles under natural desert conditions: two free-ranging desert tortoise species (Agassiz's desert tortoise, Gopherus agassizii , California, US, and Morafka's desert tortoise, G. morafkai , Arizona, US) and the common chuckwalla (Sauromalus atar ) (Arizona, US, and Sonora, MX). We analyzed samples from both tortoise species with the same set of 16 microsatellites and chuckwalla samples with four mtDNA markers; studies also varied in swab preservation medium and DNA extraction method. Microsatellite amplification success per sample, defined as ≥9 loci with amplification, varied between studies, with 15% for Agassiz's desert tortoise and 42% Morafka's desert tortoise. For chuckwallas, we successfully amplified and sequenced 50% of samples. We recovered fragments up to 400 bp for tortoises and 980 bp for chuckwallas from scat swab samples. This study demonstrates that genotypes can successfully be obtained from swabs of herbivorous reptile scat collected in the field under natural environmental conditions and emphasizes that repeat amplifications are necessary for genetic identification of individuals from non-invasive samples.

Arizona, California↗
USGS2021

Natural history of a bighorn sheep pneumonia epizootic: Source of infection, course of disease, and pathogen clearance

A respiratory disease epizootic at the National Bison Range (NBR) in Montana in 2016–2017 caused an 85% decline in the bighorn sheep population, documented by observations of its unmarked but individually identifiable members, the subjects of an ongoing long-term study. The index case was likely one of a small group of young bighorn sheep on a short-term exploratory foray in early summer of 2016. Disease subsequently spread through the population, with peak mortality in September and October and continuing signs of respiratory disease and sporadic mortality of all age classes through early July 2017. Body condition scores and clinical signs suggested that the disease affected ewe groups before rams, although by the end of the epizootic, ram mortality (90% of 71) exceeded ewe mortality (79% of 84). Microbiological sampling 10 years to 3 months prior to the epizootic had documented no evidence of infection or exposure to Mycoplasma ovipneumoniae at NBR, but during the epizootic, a single genetic strain of M. ovipneumoniae was detected in affected animals. Retrospective screening of domestic sheep flocks near the NBR identified the same genetic strain in one flock, presumptively the source of the epizootic infection. Evidence of fatal lamb pneumonia was observed during the first two lambing seasons following the epizootic but was absent during the third season following the death of the last identified M. ovipneumoniae carrier ewe. Monitoring of life-history traits prior to the epizootic provided no evidence that environmentally and/or demographically induced nutritional or other stress contributed to the epizootic. Furthermore, the epizootic occurred despite proactive management actions undertaken to reduce risk of disease and increase resilience in this population. This closely observed bighorn sheep epizootic uniquely illustrates the natural history of the disease including the (presumptive) source of spillover, course, severity, and eventual pathogen clearance.

Montana↗
USGS2026

Relative influence of flow regime, natural and anthropogenic environment on multidimensional stream fish diversity

The flow regime is considered a ‘master variable’ in riverine ecology because it directly influences stream geomorphology and biological communities. However, other environmental and anthropogenic factors have direct and synergistic effects with flow on fish diversity, complicating estimates of the flow regime's true importance. Moreover, most flow-ecology studies focus only on taxonomic diversity (i.e., species), without considering functional (trait-focused) or phylogenetic (evolution-focused) dimensions of diversity. In this study, we used linear regression with variation partitioning to parse out the independent and shared roles of the flow regime, physical environmental factors (e.g., soil characteristics) and the anthropogenic environment (e.g., developed land cover) for structuring multidimensional diversity of 365 stream fish communities in two biogeographic regions across South Carolina, USA. These variables explained between 8% and 18% of total variation of the local diversity. The flow regime contributed to diversity in all cases, but frequently covaried with physical and/or anthropogenic environmental variables. This covariation indicated that the independent role of flow would have been inflated if other environmental variables were not considered. The three dimensions of stream fish diversity were weakly correlated with one another and were associated with different environmental variables, indicating that each of them represents unique and complimentary facets of fish diversity. Accordingly, only considering the independent effects of instream flow on fish diversity may miss meaningful interactions between the flow regime and the other components of the environment that influence biodiversity patterns, leading to over simplified flow–ecology relationships.

South Carolina↗
USGS2025

Variation in gene expression across infection status and elevation in a Hawaiian honeycreeper

Introduced pathogens exert novel selection on hosts, and although many host species have experienced drastic population declines in the absence of adaptation, some hosts have adapted to highly virulent pathogens. For instance, mosquitoes and Plasmodium relictum introduced to the Hawaiian Islands have resulted in extinctions and catastrophic population declines due to avian malaria, particularly in the diverse clade of Hawaiian honeycreepers. However, some species, such as the Hawai'i 'amakihi ( Chlorodrepanis virens ), can survive infection. Immunity exists in low-elevation populations where mosquitoes are abundant, whereas high-elevation, unexposed populations of 'amakihi display greatly reduced immunity. To explore the basis of adaptation to P. relictum in low-elevation 'amakihi, we sequenced transcriptomes from 24 low-elevation and 15 high-elevation 'amakihi. We tested for differential gene expression between (i) infected and uninfected birds and (ii) low- and high-elevation birds. Infected birds showed significant differences in expression across many transcripts with diverse cellular functions involved in different pathways of immune response; eight of the top 13 transcripts blasted to genes previously implicated in immunity to malaria in 'amakihi, and 11 have been identified in other infectious disease systems. Thirteen transcripts showed a trend of higher expression in high-elevation birds. These transcripts blasted to genes involved in metabolism, blood coagulation, and immune response. Our results provide increasing support for a subset of genes involved in immunity to malaria in 'amakihi and hint at possible antagonistic interactions between response to pathogens and environmental characteristics associated with elevation. Further work clarifying the nature of these interactions could benefit conservation efforts of Hawaiian honeycreepers in upper elevation refugia that are increasingly subject to malaria exposure.

Hawaii↗
USGS2024

Climate futures for lizards and snakes in western North America may result in new species management issues

We assessed changes in fundamental climate-niche space for lizard and snake species in western North America under modeled climate scenarios to inform natural resource managers of possible shifts in species distributions. We generated eight distribution models for each of 130 snake and lizard species in western North America under six time-by-climate scenarios. We combined the highest-performing models per species into a single ensemble model for each scenario. Maps were generated from the ensemble models to depict climate-niche space for each species and scenario. Patterns of species richness based on climate suitability and niche shifts were calculated from the projections at the scale of the entire study area and individual states and provinces, from Canada to Mexico. Squamate species' climate-niche space for the recent-time climate scenario and published known ranges were highly correlated ( r = 0.81). Overall, reptile climate-niche space was projected to move northward in the future. Sixty-eight percent of species were projected to expand their current climate-niche space rather than to shift, contract, or remain stable. Only 8.5% of species were projected to lose climate-niche space in the future, and these species primarily occurred in Mexico and the southwestern U.S. We found few species were projected to lose all suitable climate-niche space at the state or province level, although species were often predicted to occupy novel areas, such as at higher elevations. Most squamate species were projected to increase their climate-niche space in future climate scenarios. As climate niches move northward, species are predicted to cross administrative borders, resulting in novel conservation issues for local landowners and natural resource agencies. However, information on species dispersal abilities, landscape connectivity, biophysical tolerances, and habitat suitability is needed to contextualize predictions relative to realized future niche expansions.

Ecology and Evolution↗
USGS2022

Social effects of rabies infection in male vampire bats (Desmodus rotundus)

Rabies virus (RABV) transmitted by the common vampire bat ( Desmodus rotundus ) poses a threat to agricultural development and public health throughout the Neotropics. The ecology and evolution of rabies host-pathogen dynamics are influenced by two infection-induced behavioral changes. RABV-infected hosts often exhibit increased aggression which facilitates transmission, and rabies also leads to reduced activity and paralysis prior to death. Although several studies document rabies-induced behavioral changes in rodents and other dead-end hosts, surprisingly few studies have measured these changes in vampire bats, the key natural reservoir throughout Latin America. Here, we take advantage of an experiment designed to test the safety and efficacy of an oral rabies vaccine in captive male vampire bats to quantify for the first time how rabies affects allogrooming and aggressive behaviors in the vampire bat. Compared to non-rabid vampire bats, rabid individuals reduced their allogrooming prior to death, but we did not detect increases in aggression among bats. To put our results in context, we review what is known and what remains unclear about behavioral changes of rabid vampire bats.

Biology Letters↗
USGS2020

Drivers and consequences of alternative landscape futures on wildlife distributions in New England, United States

In an era of rapid climate and land transformation, it is increasingly important to understand how future changes impact natural systems. Scenario studies can offer the structure and perspective needed to understand the impacts of change and help inform management and conservation decisions. We implemented a scenario-based approach to assess how two high impact drivers of landscape change influence the distributions of managed wildlife species (n = 10) in the New England region of the northeastern United States. We used expert derived species distribution models (SDMs) and scenarios developed by the New England Landscape Futures Project (NELFP) to estimate how species distributions change under various trajectories (n = 5) of landscape change. The NELFP scenarios were built around two primary drivers – Socio-Economic Connectedness (SEC) and Natural Resource Planning and Innovation (NRPI) – and provide plausible alternatives for how the New England region may change over fifty years (2010 to 2060). Our models generally resulted in species occurrence and richness declines by 2060. The majority of species (7 of 10) experienced declines in regional occurrence for all NELFP scenarios, and one species experienced a projected increase in mean regional occurrence for all scenarios. Our results indicate that the NRPI and SEC drivers strongly influenced projected distribution changes compared to baseline projections. NRPI had a greater impact on distribution change for five species (coyote, moose, striped skunk, white-tailed deer, and wild turkey), while SEC had a greater impact on four species (American black bear, bobcat, raccoon, and red fox); one species (gray fox) was equally influenced by both NRPI and SEC. These results emphasize the importance of integrating both natural resource planning and socio-economic factors when addressing issues of distribution change and offer insights that can inform proactive management and conservation planning.

Connecticut, Maine, Massachusetts, New Hampshire, ↗
USGS2012

A two-phase sampling design for increasing detections of rare species in occupancy surveys

1. Occupancy estimation is a commonly used tool in ecological studies owing to the ease at which data can be collected and the large spatial extent that can be covered. One major obstacle to using an occupancy-based approach is the complications associated with designing and implementing an efficient survey. These logistical challenges become magnified when working with rare species when effort can be wasted in areas with none or very few individuals. 2. Here, we develop a two-phase sampling approach that mitigates these problems by using a design that places more effort in areas with higher predicted probability of occurrence. We compare our new sampling design to traditional single-season occupancy estimation under a range of conditions and population characteristics. We develop an intuitive measure of predictive error to compare the two approaches and use simulations to assess the relative accuracy of each approach. 3. Our two-phase approach exhibited lower predictive error rates compared to the traditional single-season approach in highly spatially correlated environments. The difference was greatest when detection probability was high (0·75) regardless of the habitat or sample size. When the true occupancy rate was below 0·4 (0·05-0·4), we found that allocating 25% of the sample to the first phase resulted in the lowest error rates. 4. In the majority of scenarios, the two-phase approach showed lower error rates compared to the traditional single-season approach suggesting our new approach is fairly robust to a broad range of conditions and design factors and merits use under a wide variety of settings. 5. Synthesis and applications. Conservation and management of rare species are a challenging task facing natural resource managers. It is critical for studies involving rare species to efficiently allocate effort and resources as they are usually of a finite nature. We believe our approach provides a framework for optimal allocation of effort while maximizing the information content of the data in an attempt to provide the highest conservation value per unit of effort.

Methods in Ecology and Evolution↗
USGS2019

Landscape genetics reveals unique and shared effects of urbanization for two sympatric pool-breeding amphibians

Metapopulation-structured species can be negatively affected when landscape fragmentation impairs connectivity. We investigated the effects of urbanization on genetic diversity and gene flow for two sympatric amphibian species, spotted salamanders ( Ambystoma maculatum ) and wood frogs ( Lithobates sylvaticus ), across a large (>35,000 km 2 ) landscape in Maine, USA, containing numerous natural and anthropogenic gradients. Isolation-by-distance (IBD) patterns differed between the species. Spotted salamanders showed a linear and relatively high variance relationship between genetic and geographic distances ( r = .057, p < .001), whereas wood frogs exhibited a strongly nonlinear and lower variance relationship ( r = 0.429, p < .001). Scale dependence analysis of IBD found gene flow has its most predictable influence (strongest IBD correlations) at distances up to 9 km for spotted salamanders and up to 6 km for wood frogs. Estimated effective migration surfaces revealed contrasting patterns of high and low genetic diversity and gene flow between the two species. Population isolation, quantified as the mean IBD residuals for each population, was associated with local urbanization and less genetic diversity in both species. The influence of geographic proximity and urbanization on population connectivity was further supported by distance-based redundancy analysis and multiple matrix regression with randomization. Resistance surface modeling found interpopulation connectivity to be influenced by developed land cover, light roads, interstates, and topography for both species, plus secondary roads and rivers for wood frogs. Our results highlight the influence of anthropogenic landscape features within the context of natural features and broad spatial genetic patterns, in turn supporting the premise that while urbanization significantly restricts interpopulation connectivity for wood frogs and spotted salamanders, specific landscape elements have unique effects on these two sympatric species.

Maine↗
USGS2022

Genomic divergence, local adaptation, and complex demographic history may inform management of a popular sportfish species complex

The Neosho Bass ( Micropterus velox ), a former subspecies of the keystone top-predator and globally popular Smallmouth Bass ( M. dolomieu ), is endemic and narrowly restricted to small, clear streams of the Arkansas River Basin in the Central Interior Highlands (CIH) ecoregion, USA. Previous studies have detected some morphological, genetic, and genomic differentiation between the Neosho and Smallmouth Basses; however, the extent of neutral and adaptive divergence and patterns of intraspecific diversity are poorly understood. Furthermore, lineage diversification has likely been impacted by gene flow in some Neosho populations, which may be due to a combination of natural biogeographic processes and anthropogenic introductions. We assessed: (1) lineage divergence, (2) local directional selection (adaptive divergence), and (3) demographic history among Smallmouth Bass populations in the CIH using population genomic analyses of 50,828 single-nucleotide polymorphisms (SNPs) obtained through ddRAD-seq. Neosho and Smallmouth Bass formed monophyletic clades with 100% bootstrap support. We identified two major lineages within each species. We discovered six Neosho Bass populations (two nonadmixed and four admixed) and three nonadmixed Smallmouth Bass populations. We detected 29 SNPs putatively under directional selection in the Neosho range, suggesting populations may be locally adapted. Two populations were admixed via recent asymmetric secondary contact, perhaps after anthropogenic introduction. Two other populations were likely admixed via combinations of ancient and recent processes. These species comprise independently evolving lineages, some having experienced historical and natural admixture. These results may be critical for management of Neosho Bass as a distinct species and may aid in the conservation of other species with complex biogeographic histories.

Ecology and Evolution↗
USGS2010

Seasonal and decadal-scale channel evolution on the dammed Elwha River, Washington

More than 75,000 dams exist in the continental United States to provide water storage, flood control, and hydropower generation (Graf, 1999). Many of these were built during the early twentieth century and are due for relicensing consideration now and in the near future. The cost of repairing aging dams, together with growing understanding of the ecologic effects of river regulation (Williams and Wolman, 1984; Dynesius and Nilsson, 1994; Graf, 1999, 2003; Yang et al., 2007), in some places have prompted dam removal, facilitating restoration of riparian habitat to a more natural state. In the Pacific Northwest region of the U.S., river-restoration efforts are commonly targeted to improve habitat quality for native salmonid fish species, many runs of which have declined precipitiously from their historical conditions (owing, in part, to overfishing and habitat loss and degradation) and are now endangered (e.g., Nehlsen, 1997; Larsen et al., 2004; Pess et al., 2008). Removal of dams that block the upstream migration of anadromous fish is considered an important step toward any potential recovery of Pacific Northwest salmon and steelhead populations.

Washington↗