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Persistence and diversification of the Holarctic shrew, Sorex tundrensis (Family Soricidae), in response to climate change

Environmental processes govern demography, species movements, community turnover and diversification and yet in many respects these dynamics are still poorly understood at high latitudes. We investigate the combined effects of climate change and geography through time for a widespread Holarctic shrew, Sorex tundrensis . We include a comprehensive suite of closely related outgroup taxa and three independent loci to explore phylogeographic structure and historical demography. We then explore the implications of these findings for other members of boreal communities. The tundra shrew and its sister species, the Tien Shan shrew ( Sorex asper ), exhibit strong geographic population structure across Siberia and into Beringia illustrating local centres of endemism that correspond to Late Pleistocene refugia. Ecological niche predictions for both current and historical distributions indicate a model of persistence through time despite dramatic climate change. Species tree estimation under a coalescent process suggests that isolation between populations has been maintained across timeframes deeper than the periodicity of Pleistocene glacial cycling. That some species such as the tundra shrew have a history of persistence largely independent of changing climate, whereas other boreal species shifted their ranges in response to climate change, highlights the dynamic processes of community assembly at high latitudes.

Molecular Ecology↗

Stable C and N isotope analyses redefine cisco as pelagic piscivores in Lake Michigan

Lake Michigan’s cisco ( Coregonus artedi ) population is in the midst of an expansion (2011-present) recovering from near extirpation levels observed in the 1970 s. Strong evidence of piscivory derived from observed diet analyses suggests the population may occupy a unique trophic position relative to typical expectations for the species. To verify these observations, cisco and their prey were collected from 2017 to 2020 for stable C and N isotope analyses. Leveraging existing stable isotope datasets for Lake Michigan, the trophic position of cisco was assessed by quantifying the isotopic niche space occupied relative to common salmonine piscivores and prey fish species. Diet mixing models were constructed to estimate the relative importance of potential prey sources to cisco diets. Results suggested that cisco occupied an isotopic niche similar to Pacific salmonines ( Oncorhynchus spp.) and brown trout ( Salmo trutta ) that are mainly piscivorous. Conversely, there was low isotopic niche overlap with prey fish species that are mainly planktivorous. Mixing models suggest greater reliance on pelagic prey sources (including alewife Alosa pseudoharengus and Bythotrephes longimanus ) in cisco diets when compared with observations of stomach contents. Under the present ecological conditions in Lake Michigan, it appears that adult cisco in this population occupy the trophic role of a pelagic piscivore.

Lake Michigan↗

Ecological implications of bovine tuberculosis in African Buffalo herds

Following the recent invasion of bovine tuberculosis (BTB) into the Kruger National Park, South Africa, we conducted a study on the maintenance host, African buffalo, to investigate associations between BTB prevalence and calf:cow ratio, age structure, body condition, and endoparasite load. Statistical analyses compared herds of zero, medium (1–40%), and high (>40%) BTB prevalence. To control for ecological variation across the park we collected data in northern, central, and southern regions and restricted some analyses to particular regions of the park. Body condition declined over the course of the 2001 dry season, and buffaloes in the southern region of the park, with the highest BTB prevalence, were in worse condition than buffaloes in the northern region (which receives less annual rainfall but is still virtually BTB-free). Herd-level analyses of the entire park, the south and central regions, and just the southern region all indicated that herds of higher BTB prevalence were in worse condition and lost condition faster through the dry season than herds of lower BTB prevalence. Fecal endoparasite egg counts increased during the dry season and were associated with both decreased body condition and increased BTB prevalence. Although we did not detect any obvious effect of BTB on the age structure of the buffalo population, our findings indicate early symptoms of wider scale BTB-related ecological disturbances: buffalo herds with high BTB prevalence appear more vulnerable to drought (because of a decrease in body condition and an increase in endoparasite load), and because lions selectively kill weak buffaloes their prey base is accumulating a disproportionately high prevalence of BTB, to which lions are susceptible. Rea10.1890/02-5266d More: http://www.esajournals.org/doi/abs

Kruger National Park↗

It’s complicated and it depends: A review of the effects of ecosystem changes on Walleye and Yellow Perch populations in North America

Walleye Sander vitreus and Yellow Perch Perca flavescens are culturally, economically, and ecologically significant fish species in North America that are affected by drivers of global change. Here, we review and synthesize the published literature documenting the effects of ecosystem changes on Walleye and Yellow Perch. We focus on four drivers: climate (including temperature and precipitation), aquatic invasive species, land use and nutrient loading, and water clarity. We identified 1,232 tests from 370 papers, split evenly between Walleye ( n = 613) and Yellow Perch ( n = 619). Climate was the most frequently studied driver ( n = 572), and growth or condition was the most frequently studied response ( n = 297). The most commonly reported relationship was “no effect” (42% of analyses), usually because multiple variables were tested and only a few were found to be significant. Overall responses varied among studies for most species-response–driver combinations. For example, the influence of invasive species on growth of both Walleye and Yellow Perch was approximately equally likely to be positive, negative, or have no effect. Even when results were variable, important patterns emerged; for example, growth responses of both species to temperature were variable, but very few negative responses were observed. A few relationships were relatively consistent across studies. Invasive species were negatively associated with Walleye recruitment and abundance, and higher water clarity was negatively associated with Walleye abundance, biomass, and production. Some variability in responses may be due to differences in methodology or the range of variables studied; others represent true context dependence, where the effect of a driver depends on the influence of other variables. Using common metrics of impact, publishing negative results, and robust analytical approaches could facilitate comparisons among systems and provide a more comprehensive understanding of the responses of Walleye and Yellow Perch to ecosystem change.

North American Journal of Fisheries Management↗

Experts correctly describe demography associated with historical decline of the endangered Indiana bat, but not recent period of stationarity

Demographic characteristics of bats are often insufficiently described for modeling populations. In data poor situations, experts are often relied upon for characterizing ecological systems. In concert with the development of a matrix model describing Indiana bat ( Myotis sodalis ) demography, we elicited estimates for parameterizing this model from 12 experts. We conducted this elicitation in two stages, requesting expert values for 12 demographic rates. These rates were adult and juvenile seasonal (winter, summer, fall) survival rates, pup survival in fall, and propensity and success at breeding. Experts were most in agreement about adult fall survival (3% Coefficient of Variation) and least in agreement about propensity of juveniles to breed (37% CV). The experts showed greater concordance for adult ( mean CV, adult = 6.2%) than for juvenile parameters ( mean CV, juvenile = 16.4%), and slightly more agreement for survival (mean CV, survival = 9.8%) compared to reproductive rates ( mean CV, reproduction = 15.1%). However, survival and reproduction were negatively and positively biased, respectively, relative to a stationary dynamic. Despite the species exhibiting near stationary dynamics for two decades prior to the onset of a potential extinction-causing agent, white-nose syndrome, expert estimates indicated a population decline of -11% per year (95% CI = -2%, -20%); quasi-extinction was predicted within a century ( mean = 61 years to QE, range = 32, 97) by 10 of the 12 experts. Were we to use these expert estimates in our modeling efforts, we would have errantly trained our models to a rapidly declining demography asymptomatic of recent demographic behavior. While experts are sometimes the only source of information, a clear understanding of the temporal and spatial context of the information being elicited is necessary to guard against wayward predictions.

PeerJ↗

The role of mesocosm studies in ecological risk analysis

Mesocosms have been primarily used as research tools for the evaluation of the fate and effects of xenobiotic chemicals at the population, community, and ecosystem levels of biological organization. This paper provides suggestions for future applications of mesocosm research. Attention should be given to the configuration of mesocosm parameters to explicitly study regional questions of ecological interest. The initial physical, chemical, and biological conditions within mesocosms should be considered as factors shaping the final results of experiments. Certain fundamental questions such as the ecological inertia and resilience of systems with different initial ecological properties should be addressed. Researchers should develop closer working relationships with mathematical modelers in linking computer models to the outcomes of mesocosm studies. Mesocosm tests, linked with models, could enable managers and regulators to forecast the regional consequences of chemicals released into the environment.

Ecological Applications↗

Migration delays caused by anthropogenic barriers: modeling dams, temperature, and success on migrating salmon smolts

Disruption to migration is a growing problem for conservation and restoration of animal populations. Anthropogenic barriers along migration paths can delay or prolong migrations, which may result in a mismatch with migration-timing adaptations. To understand the interaction of dams (as barriers along a migration path), seasonally changing environmental conditions, timing of Atlantic salmon ( Salmo salar ) downstream migration, and ultimate migration success, we used 10 years of river temperature and discharge data as a template upon which we simulated downstream movement of salmon. Atlantic salmon is a cool-water species whose downstream migrating smolts must complete migration before river temperatures become too warm. We found that dams had a local effect on survival as well as a survival effect that was spatially and temporally removed from the encounter with the dam. While smolts are delayed by dams, temperatures downstream can reach lethal or near-lethal temperatures; as a result, the match between completion of migration and the window of appropriate migration conditions can be disrupted. The strength of this spatially and temporally removed effect is at least comparable to the local effects of dams in determining smolt migration success in the presence of dams. We also considered smolts from different tributaries, varying in distance from the river mouth, to assess the potential importance of locally adapted migration timing on the effect of barriers. Migration-initiation temperature affected modeled smolt survival differentially across tributaries, with the success of smolts from upstream tributaries being much more variable across years than that of smolts with a shorter distance to travel. As a whole, these results point to the importance of broadening our spatial and temporal view when managing migrating populations. We must consider not only how many individuals never make it across migration barriers, but also the spatially and temporally removed consequences of delays at the barriers for those individuals that successfully navigate them.

Ecological Applications↗

Associations of stream geomorphic conditions and prevalence of alternative reproductive tactics among sockeye salmon populations

In many species, males may exhibit alternative life histories to circumvent the costs of intrasexual competition and female courtship. While the evolution and underlying genetic and physiological mechanisms behind alternative reproductive tactics are well studied, there has been less consideration of the ecological factors that regulate their prevalence. Here, we examine six decades of age composition records from thirty‐six populations of sockeye salmon ( Oncorhynchus nerka ) to quantify associations between spawning habitat characteristics and the prevalence of precocious sneakers known as ‘jacks’. Jack prevalence was independent of neutral genetic structure among stream populations, but varied among habitat types and as a function of continuous geomorphic characteristics. Jacks were more common in streams relative to beaches and rivers, and their prevalence was negatively associated with stream width, depth, elevation, slope and area, but positively related to bank cover. Behavioural observations showed that jacks made greater use of banks, wood and shallows than guard males, indicating that their reproductive success depends on the availability of such refuges. Our results emphasize the role of the physical habitat in shaping reproductive tactic frequencies among populations, likely through local adaptation in response to variable fitness expectations under different geomorphic conditions.

Journal of Evolutionary Biology↗

Population connectivity of deep-sea corals

Identifying the scale of dispersal among habitats has been a challenge in marine ecology for decades (Grantham et al., 2003; Kinlan & Gaines, 2003; Hixon, 2011). Unlike terrestrial habitats in which barriers to dispersal may be obvious (e.g. mountain ranges, rivers), few absolute barriers to dispersal are recognizable in the sea. Additionally, most marine species have complex life cycles in which juveniles are more mobile than adults. As such, the dynamics of populations may involve processes in distant habitats that are coupled by a transport mechanism. Studies of population connectivity try to quantify the transport, or dispersal of individuals, among geographically separated populations. For benthic marine species, such as corals and demersal fishes, colonization of new populations occurs primarily by dispersal of larvae (Figure 1; Shank, 2010). Successful dispersal and recruitment, followed by maturation and reproduction of these new migrants ensures individuals contribute to the gene pool (Hedgecock, 2007). Thus, successful dispersal links and cohesively maintains spatially separated sub-populations. At shorter time scales (10-100s years), connectivity regulates community structure by influencing the genetic composition, diversity and demographic stability of the population, whereas at longer time scales (1000s years), geographic distributions are affected (McClain and Hardy, 2010). Alternatively, populations may become extinct or speciation may occur if connectivity ceases (Cowen et al., 2007). Therefore, the genetic exchange of individuals between populations is fundamental to the short-term resilience and long-term maintenance of the species. However, for the vast majority of marine species, population connectivity remains poorly understood.

NOAA Technical Memorandum↗

Feeding ecology of native and nonnative salmonids during the expansion of a nonnative apex predator in Yellowstone Lake, Yellowstone National Park

The illegal introduction of Lake Trout Salvelinus namaycush into Yellowstone Lake, Yellowstone National Park, preceded the collapse of the native population of Yellowstone Cutthroat Trout Oncorhynchus clarkii bouvieri , producing a four-level trophic cascade. The Yellowstone Cutthroat Trout population’s collapse and the coinciding increase in Lake Trout abundance provided a rare opportunity to evaluate the feeding ecology of a native prey species and a nonnative piscivore species after the restructuring of a large lentic ecosystem. We assessed diets, stable isotope signatures, and depth-related CPUE patterns for Yellowstone Cutthroat Trout and Lake Trout during 2011–2013 to evaluate trophic overlap. To evaluate diet shifts related to density, we also compared 2011–2013 diets to those from studies conducted during previous periods with contrasting Yellowstone Cutthroat Trout and Lake Trout CPUEs. We illustrate the complex interactions between predator and prey in a simple assemblage and demonstrate how a nonnative apex predator can alter competitive interactions. The diets of Yellowstone Cutthroat Trout were dominated by zooplankton during a period when the Yellowstone Cutthroat Trout CPUE was high and were dominated by amphipods when the CPUE was reduced. Lake Trout shifted from a diet that was dominated by Yellowstone Cutthroat Trout during the early stages of the invasion to a diet that was dominated by amphipods after Lake Trout abundance had increased and after Yellowstone Cutthroat Trout prey had declined. The shifts in Yellowstone Cutthroat Trout and Lake Trout diets resulted in increased trophic similarity of these species through time due to their shared reliance on benthic amphipods. Yellowstone Cutthroat Trout not only face the threat posed by Lake Trout predation but also face the potential threat of competition with Lake Trout if amphipods are limiting. Our results demonstrate the importance of studying the long-term feeding ecology of fishes in invaded ecosystems.

Wyoming↗

Tick-, mosquito-, and rodent-borne parasite sampling designs for the National Ecological Observatory Network

Parasites and pathogens are increasingly recognized as significant drivers of ecological and evolutionary change in natural ecosystems. Concurrently, transmission of infectious agents among human, livestock, and wildlife populations represents a growing threat to veterinary and human health. In light of these trends and the scarcity of long-term time series data on infection rates among vectors and reservoirs, the National Ecological Observatory Network (NEON) will collect measurements and samples of a suite of tick-, mosquito-, and rodent-borne parasites through a continental-scale surveillance program. Here, we describe the sampling designs for these efforts, highlighting sampling priorities, field and analytical methods, and the data as well as archived samples to be made available to the research community. Insights generated by this sampling will advance current understanding of and ability to predict changes in infection and disease dynamics in novel, interdisciplinary, and collaborative ways.

Ecosphere↗

Quantifying long-term risks to sea otters from the 1989 'Exxon Valdez' oil spill: reply to Harwell & Gentile (2013)

Recovery of sea otter populations in Prince William Sound (PWS), Alaska, has been delayed for more than 2 decades following the 1989 ‘Exxon Valdez’ oil spill. Harwell & Gentile (2013; Mar Ecol Prog Ser 488:291–296) question our conclusions in Bodkin et al. (2012; Mar Ecol Prog Ser 447:273-287) regarding adverse effects that oil lingering in the environment may have on sea otters. They agree that exposure may continue, but disagree that it constitutes a significant risk to sea otters. In Bodkin et al. (2012), we suggested that subtle effects of chronic exposure were the most reasonable explanation for delayed recovery of the sea otter population in areas of western PWS, where shorelines were most heavily oiled. Here, we provide additional information on the ecology of sea otters that clarifies why the toxicological effects of oral ingestion of oil do not reflect all effects of chronic exposure. The full range of energetic, behavioral, and toxicological concerns must be considered to appraise how chronic exposure to residual oil may constrain recovery of sea otter populations.

Alaska↗

Novel observations of larval fire survival, feeding behavior, and host plant use in the regal fritillary, Speyeria idalia (Drury) (Nymphalidae)

Speyeria idalia is a prairie specialist that has experienced dramatic population declines throughout its range. Speyeria idalia is nearly extirpated from the eastern portion of its former range; however, populations within Kansas are relatively stable. We made several previously undescribed field observations of late-instar larvae and post-diapause female S. idalia in northeastern Kansas during 2014–2016. We report finding late-instar larvae at locations that were burned within weeks of detection. The observations of larvae shortly following a burn suggests that S . idalia larvae are capable of surviving fire and contradicts our current knowledge of this species. Additionally, we describe a feeding behavior characteristic of late-instar larvae. Larvae observed in the field and lab stripped leaves of host plants leaving only stems. This strip-style feeding behavior provided unique feeding evidence that was valuable to detecting the presence of larvae in the field. Finally, we documented larvae and post-diapause, egg depositing females using Viola sororia. The use of this relatively widespread and common plant by S. idalia populations in the Central Great Plains has only been implicitly documented but may have important conservation implications. These novel observations further our knowledge of the ecology of this imperiled species and provide timely information that may improve research and conservation management efforts directed toward S . idalia populations.

Journal of the Lepidopterists' Society↗

Development of an Environmental Flow Framework for the McKenzie River Basin, Oregon

The McKenzie River is a tributary to the Willamette River in northwestern Oregon. The McKenzie River is approximately 90 miles in length and has a drainage area of approximately 1,300 square miles. Two major flood control dams, a hydropower dam complex, and two hydropower canals significantly alter streamflows in the river. The structures reduce the magnitude and frequency of large and small floods while increasing the annual 7-day minimum streamflows. Stream temperatures also have been altered by the dams and other anthropogenic factors, such as the removal of riparian vegetation and channel simplification. Flow releases from one of the flood control dams are cooler in the summer and warmer in the fall in comparison to unregulated flow conditions before the dam was constructed. In 2006, the Oregon Department of Environmental Quality listed a total of 112.4, 6.3, and 55.7 miles of the McKenzie River basin mainstem and tributary stream reaches as thermally impaired for salmonid rearing, salmonid spawning, and bull trout, respectively. The analyses in this report, along with previous studies, indicate that dams have altered downstream channel morphology and ecologic communities. In addition to reducing the magnitude and frequency of floods, dams have diminished sediment transport by trapping bed material. Other anthropogenic factors, such as bank stabilization, highway construction, and reductions of in-channel wood, also have contributed to the loss of riparian habitat. A comparison of aerial photography taken in 1939 and 2005 showed substantial decreases in secondary channels, gravel bars, and channel sinuosity, particularly along the lower alluvial reaches of the McKenzie River. In addition, bed armoring and incision may contribute to habitat degradation, although further study is needed to determine the extent of these processes. Peak streamflow reduction has led to vegetation colonization and stabilization of formerly active bar surfaces. The large flood control dams on Blue River and South Fork McKenzie River likely have had the greatest effect on downstream habitats because these sediment and flood-rich tributaries historically contributed a disproportionate volume of bed material, wood, and peak flows in comparison with the spring-fed tributaries of the upper McKenzie River basin. The ecological effects of the dams were examined by focusing on nine exemplar aquatic and terrestrial species, including spring Chinook salmon, bull trout, Oregon chub, Pacific and western brook lamprey, red-legged frog, western pond turtle, alder, and cottonwood. The changes caused by the dams to streamflow hydrograph affect all these and other species in complex ways, although a few commonalities are apparent. A loss of channel complexity in the McKenzie River basin, which is associated with the reduction in flood events and widespread channel stabilization, is the primary factor related to the observed population declines for all nine exemplar species. The dams also have caused direct ecological effects by blocking access to habitat, changing the amount and timing of available critical habitat, and changing water temperature during important seasons for different life stages.

Scientific Investigations Report↗

Evaluating the effect of salinity on a simulated American Crocodile ( Crocodylus acutus ) population with applications to conservation and Everglades restoration

Everglades restoration will alter the hydrology of South Florida, affecting both water depth and salinity levels in the southern fringes of the Everglades, the habitat of the endangered American crocodile ( Crocodylus acutus ). A key question is what the effects of these hydrologic changes will be on the crocodile population. Reliable predictions of the viability of endangered species under a variety of management scenarios are of vital importance in conservation ecology. Juvenile American crocodiles are thought to be sensitive to high salinity levels, suffering reduced mass, and potentially reduced survivorship and recruitment. This could negatively impact the population recovery. We addressed the management issue of how the crocodile population will respond to alterations in hydrology with a spatially explicit individual-based model. The model is designed to relate water levels, salinities, and dominant vegetation to crocodile distribution, abundance, population growth, individual growth, survival, nesting effort, and nesting success. Our analysis shows that Everglades restoration, through its effects on water flow to estuaries, may benefit crocodile populations if increased freshwater flow reduces the chance that regional salinity levels exceed levels where small individuals lose mass. In addition, we conclude that conservation priority should be placed on reducing anthropogenic sources of mortality on large individuals, such as road mortality. Finally, research should focus on estimates of annual survivorship for large individuals.

Florida↗

Considerations for monitoring a rare anuran (Eleutherodactylus augusti)

Monitoring wildlife populations is a challenging task for scientists and resource managers. We assessed 4 methods for monitoring population size of barking frogs (Eleutherodactylus augusti) in southern Arizona: mark-recapture, distance sampling, call counts, and visual encounter surveys. Because of the ecology and behavior of this species, all methods produced data that contained too much variability and bias to be useful for monitoring population size. For cryptic species such as barking frogs, monitoring programs might be more effective if they focus on parameters other than population size.

Southwestern Naturalist↗

History and effects of hatchery salmon in the Pacific

There has been a long history of production of hatchery salmon along the Pacific coast - from California’s first efforts in the 1870s using eggs from chinook and rainbow trout to the recent large-scale production hatcheries for pink salmon in Japan and the Russian Far East. The rationale for this production has also varied from replacement of fish lost in commercial ocean harvests to mitigation and restoration of salmon in areas where extensive habitat alteration has reduced salmonid viability and abundance. Over the years, we have become very successful in producing a certain type of product from salmon hatcheries, but until recently we seldom questioned the impacts the production and release of hatchery fish may have on freshwater and marine aquatic ecosystems and on the sustainability of sympatric wild salmon populations. This paper addresses the history of hatcheries around the Pacific Rim and considers potential negative implications of hatchery-produced salmon through discussions of biological impacts and biodiversity, ecological impacts and competitive displacement, fish and ecosystem health, and genetic impacts of hatchery fish as threats to wild populations of Pacific salmon.

Speaking for the Salmon↗

Response of seabirds to fluctuations in forage fish density

Following the Exxon Valdez Oil Spill (EVOS), one concern was that prevailing ecological conditions in the Gulf of Alaska (GOA) would not favor recovery of damaged seabird populations. To address this issue, we examined relationships between oceanography, forage fish and seabirds near three seabird colonies in lower Cook Inlet (LCI) in 1995-1999 (some colony work continued until 2001). Upwelling of cold, nutrient-rich GOA waters at the entrance to the shallow LCI estuary supports a high density of juvenile pollock, sand lance, and capelin; which in turn are exploited by high densities of breeding seabirds (murres, kittiwakes, puffins, etc.) on the east side of LCI. Waters on the west side of LCI are oceanographically distinct (warmer, less saline, outflowing), and much less productive for forage fish and seabirds. Patterns of seabird foraging behavior, productivity and population change reflected patterns of forage fish abundance and distribution, which in turn depended on local oceanography. Most seabird parameters varied with forage fish density in a non-linear (e.g., sigmoidal, exponential) fashion, and in some areas and years, productivity was limited by food availability. Current and projected ecological conditions favor recovery of seabirds from the EVOS at some colonies. In 14 chapters, this report summarizes data and compiles it into 247 tables, figures and appendices. Chapter 14 provides a thorough synthesis of overall project findings. Final analyses and interpretations of data will be published later in peer-reviewed journals (in addition to 61 articles already completed).

Report↗