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Evidence of region‐wide bat population decline from long‐term monitoring and Bayesian occupancy models with empirically informed priors

Strategic conservation efforts for cryptic species, especially bats, are hindered by limited understanding of distribution and population trends. Integrating long‐term encounter surveys with multi‐season occupancy models provides a solution whereby inferences about changing occupancy probabilities and latent changes in abundance can be supported. When harnessed to a Bayesian inferential paradigm, this modeling framework offers flexibility for conservation programs that need to update prior model‐based understanding about at‐risk species with new data. This scenario is exemplified by a bat monitoring program in the Pacific Northwestern United States in which results from 8 years of surveys from 2003 to 2010 require updating with new data from 2016 to 2018. The new data were collected after the arrival of bat white‐nose syndrome and expansion of wind power generation, stressors expected to cause population declines in at least two vulnerable species, little brown bat ( Myotis lucifugus ) and the hoary bat ( Lasiurus cinereus ). We used multi‐season occupancy models with empirically informed prior distributions drawn from previous occupancy results (2003–2010) to assess evidence of contemporary decline in these two species. Empirically informed priors provided the bridge across the two monitoring periods and increased precision of parameter posterior distributions, but did not alter inferences relative to use of vague priors. We found evidence of region‐wide summertime decline for the hoary bat ( = 0.86 ± 0.10) since 2010, but no evidence of decline for the little brown bat ( = 1.1 ± 0.10). White‐nose syndrome was documented in the region in 2016 and may not yet have caused regional impact to the little brown bat. However, our discovery of hoary bat decline is consistent with the hypothesis that the longer duration and greater geographic extent of the wind energy stressor (collision and barotrauma) have impacted the species. These hypotheses can be evaluated and updated over time within our framework of pre–post impact monitoring and modeling. Our approach provides the foundation for a strategic evidence‐based conservation system and contributes to a growing preponderance of evidence from multiple lines of inquiry that bat species are declining.

Oregon, Washington↗

Giant panda (Ailuropoda melanoleuca) population dynamics and bamboo (subfamily Bambusoideae) life history: a structured population approach to examining carrying capacity when the prey are semelparous

The giant panda, Ailuropoda melanoleuca, is a highly specialized Ursid whose diet consists almost entirely of various species of bamboo. Bamboo (Bambusoideae) is a grass subfamily whose species often exhibit a synchronous semelparity. Synchronous semelparity can create local drops in carrying capacity for the panda. We modeled the interaction of pandas and their bamboo food resources with an age structured panda population model linked to a natural history model of bamboo biomass dynamics based on literature values of bamboo biomass, and giant panda life history dynamics. This paper reports the results of our examination of the interaction between pandas and their bamboo food resource and its implications for panda conservation. In the model all panda populations were well below the carrying capacity of the habitat. The giant panda populations growth was most sensitive to changes in birth rates and removal of reproductive aged individuals. Periodic starvation that has been documented in conjunction with bamboo die-offs is probably related to the inability to move to other areas within the region where bamboo is still available. Based on the results of this model, giant panda conservation should concentrate on keeping breeding individuals in the wild, keep corridors to different bamboo species open to pandas, and to concentrate research on bamboo life history.

Ecological Modelling↗

Fluorescent biomarkers demonstrate prospects for spreadable vaccines to control disease transmission in wild bats

Vaccines that autonomously transfer among individuals have been proposed as a strategy to control infectious diseases within inaccessible wildlife populations. However, rates of vaccine spread and epidemiological efficacy in real-world systems remain elusive. Here, we investigate whether topical vaccines that transfer among individuals through social contacts can control vampire bat rabies—a medically and economically important zoonosis in Latin America. Field experiments in three Peruvian bat colonies, which used fluorescent biomarkers as a proxy for the bat-to-bat transfer and ingestion of an oral vaccine, revealed that vaccine transfer would increase population-level immunity up to 2.6 times beyond the same effort using conventional, non-spreadable vaccines. Mathematical models showed that observed levels of vaccine transfer would reduce the probability, size and duration of rabies outbreaks, even at low but realistically achievable levels of vaccine application. Models further predicted that existing vaccines provide substantial advantages over culling bats—the policy currently implemented in North, Central and South America. Linking field studies with biomarkers to mathematical models can inform how spreadable vaccines may combat pathogens of health and conservation concern before costly investments in vaccine design and testing.

Nature Ecology and Evotution↗

Seawater consumption and water flux in the common dolphin Delphinus delphis

Two captive female common dolphins (59 kg and 55 kg) were given intravenous injections of tritiated water (HTO) and sodium-22 (Na-22) after the first day of a 5-day fast. Blood samples were collected each of the next 4 days. Total body water was 37% of total body weight, and the mean rate of water turnover was 77 ml∙kg⁻¹day⁻¹. This low value for total body water of a mammal is due to the high blubber content of the body. Exchangeable sodium levels were 37 and 40 meq∙kg⁻¹, with turnover rate of 6 meq∙kg⁻¹ day⁻¹. Skin was shown to be impermeable to sodium, so the only sodium source for these animals was seawater . Seawater drunk at a rate of 12 and 13 ml∙ kg⁻¹day⁻¹ accounted for the observed sodium turnover and about 1/6 of the total water turnover. Estimated water turnover from food and seawater consumption is the same as total water turnover predicted for terrestrial mammals of the same weight. However, the low body water content of these dolphins indicates that they have a high fractional rate of water turnover. Most of the body water turnover is due to the permeability of the skin. The rapid fractional water turnover, seawater consumption , and dilute urine indicate that conservation is not a major aspect of the fasting dolphin's water budget. Feeding dolphins , however, may benefit from the urinary osmotic space that seawater provides for the urea produced by protein catabolism.

Ecological and Evolutionary Physiology↗

Ecological correlates of fecal corticosterone metabolites in female Greater Sage-Grouse (Centrococercus urophasianus)

Measurement of physiological responses can reveal effects of ecological conditions on an animal and correlate with demographic parameters. Ecological conditions for many animal species have deteriorated as a function of invasive plants and habitat fragmentation. Expansion of juniper (Juniperus spp.) trees and invasion of annual grasses into sagebrush (Artemisia spp.) ecosystems have contributed to habitat degradation for Greater Sage-Grouse (Centrococercus urophasianus (Bonaparte, 1827); hereafter, “Sage-Grouse”), a species of conservation concern throughout its range. We evaluated relationships between habitat use in a landscape modified by juniper expansion and annual grasses and corticosterone metabolite levels (stress responses) in feces (FCORTm) of female Sage-Grouse. We used remotely sensed data to estimate vegetation cover within hens’ home ranges and accounted for factors that influence FCORTm in other vertebrates, such as age and weather. We collected 36 fecal samples from 22 radio-collared hens during the brood-rearing season (24 May–26 July) in southwestern Idaho 2017–18. Concentrations of corticosterone increased with home range size but decreased with reproductive effort and temperature. The importance of home range size suggests that maintaining or improving habitats that promote smaller home ranges would likely facilitate a lower stress response by hens, which should benefit Sage-Grouse survival and reproduction.

Idaho↗

Hybridization between Yellowstone cutthroat trout and rainbow trout alters the expression of muscle growth-related genes and their relationships with growth patterns

Hybridization creates novel gene combinations that may generate important evolutionary novelty, but may also reduce existing adaptation by interrupting inherent biological processes, such as genotype-environment interactions. Hybridization often causes substantial change in patterns of gene expression, which, in turn, may cause phenotypic change. Rainbow trout ( Oncorhynchus mykiss ) and cutthroat trout ( O . clarkii ) produce viable hybrids in the wild, and introgressive hybridization with introduced rainbow trout is a major conservation concern for native cutthroat trout. The two species differ in body shape, which is likely an evolutionary adaptation to their native environments, and their hybrids tend to show intermediate morphology. The characterization of gene expression patterns may provide insights on the genetic basis of hybrid and parental morphologies, as well as on the ecological performance of hybrids in the wild. Here, we evaluated the expression of eight growth-related genes (MSTN-1a, MSTN-1b, MyoD1a, MyoD1b, MRF-4, IGF-1, IGF-2, and CAST-L) and the relationship of these genes with growth traits (length, weight, and condition factor) in six line crosses: both parental species, both reciprocal F1 hybrids, and both first-generation backcrosses (F1 x rainbow trout and F1 x cutthroat trout). Four of these genes were differentially expressed among rainbow, cutthroat, and their hybrids. Transcript abundance was significantly correlated with growth traits across the parent species, but not across hybrids. Our findings suggest that rainbow and cutthroat trout exhibit differences in muscle growth regulation, that transcriptional networks may be modified by hybridization, and that hybridization disrupts intrinsic relationships between gene expression and growth patterns that may be functionally important for phenotypic adaptations.

PLoS ONE↗

Sediment accretion rates and sediment composition in Prairie Pothole wetlands under varying land use practices, Montana, United States

Increased sedimentation and nutrient cycle changes in Prairie Pothole Region wetlands associated with agriculture threaten the permanence and ecological functionality of these important resources. To determine the effects of land use on sedimentation and nutrient cycling, soil cores were analyzed for cesium-137 ( 137 Cs), lead-210 ( 210 Pb), and potassium-40 ( 40 K) activities; textural composition; organic and inorganic carbon (C); and total nitrogen (N) from twelve wetlands surrounded by cropland, Conservation Reserve Program (CRP) lands, or native prairie uplands. Separate soil cores from nine of these wetlands were also analyzed for phosphorus (P), nitrate (NO 3 ), and ammonium (NH 4 ) concentrations. Wetlands surrounded by cropland had significantly greater linear sediment accretion rates than wetlands surrounded by CRP or native prairie. Linear sediment accretion rates from wetlands surrounded by cropland were 2.7 and 6 times greater than wetlands surrounded by native prairie when calculated from the initial and peak occurrence of 137 Cs, respectively, and 0.15 cm y−1 (0.06 in yr−1) greater when calculated from 210 Pb. Relative to wetlands surrounded by CRP, linear sediment accretion rates for wetlands surrounded by cropland were 4.4 times greater when calculated from the peak occurrence of 137 Cs. No significant differences existed between the linear sediment accretion rates between wetlands surrounded by native prairie or CRP uplands. Wetlands surrounded by cropland had increased clay, P, NO 3 , and NH 4 , and decreased total C and N concentrations compared to wetlands surrounded by native prairie. Wetlands surrounded by CRP had the lowest P and NO 3 concentrations and had clay, NH 4 , C, and N concentrations between those of cropland and native prairie wetlands. We documented increased linear sediment accretion rates and changes in the textural and chemical properties of sediments in wetlands with cultivated uplands relative to wetlands with native prairie uplands. These findings demonstrate the value of the CRP at protecting wetland catchments to reduce sedimentation.

Montana↗

Evaluating land-use change scenarios for the Puget Sound Basin, Washington, within the ecosystem recovery target model-based framework

The Puget Sound Basin, Washington, has experienced rapid urban growth in recent decades, with varying impacts to local ecosystems and natural resources. To plan for future growth, land managers often use scenarios to assess how the pattern and volume of growth may affect natural resources. Using three different land-management scenarios for the years 2000–2060, we assessed various spatial patterns of urban growth relative to maps depicting a model-based characterization of the ecological integrity and recent development pressure of individual land parcels. The three scenarios depict future trajectories of land-use change under alternative management strategies—status quo, managed growth, and unconstrained growth. The resulting analysis offers a preliminary assessment of how future growth patterns in the Puget Sound Basin may impact land targeted for conservation and how short-term metrics of land-development pressure compare to longer term growth projections.

Washington↗

Impacts of climate change on biodiversity, ecosystems, and ecosystem services: technical input to the 2013 National Climate Assessment

Ecosystems, and the biodiversity and services they support, are intrinsically dependent on climate. During the twentieth century, climate change has had documented impacts on ecological systems, and impacts are expected to increase as climate change continues and perhaps even accelerates. This technical input to the National Climate Assessment synthesizes our scientific understanding of the way climate change is affecting biodiversity, ecosystems, ecosystem services, and what strategies might be employed to decrease current and future risks. Building on past assessments of how climate change and other stressors are affecting ecosystems in the United States and around the world, we approach the subject from several different perspectives. First, we review the observed and projected impacts on biodiversity, with a focus on genes, species, and assemblages of species. Next, we examine how climate change is affecting ecosystem structural elements—such as biomass, architecture, and heterogeneity—and functions—specifically, as related to the fluxes of energy and matter. People experience climate change impacts on biodiversity and ecosystems as changes in ecosystem services; people depend on ecosystems for resources that are harvested, their role in regulating the movement of materials and disturbances, and their recreational, cultural, and aesthetic value. Thus, we review newly emerging research to determine how human activities and a changing climate are likely to alter the delivery of these ecosystem services. This technical input also examines two cross-cutting topics. First, we recognize that climate change is happening against the backdrop of a wide range of other environmental and anthropogenic stressors, many of which have caused dramatic ecosystem degradation already. This broader range of stressors interacts with climate change, and complicates our abilities to predict and manage the impacts on biodiversity, ecosystems, and the services they support. The second cross-cutting topic is the rapidly advancing field of climate adaptation, where there has been significant progress in developing the conceptual framework, planning approaches, and strategies for safeguarding biodiversity and other ecological resources. At the same time, ecosystem-based adaptation is becoming more prominent as a way to utilize ecosystem services to help human systems adapt to climate change. In this summary, we present key findings of the technical input, focusing on themes that can be found throughout the report. Thus, this summary takes a more integrated look at the question of how climate change is affecting our ecological resources, the implications for humans, and possible response strategies. This integrated approach better reflects the impacts of climate in the real world, where changes in ecosystem structure or function will alter the viability of different species and the efficacy of ecosystem services. Likewise, adaptation to climate change will simultaneously address a range of conservation goals. Case studies are used to illustrate this complete picture throughout the report; a snapshot of one case study, 2011 Las Conchas, New Mexico Fire , is included in this summary.

Report↗

Barred owl research needs and prioritization in California

Barred owls (Strix varia) have reached high densities within the range of the northern spotted owl (S. occidentalis caurina) and are rapidly increasing in number within the range of the California spotted owl (S. o. occidentalis). Encroaching populations of barred owls pose a significant competitive threat to the viability of both spotted owl subspecies in California. In response, the Director of the California Department of Fish and Wildlife (CDFW) convened the California Barred Owl Science Team (BOST) to identify and address the threat posed by barred owls to spotted owls in California. BOST is composed of subject matter scientists with a goal to provide objective scientific review and recommendations to CDFW to promote the recovery and conservation of spotted owls in California. In this document, BOST identifies, describes, and prioritizes key research needs for barred owls that have the potential to benefit the conservation of spotted owls in California. Key research needs were identified from multiple in-person and remote meetings of BOST, with considerable input from attending representatives from state and federal natural resource agencies. BOST and liaisons recognize that periodic updates of this document will likely be required as more is learned about the ecology of barred owls in California and research needs and priorities evolve. Research that BOST deemed the most likely to provide a rigorous scientific basis for reducing barred owl populations included experimental removals, along with ecological studies expected to generate information that would provide avenues for the effective management of barred owls. Other high priority research needs include research using biological samples obtained during experimental removals to better understand the ecology of barred owls and the threats they pose to spotted owls and associated wildlife. We conclude the document with a discussion of how projects are related to the State Wildlife Action Plan. In Appendix I, we discuss considerations for maximizing the success of proposed removal experiments and ecological research on barred owls.

Report↗

An analytical approach for simulating effects of avalanches on mountain goat population dynamics: Implications for management and conservation

Mountain environments with snow avalanche hazard cover about 6% of Earth’s land area and occur on all continents. Whereas human risks associated with avalanche hazard have been widely studied, little is known about how avalanche activity affects population dynamics in mountain wildlife. Globally, 32 species of mountain ungulates across 70 countries occupy avalanche-prone terrain. Avalanches comprise the leading cause of mortality in coastal Alaskan mountain goats (mean = 36%, range = 23 - 65%, depending on area), and disproportionately remove prime-aged individuals from populations. The implications of such rates and patterns of mortality on population growth rate are likely to be significant given the species’ low reproductive productivity, but further clarity is needed. To fill this knowledge gap, we developed a sex- and age-specific population modeling approach that integrates both reproduction and mortality to simulate the effects of avalanche-caused mortality on population growth rate across a range of empirically-observed states of avalanche-caused mortality (minimum, mean, maximum). Simulations were conducted to illustrate model functionality, and also provide insight about potential avalanche impacts on population demographic processes. For example, when severe avalanche years occur populations can experience significant additive mortality and declines (up to 15%). Due to low reproductive rates and slow life-history strategy of the species, such impacts can lead to long demographic recovery times (up to 11 years). From a species conservation perspective, such impacts are striking, and highlight the utility of employing a quantitative modeling approach to predict possible effects of avalanches on mountain ungulate population dynamics and viability. Our work explicitly builds upon recent findings about the importance of avalanches on mountain-adapted animal populations, and associated implications for the cultural and ecological communities that depend on them.

Alaska↗

An ecohydrological typology for thermal refuges in streams and rivers

Thermal refuges are thermally distinct riverscape features used by aquatic organisms during unfavorable thermal events, facilitating resilience in marginal environments. However, the thermal refuge concept is nebulous, and the often interchangeable use of the term ‘thermal refugia’ creates additional ambiguity. We argue that lexical differences resulting from divergent scholarly trainings hinder holistic understanding of thermal refuges; thus, existing studies would benefit from a structured framework for thermal refuge conceptualization. Herein, we articulate an ecohydrological typology for defining and characterizing thermal refuges in streams and rivers by identifying key hydrological and thermal characteristics and variations in ecological function described in the literature. We use concepts that are easily definable, measurable, and transferable across disciplines, riverscapes, and species to discriminate among thermal refuge types. Future work can use our typology as a basis for more informed interdisciplinary discussion and interpretation of thermal refuges’ role in riverscapes through more hypothesis‐driven research and conservation‐focused management.

Ecohydrology↗

An old tree and its many‐shaped leaves

Plant leaf shape is highly variable. The beauty of leaves can be purely aesthetic, but also derives from the mystery of adaptive significance. This mystery is especially compelling for species with strongly varying leaf shape on a single tree. The desert poplar (Populus euphratica Oliv.) is an ancient and protected species, and forms riparian forests in deserts of mid and west Asia, north Africa and southern Europe. More than half of all desert poplar forest is found along the Tarim River within the Taklamakan, a desert in northwest China. The Taklamakan is in the rain shadow of the Himalayas and the world’s second largest shifting sand desert. There, forest extent has been greatly reduced, mostly due to flow diversion for agriculture, but many old trees persist. The tree in the picture is the oldest recorded living desert poplar. The innermost ring in a core dates back to 1709 or earlier. The leaves on this tree vary widely in shape, from smooth to dentate, from narrow to broad, and from linear to lanceolate to ovate. Drought is a dominant stressor in this hyperarid environment with highly variable temperature and soil salinity. Leaf shape may relate to tradeoffs among water conservation, thermoregulation and growth rate. Is this extremely wide variation in leaf shape on a single tree an adaptation to the large temporal fluctuations in the environment? Alternatively, could leaf polymorphism be a neutral and thus non-adaptive consequence of variable gene expressions related to developmental stages. Answers to these questions can enrich the ecological and evolutionary understanding of trees and ecological drought.

Frontiers in Ecology and the Environment↗

Modelling pinniped abundance and distribution by combining counts at terrestrial sites and in-water sightings

Pinnipeds are commonly monitored using aerial photographic surveys at land- or ice-based sites, where animals come ashore for resting, pupping, molting, and to avoid predators. Although these counts form the basis for monitoring population change over time, they do not provide information regarding where animals occur in the water, which is often of management and conservation interest. In this study, we developed a hierarchical model that links counts of pinnipeds at terrestrial sites to sightings-at-sea and estimates abundance, spatial distribution, and the proportion of time spent on land (attendance probability). The structure of the model also allows for the inclusion of predictors that may explain variation in ecological and observation processes. We applied the model to Steller sea lions ( Eumetopias jubatus ) in Glacier Bay, Alaska using counts of sea lions from aerial photographic surveys and opportunistic in-water sightings from vessel surveys. Glacier Bay provided an ideal test and application of the model because data are available on attendance probability based on long-term monitoring. We found that occurrence in the water was positively related to proximity to terrestrial sites, as would be expected for a species that engages in central-place foraging. The proportion of sea lions in attendance at terrestrial sites and overall abundance estimates were consistent with reports from the literature and monitoring programs. The model we describe has benefit and utility for park managers who wish to better understand the overlap between pinnipeds and visitors, and the framework that we present has potential for application across a variety of study systems and taxa.

Alaska↗

Managing climate change refugia for climate adaptation

Refugia have long been studied from paleontological and biogeographical perspectives to understand how populations persisted during past periods of unfavorable climate. Recently, researchers have applied the idea to contemporary landscapes to identify climate change refugia, here defined as areas relatively buffered from contemporary climate change over time that enable persistence of valued physical, ecological, and socio-cultural resources. We differentiate historical and contemporary views, and characterize physical and ecological processes that create and maintain climate change refugia. We then delineate how refugia can fit into existing decision support frameworks for climate adaptation and describe seven steps for managing them. Finally, we identify challenges and opportunities for operationalizing the concept of climate change refugia. Managing climate change refugia can be an important option for conservation in the face of ongoing climate change.

PLoS ONE↗

Effects of landscape gradients on wetland vegetation communities: information for large-scale restoration

Projects of the scope of the restoration of the Florida Everglades require substantial information regarding ecological mechanisms, and these are often poorly understood. We provide critical base knowledge for Everglades restoration by characterizing the existing vegetation communities of an Everglades remnant, describing how present and historic hydrology affect wetland vegetation community composition, and documenting change from communities described in previous studies. Vegetation biomass samples were collected along transects across Water Conservation Area 3A South (3AS). Ten community types were present between November 2002 and 2005. Separate analyses for key a priori groups (slough, wet prairie, and sawgrass) provided detailed conclusions about effects of historic hydrology on the vegetation of 3AS. Communities were affected by hydrologic variables LIP to four years previous to the sample. We identified wet prairie/slough species such as Eleocharis spp. and Nymphaea odorata as short-term sentinel species of community change. Sawgrass and N. odorata should be monitored for long-term change. Comparisons to preceding studies indicated that many of the communities of previous times, when conditions were drier, no longer exist in our study area and have been replaced by deeper water community types.

Wetlands↗

Cranes in East Asia; Proceedings of the symposium held in Harbin, People's Republic of China, June 9-18, 1998

Introductory Remarks (R.C. Stendell): I appreciate the opportunity to be in Harbin and participate in the International Scientific Workshop on Cranes in East Asia. I would like to provide some background information on how this meeting came to be. Almost one year ago, in July 1997, Dr. Kun John of the Seoul National University contacted the U.S. Geological Survey’s Midcontinent Ecological Science Center (MESC) requesting that we host a meeting of scientists from the Republic of Korea (ROK) and the Democratic People’s Republic of Korea (DPRK) to discuss the biology and ecology of cranes on the Korean peninsula. Dr. John and his colleagues expressed concern about three species of cranes that migrate up and down the Korean peninsula and use the Demilitarized Zone. The species of interest are the Red-crowned Crane, White-naped Crane, and the Hooded Crane. The primary question was the conservation of these species in this part of the world. Another concern involved exploring potential economic values and opportunities associated with these species. Richard Johnson, an economist at MESC, assumed responsibility as the primary MESC contact to help bring about this meeting.

Open-File Report↗

Pit tag application in native freshwater mussels: Case studies across small, medium, and large rivers

Since their first use in the mid-1980s, external passive integrated transponder (PIT) tags have facilitated innovative investigations into multiple biological traits of animals. For native freshwater mussels, PIT tags are frequently used in capture-mark-recapture applications because they allow repeated, noninvasive sampling, are easy to apply, have high retention rates, and have negligible short-term effects on growth and survival. Because of these traits, resource managers and scientists are using PIT-tagged animals to estimate survival and movement of mussels associated with restoration efforts. However, consistency is limited in how PIT tags are affixed, monitored, and reported. Thus, our objectives were to (1) share our collective experiences in PIT tagging mussels across three case studies in small, medium, and large rivers and (2) propose guidelines for tagging and reporting data from PIT tag studies with native freshwater mussels to facilitate comparisons across future studies. The number of studies that have marked mussels with PIT tags has increased over the past 10 years. The ability to detect mussels using PIT tags has substantially advanced research in three areas of mussel ecology: (1) estimating vital rates (e.g., growth and survival), (2) tracking movements and behaviors of captively propagated, wild, and translocated individuals, and (3) improving our understanding of life history traits, such as reproductive timing. Each case study offers insights on tagging methods, tag loss, tag retention, and monitoring frequency across multiple species that range in conservation status from common to rare. We conclude with best-practice guidelines for placing PIT tags on freshwater mussels and a list of variables that could be reported in future studies to facilitate cross-system comparisons.

Freshwater Mollusk Biology and Conservation↗