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USGS2025

The relative influence of climate extremes and species richness on the temporal variability of bird communities

Understanding the relationship between biodiversity and ecological stability is increasingly urgent as rapid species extinction continues. Though evidence of positive diversity–stability relationships is accumulating, empirical results are inconsistent, and effect sizes tend to be small, raising questions about relative contributions of intrinsic (i.e., species composition/interactions) and extrinsic (i.e., environmental) drivers of stability. Community stability may be more strongly influenced by environmental conditions than by community diversity in some contexts, yet little is known about the comparative importance of diversity and climate means, extremes, and variability in regulating stability. We used a half-century of continental-scale bird data to quantify avian community temporal variability (a metric often used to approximate ecological stability) at 1379 sites and compared relative effects of climatic variables and species richness. We found that extreme heat and extremely low precipitation at decadal scales are associated with high bird community variability and these climate variables outperformed species richness in terms of variance explained and magnitude of effect. This provides empirical support for the theoretical concept that, at a continental, decadal scale, environmental conditions can play a larger role than intrinsic factors in determining community stability. Our findings also increase understanding of how climate extremes cause diverse ecological responses.

Ecology↗

USGS2020

Combining physical and species‐based approaches improves refugia identification

Climate‐change refugia – locations likely to facilitate species persistence under climate change – are increasingly important components of conservation planning. Recent approaches for identifying refugia at broad scales include identifying regions that are projected to experience less severe changes (climatic exposure), that contain a diversity of physical and topographic features (environmental diversity), and that either retain or remain close to suitable climatic conditions (climate tracking, including both “species‐neutral” and species‐based approaches). We compared the degree of agreement between these approaches – with respect to their spatial coverage and other characteristics – across much of North America. This analysis found that approaches based on environmental diversity and species‐neutral climatic gradients both favored topographically complex regions, whereas climatic exposure and species‐based approaches identified regions with a range of topographic characteristics. Species‐based approaches targeting specific habitat groups identified unique regions missed by other approaches, emphasizing the importance of asking the question “refugia for what?” when prioritizing refugia. Our results highlight the necessity of including climatic exposure and species‐based information in addition to topographic diversity and climatic gradients in refugia analyses.

Frontiers in Ecology and the Environment↗

USGS2017

Evaluating population expansion of black bears using spatial capture-recapture

The population of American black bears ( Ursus americanus ) in southern New York, USA has been growing and expanding in range since the 1990s. This has motivated a need to anticipate future patterns of range expansion. We conducted a non-invasive, genetic, spatial capture-recapture (SCR) study to estimate black bear density and identify spatial patterns of population density that are potentially associated with range expansion. We collected hair samples in a 2,519-km 2 study area in southern New York with barbed-wire hair snares and identified individuals and measured genetic diversity using 7 microsatellite loci and 1 sex-linked marker. We estimated a mean density of black bears in the region of 13.7 bears/100 km 2 , and detected a slight latitudinal gradient in density consistent with the documented range expansion. However, elevation and the amounts of forest, crop, and developed landcover types did not influence density, suggesting that bears are using a diversity of resources in this heterogeneous landscape outside their previously described distribution. These results provide the first robust baseline estimates for population density and distribution associated with different landcover types in the expanded bear range. Further, genetic diversity was comparable to that of non-expanding black bear populations in the eastern United States, and in combination with the latitudinal density gradient, suggest that the study area is not at the colonizing front of the range expansion. In addition, the diversity of landcover types used by bears in the study area implies a possible lack of constraints for further northern expansion of the black bear range. Our non-invasive, genetic, spatial capture-recapture approach has utility for studying populations of other species that may be expanding in range because SCR allows for the testing of explicit, spatial ecological hypotheses.

New York↗

USGS2011

Seasonal habitat use and selection by grizzly bears in Northern British Columbia

We defined patterns of habitat use and selection by female grizzly bears (Ursus arctos) in the Besa-Prophet watershed of northern British Columbia. We fitted 13 adult females with Geographic Positioning System (GPS) radio-collars and monitored them between 2001 and 2004. We examined patterns of habitat selection by grizzly bears relative to topographical attributes and 3 potential surrogates of food availability: land-cover class, vegetation biomass or quality (as measured by the Normalized Difference Vegetation Index), and selection value for prey species themselves (moose [Alces alces], elk [Cervus elaphus], woodland caribou [Rangifer tarandus]. Stone's sheep [Ovis dalli stonei]). Although vegetation biomass and quality, and selection values for prey were important in seasonal selection by some individual bears, land-cover class, elevation, aspect, and vegetation diversity most influenced patterns of habitat selection across grizzly bears, which rely on availability of plant foods and encounters with ungulate prey. Grizzly bears as a group avoided conifer stands and areas of low vegetation diversity, and selected for burned land-cover classes and high vegetation diversity across seasons. They also selected mid elevations from what was available within seasonal ranges. Quantifying relative use of different attributes helped place selection patterns within the context of the landscape. Grizzly bears used higher elevations (1,595 ± 31 m SE) in spring and lower elevations (1,436 ± 27 m) in fall; the range of average elevations used among individuals was highest (500 m) during the summer. During all seasons, grizzly bears most frequented aspects with high solar gain. Use was distributed across 10 land-cover classes and depended on season. Management and conservation actions must maintain a diverse habitat matrix distributed across a large elevational gradient to ensure persistence of grizzly bears as levels of human access increase in the northern Rocky Mountains.

Northern British Columbia↗

USGS2026

Whatever it takes— Shaping the L&O Letters Early Career Publication Honor to deliver true benefit

There are clear advantages for those who openly share their research. Publishing Open Access (OA) articles can increase author visibility (McCabe and Snyder 2014 ), improve productivity metrics (i.e., more diverse and higher citation rates; Huang et al. 2024 ; Piwowar et al. 2018 ), widen collaborative networks (Tai and Robinson 2018 ), and help secure future funding and/or comply with funder mandates (Herrmannova et al. 2019 ; Larivière and Sugimoto 2018 ; McKiernan et al. 2016 and references therein). These benefits can be vital for students and early career researchers (ECRs) trying to advance and thrive in academia. However, publishing papers in Gold OA journals such as L&O Letters comes at a notable financial cost, as these journals require that the corresponding author (or their organization or funder) pay a fee to make their published article immediately freely available to the public. These article processing charges can be prohibitively expensive (Fontúrbel and Vizentin-Bugoni 2021 ; Mekonnen et al. 2022 ; Ross-Hellauer et al. 2022 ). While Read and Publish agreements and waiver programs may be available to help cover these costs, these programs often exclude independent authors as well as those affiliated with ineligible or non-participating institutions (e.g., publisher waivers using the Research4Life eligibility criteria for access currently only allow authors from one of 13 South American countries/territories to publish free of charge). Besides the financial barrier, authors from underrepresented groups can also face a myriad of other publishing roadblocks, such as linguistic challenges (for speakers of English as a foreign language; Amano et al. 2023 ; Franco-Santos 2024 ; Ramírez-Castañeda 2020 ) and geopolitical-scientific bias (e.g., science conducted in the Global South being seen as less impactful and innovative than that conducted in the Global North; Ghosh 2022 ; Smits et al. 2025 ). For context, Global South (GS) and Global North (GN) are not geographic determinations (i.e., South and North hemispheres), but geopolitical classifications regarding a nation's level of development (underdeveloped, developing, or developed). For example: Australia and Brazil are both located in the southern hemisphere, but the former is considered as a Global North (developed) country and the latter as a Global South (underdeveloped or developing) country. When a subset of researchers is unable to openly publish their work, the diversity of voices represented in OA literature can decline (Williams et al. 2023 ). Loss of diversity is a loss to science, as diversity increases productivity, innovation, and scientific impact (refer to opening quote; Freeman and Huang 2014 ; AlShebli et al. 2018 ; Tomillo et al. 2022 ). To partially address the above-mentioned challenges and enable underfunded ECRs to publish their work in OA format, the biennial L&O Letters Early Career Publication Honor (ECPH) was established in 2020 by the ASLO Raelyn Cole Editorial (RCE) Fellows (Hotaling et al. 2022 ). Below we reflect on the benefits, outcomes, and scientific impact of the 2022 call and introduce the articles it helped publish in L&O Letters , which are bundled in this section of the ECPH Virtual Issue. Articles published in L&O Letters during other calls are available in their respective sections. We also refer the reader to six articles published by ECRs in other journals (not included in this Virtual Issue) whose content originally warranted their leading author an ECPH in 2022.

Limnology and Oceanography Letters↗

USGS2011

Fish assemblages at engineered and natural channel structures in the lower Missouri river: implications for modified dike structures

Large rivers throughout the world have been modified by using dike structures to divert water flows to deepwater habitats to maintain navigation channels. These modifications have been implicated in the decline in habitat diversity and native fishes. However, dike structures have been modified in the Missouri River USA to increase habitat diversity to aid in the recovery of native fishes. We compared species occupancy and fish community composition at natural sandbars and at notched and un-notched rock dikes along the lower Missouri River to determine if notching dikes increases species diversity or occupancy of native fishes. Fish were collected using gill nets, trammel nets, otter trawls, and mini fyke nets throughout the lower 1212 river km of the Missouri River USA from 2003 to 2006. Few differences in species richness and diversity were evident among engineered dike structures and natural sandbars. Notching a dike structure had no effect on proportional abundance of fluvial dependents, fluvial specialists, and macrohabitat generalists. Occupancy at notched dikes increased for two species but did not differ for 17 other species (81%). Our results suggest that dike structures may provide suitable habitats for fluvial species compared with channel sand bars, but dike notching did not increase abundance or occupancy of most Missouri River fishes. Published in 2011 by John Wiley & Sons, Ltd.

River Research and Applications↗

USGS2022

Evidence of alternative trophic pathways for fish consumers in a large river system in the face of invasion

Large rivers are susceptible to anthropogenic alteration, which can result in drastic changes to their functional ecology. We evaluated spatial–temporal changes in the functional fish communities of the Upper Mississippi River System (UMRS) using data from six study reaches. Species were classified into one of 14 feeding guilds and mass per unit effort (MPUE) was then calculated for each feeding guild annually per gear type. MPUE was standardized using the multigear mean standardization method (MGMS) and log-transformed. Both ANOSIM and Chi-square tests were used to determine differences in MPUE among reaches. We then estimated functional diversity by calculating the number of functional groups ( N ), Margalef's d , Pielou's J′, Shannon's Diversity, and Simpson's Diversity Index. An AR(1) time series model was used to investigate proportional changes in each guild over 25 years. To evaluate the effect of invasive Carp species in invaded reaches, a Chow test was applied to observations between 2000 and 2005. Analyses revealed differences in the functional fish community among reaches. We found differences in functional diversity metrics among study reaches, but there was little evidence that this differed between invaded and non-invaded reaches. Results determined that invertivore/detritivores have been consistently declining system-wide, with few groups showing a net change. There was also little evidence that invasion altered the proportion of any functional guild. Evaluating the spatial–temporal patterns of functional communities is beneficial to understanding the resilience of a system and can provide further insight into its trophic needs when considering future restoration initiatives.

River Research and Applications↗

USGS2026

Ecology of reintroduced Rocky Mountain bighorn sheep in Dinosaur National Monument

Translocations have been widely used to restore and conserve bighorn sheep ( Ovis canadensis ) populations in North America. Some translocations have been successful, but many populations remain small and genetically isolated. Population structure can influence the viability and long-term success of reintroductions. Social ungulates often function as interconnected subpopulations (metapopulations); however, few studies evaluate subpopulation sizes, connectivity, and genetic diversity within metapopulations. To address this gap, we conducted a comprehensive study of a reintroduced Rocky Mountain bighorn sheep ( Ovis canadensis canadensis ) population in Dinosaur National Monument in Colorado and Utah, USA, between 2006–2020. We analyzed global positioning system (GPS) radio-collar data, genetic samples, and results of health testing to evaluate abundance, distribution, genetic structure and diversity, habitat use, movement and connectivity, and presence of or exposure to respiratory pathogens. We integrated these analyses to evaluate the outcomes of a reintroduction effort that began in 1952, over 70 years ago, and to inform management decisions in Dinosaur National Monument. We also provide a framework for evaluating metapopulation processes, including a non-invasive approach that links genetic structure with Bayesian spatial capture-recapture analyses to estimate subpopulation sizes. Despite models indicating continuous suitable habitat, we found a spatially structured population with at least 4 subpopulations with constrained connectivity. Evidence from step selection and density analyses suggested that movement among subpopulations may be limited by semi-permeable barriers including rivers and human disturbance, which could contribute to maintenance of spatial structure over time. In 2006, antibody to Mycoplasma ovipneumoniae was detected in all geographically and genetically distinct subpopulations. Widespread clinical signs of disease and a confirmed exposure to M. ovipneumoniae in 2019 indicate a long-term disease challenge. Proximity to domestic sheep creates repeated opportunities for introduction of new M. ovipneumoniae strains. We estimated abundance in 2019 at 109 (95% CrI = 87–133), composed of subpopulations ranging from 18–39 animals (95% CrIs from 11–50). Genetic diversity was relatively high compared to other reintroduced and native Rocky Mountain bighorn sheep populations, which is likely a consequence of multiple translocations from different sources. Three of 4 subpopulation centers generally aligned with the locations of original translocation release sites. Persistence in the presence of pathogens may be facilitated by metapopulation structure and moderately high genetic diversity. Conversely, metapopulation structure can also facilitate pathogen persistence. Our approach offers a path to advance understanding of the population ecology of reintroduced bighorn sheep and can inform effective conservation and management of their populations.

Colorado, Wyoming↗

USGS1996

Environmental contaminants and productivity in an extinct heronry at Charleston Harbor, South Carolina, U.S.A., 1984

Our objectives were to collect information on contaminant levels and productivity of wading birds at the Drum Island heronry in Charleston Harbor, South Carolina, before diversion of the Cooper River took place in 1985. The diversion was expected to reduce water flow by ∼80% into the Harbor, thereby concentrating industrial effluents near the heronry with potentially harmful effects. Hatching success of white ibises ( Eudocimus albus ) in 1984 averaged 66% and 1.0 chick per nest survived to three weeks post-hatch. Fresh eggs collected from a sample of nests contained only background levels of DDT, DDE, and Dieldrin; no PCBs, diphenyl ethers, or styrenes were detected. Pesticide residues in eggs were not correlated ( P >0.05) with productivity in corresponding nests. Heavy metals and selenium in tissues of wading bird chicks were also representative of background levels. Follow-up studies after the diversion of the Cooper River were not feasible because the heronry was abandoned beginning in 1985. However, our baseline results will be useful in determining potential contaminant effects due to diversion of the Cooper River should wading birds return to Drum Island in the future.

Environmental Monitoring and Assessment↗

USGS2024

The chytrid insurance hypothesis: Integrating parasitic chytrids into a biodiversity–ecosystem functioning framework for phytoplankton–zooplankton population dynamics

In temperate lakes, eutrophication and warm temperatures can promote cyanobacteria blooms that reduce water quality and impair food-chain support. Although parasitic chytrids of phytoplankton might compete with zooplankton, they also indirectly support zooplankton populations through the “mycoloop”, which helps move energy and essential dietary molecules from inedible phytoplankton to zooplankton. Here, we consider how the mycoloop might fit into the biodiversity–ecosystem functioning (BEF) framework. BEF considers how more diverse communities can benefit ecosystem functions like zooplankton production. Chytrids are themselves part of pelagic food webs and they directly contribute to zooplankton diets through spore production and by increasing host edibility. The additional way that chytrids might support BEF is if they engage in “kill-the-winner” dynamics. In contrast to grazers, which result in “eat-the-edible” dynamics, kill-the-winner dynamics can occur for host-specific infectious diseases that control the abundance of dominant (in this case inedible) hosts and thus limit the competitive exclusion of poorer (in this case edible) competitors. Thus, if phytoplankton diversity provides functions, and chytrids support algal diversity, chytrids could indirectly favour edible phytoplankton. All three mechanisms are linked to diversity and therefore provide some “insurance” for zooplankton production against the impacts of eutrophication and warming. In our perspective piece, we explore evidence for the chytrid insurance hypothesis , identify exceptions and knowledge gaps, and outline future research directions.

Oecologia↗

USGS2000

Linking biodiversity to ecosystem function: Implications for conservation ecology

We evaluate the empirical and theoretical support for the hypothesis that a large proportion of native species richness is required to maximize ecosystem stability and sustain function. This assessment is important for conservation strategies because sustenance of ecosystem functions has been used as an argument for the conservation of species. If ecosystem functions are sustained at relatively low species richness, then arguing for the conservation of ecosystem function, no matter how important in its own right, does not strongly argue for the conservation of species. Additionally, for this to be a strong conservation argument the link between species diversity and ecosystem functions of value to the human community must be clear. We review the empirical literature to quantify the support for two hypotheses: (1) species richness is positively correlated with ecosystem function, and (2) ecosystem functions do not saturate at low species richness relative to the observed or experimental diversity. Few empirical studies demonstrate improved function at high levels of species richness. Second, we analyze recent theoretical models in order to estimate the level of species richness required to maintain ecosystem function. Again we find that, within a single trophic level, most mathematical models predict saturation of ecosystem function at a low proportion of local species richness. We also analyze a theoretical model linking species number to ecosystem stability. This model predicts that species richness beyond the first few species does not typically increase ecosystem stability. One reason that high species richness may not contribute significantly to function or stability is that most communities are characterized by strong dominance such that a few species provide the vast majority of the community biomass. Rapid turnover of species may rescue the concept that diversity leads to maximum function and stability. The role of turnover in ecosystem function and stability has not been investigated. Despite the recent rush to embrace the linkage between biodiversity and ecosystem function, we find little support for the hypothesis that there is a strong dependence of ecosystem function on the full complement of diversity within sites. Given this observation, the conservation community should take a cautious view of endorsing this linkage as a model to promote conservation goals.

Oecologia↗

USGS2016

Cryptic invasion of Northern Leopard Frogs ( Rana pipiens ) across phylogeographic boundaries and a dilemma for conservation of a declining amphibian

Anthropogenic introduction of species is a major contributor to loss of biodiversity. Translocations within the range of a species are less frequently recognized, but have the potential for negative effects as well. Genetic mixing may lead to loss of local adaptations or further decline through outbreeding depression. These cryptic invasions may be quite difficult to recognize, but genetic tools can be used to recognize and monitor such intraspecific introductions. Conversely, translocations within species can be an important conservation tool to reduce inbreeding depression and replace lost genetic diversity. Thus, cryptic invasions can be either an aid or a hindrance to conservation efforts. We tested for the presence of non-native genotypes and assessed the extent and nature of introgression in populations of Northern Leopard Frog ( Rana pipiens ) in the southwestern US, where populations have declined to a few remnant populations. The most abundant and diverse complex of populations in the region contained a mitochondrial haplotype that was not native to the western US, probably resulting from the introduction of released pets, laboratory animals, or release during fish stocking. These non-native haplotypes were well integrated into a large complex of ponds and lakes, contributing to high genetic diversity in this area. Logistically, the geographic extent of non-native genetic influence within this population precludes eliminating or controlling the non-native component of this population. We recommend assessing the progress and fate of the introgression over time—along with population fitness parameters—to determine whether this introduction is beneficial or detrimental to population persistence. Meanwhile, translocations from nearby locations with similar environmental conditions have the best prospects for avoiding problems with outbreeding depression in other declining populations and will also most effectively preserve regional genetic diversity.

Biological Invasions↗

USGS2022

High abundance of a single taxon (amphipods) predicts aquatic macrophyte biodiversity in prairie wetlands

Conservation programs often aim to protect the abundance of individual species and biodiversity simultaneously. We quantified relations between amphipod densities and aquatic macrophyte (large plants and algae) diversity to test a hypothesis that biodiversity can support high abundance of a single taxonomic group. Amphipods ( Gammarus lacustris and Hyalella azteca ) are key forage for waterfowl and are declining in the Prairie Pothole Region of North America. We sampled a large gradient of amphipod densities (0–7050 amphipods/m 3 ) in 49 semi-permanent wetlands, and 50% of the study wetlands had high amphipod densities (> 500 amphipods/m 3 ). Generalized linear models revealed G. lacustris and H. azteca densities increased exponentially with macrophyte diversity indices. Further, H. azteca densities were greatest at moderate levels of submersed vegetation biomass. Community analyses showed both amphipod species were positively associated with diverse macrophyte assemblages and negatively associated with high coverage of cattails ( Typha spp.), a taxon that creates monotypic stands, as well as bladderwort ( Utricularia spp.), a carnivorous plant. Our results indicate that amphipods could be used as an umbrella species for protecting diverse macrophyte communities in semi-permanent and permanent wetlands of North America’s Prairie Pothole Region.

Conservation Biology↗

USGS2022

Cryptic extinction risk in a western Pacific lizard radiation

Cryptic ecologies, the Wallacean Shortfall of undocumented species’ geographical ranges and the Linnaean Shortfall of undescribed diversity, are all major barriers to conservation assessment. When these factors overlap with drivers of extinction risk, such as insular distributions, the number of threatened species in a region or clade may be underestimated, a situation we term ‘cryptic extinction risk’. The genus Lepidodactylus is a diverse radiation of insular and arboreal geckos that occurs across the western Pacific. Previous work on Lepidodactylus showed evidence of evolutionary displacement around continental fringes, suggesting an inherent vulnerability to extinction from factors such as competition and predation. We sought to (1) comprehensively review status and threats, (2) estimate the number of undescribed species, and (3) estimate extinction risk in data deficient and candidate species, in Lepidodactylus . From our updated IUCN Red List assessment, 60% of the 58 recognized species are threatened (n = 15) or Data Deficient (n = 21), which is higher than reported for most other lizard groups. Species from the smaller and isolated Pacific islands are of greatest conservation concern, with most either threatened or Data Deficient, and all particularly vulnerable to invasive species. We estimated 32 undescribed candidate species and linear modelling predicted that an additional 18 species, among these and the data deficient species, are threatened with extinction. Focusing efforts to resolve the taxonomy and conservation status of key taxa, especially on small islands in the Pacific, is a high priority for conserving this remarkably diverse, yet poorly understood, lizard fauna. Our data highlight how cryptic ecologies and cryptic diversity combine and lead to significant underestimation of extinction risk.

Biodiversity and Conservation↗

USGS2024

Riverine dissolved organic matter transformations increase with watershed area, water residence time, and Damköhler numbers in nested watersheds

Quantifying the relative influence of factors and processes controlling riverine ecosystem function is essential to predicting future conditions under global change. Dissolved organic matter (DOM) is a fundamental component of riverine ecosystems that fuels microbial food webs, influences nutrient and light availability, and represents a significant carbon flux globally. The heterogeneous nature of DOM molecular composition and its propensity for interaction (i.e., functional diversity) can characterize riverine ecosystem function across spatiotemporal scales. To investigate fundamental drivers of DOM diversity, we collected seasonal water samples from 42 nested locations within five watersheds spanning multiple watershed sizes (~5 to 30,000 km2) across the United States. Patterns in DOM molecular richness, aromaticity, relative abundance of N-containing formulas, and putative biochemical transformations derived from high-resolution mass spectrometry were assessed across gradients of explanatory variables associated with watershed characteristics (e.g., watershed area, water residence time, land cover). We found that putative biochemical transformations were more strongly related to explanatory variables across watersheds than common bulk DOM parameters and that watershed area, surface water residence time and derived Damköhler numbers representing DOM reactivity timescales were strong predictors of DOM diversity. The data also indicate that catchment-specific land cover factors can significantly influence DOM diversity in diverging directions. Overall, the results highlight the importance of considering water residence time and land cover when interpreting longitudinal patterns in DOM chemistry and the continued challenge of identifying generalizable drivers that are transferable across watershed and regional scales for application in Earth system models. This work also introduces a Findable Accessible Interoperable Reusable (FAIR) dataset (>300 samples) to the community for future syntheses.

Biogeochemistry↗

USGS2012

Puerto Rico and Florida manatees represent genetically distinct groups

The West Indian manatee ( Trichechus manatus ) populations in Florida ( T. m. latirostris ) and Puerto Rico ( T. m. manatus ) are considered distinct subspecies and are listed together as endangered under the United States Endangered Species Act. Sustained management and conservation efforts for the Florida subspecies have led to the suggested reclassification of the species to a threatened or delisted status. However, the two populations are geographically distant, morphologically distinct, and habitat degradation and boat strikes continue to threaten the Puerto Rico population. Here, 15 microsatellite markers and mitochondrial control region sequences were used to determine the relatedness of the two populations and investigate the genetic diversity and phylogeographic organization of the Puerto Rico population. Highly divergent allele frequencies were identified between Florida and Puerto Rico using microsatellite (F ST = 0.16; R ST = 0.12 (P < 0.001)) and mitochondrial (F ST = 0.66; Φ ST = 0.50 (P < 0.001)) DNA. Microsatellite Bayesian cluster analyses detected two populations (K = 2) and no admixture or recent migrants between Florida (q = 0.99) and Puerto Rico (q = 0.98). The microsatellite genetic diversity values in Puerto Rico (H E = 0.45; N A = 3.9), were similar, but lower than those previously identified in Florida (H E = 0.48, N A = 4.8). Within Puerto Rico, the mitochondrial genetic diversity values (π = 0.001; h = 0.49) were slightly lower than those previously reported (π = 0.002; h = 0.54) and strong phylogeographic structure was identified (F ST global = 0.82; Φ ST global = 0.78 (P < 0.001)). The genetic division with Florida, low diversity, small population size (N = 250), and distinct threats and habitat emphasize the need for separate protections in Puerto Rico. Conservation efforts including threat mitigation, migration corridors, and protection of subpopulations could lead to improved genetic variation in the endangered Puerto Rico manatee population.

Florida↗

USGS2016

Can captive populations function as sources of genetic variation for reintroductions into the wild? A case study of the Arabian oryx from the Phoenix Zoo and the Shaumari Wildlife Reserve, Jordan

The Arabian oryx ( Oryx leucoryx ) historically ranged across the Arabian Peninsula and neighboring countries until its extirpation in 1972. In 1963–1964 a captive breeding program for this species was started at the Phoenix Zoo (PHX); it ultimately consisted of 11 animals that became known as the ‘World Herd’. In 1978 – 1979 a wild population was established at the Shaumari Wildlife Reserve (SWR), Jordan, with eight descendants from the World Herd and three individuals from Qatar. We described the mtDNA and nuclear genetic diversity and structure of PHX and SWR. We also determined the long-term demographic and genetic viability of these populations under different reciprocal translocation scenarios. PHX displayed a greater number of mtDNA haplotypes ( n = 4) than SWR ( n = 2). Additionally, PHX and SWR presented nuclear genetic diversities of N ¯ A N¯A = 2.88 vs. 2.75, H ¯ O H¯O = 0.469 vs. 0.387, and H ¯ E H¯E = 0.501 vs. 0.421, respectively. Although these populations showed no signs of inbreeding ( F ¯ IS F¯IS ≈ 0), they were highly differentiated ( G ′ ′ ST GST′′ = 0.580; P < 0.001). Migration between PHX and SWR ( Nm = 1, 4, and 8 individuals/generation) increased their genetic diversity in the short-term and substantially reduced the probability of extinction in PHX during 25 generations. Under such scenarios, maximum genetic diversities were achieved in the first generations before the effects of genetic drift became predominant. Although captive populations can function as sources of genetic variation for reintroduction programs, we recommend promoting mutual and continuous gene flow with wild populations to ensure the long-term survival of this species.

Conservation Genetics↗

USGS2024

Conservation genetics of the endangered California Freshwater Shrimp (Syncaris pacifica): Watershed and stream networks define gene pool boundaries

Understanding genetic structure and diversity among remnant populations of rare species can inform conservation and recovery actions. We used a population genetic framework to spatially delineate gene pools and estimate gene flow and effective population sizes for the endangered California Freshwater Shrimp Syncaris pacifica . Tissues of 101 individuals were collected from 11 sites in 5 watersheds, using non-lethal tissue sampling. Single Nucleotide Polymorphism markers were developed de novo using ddRAD-seq methods, resulting in 433 unlinked loci scored with high confidence and low missing data. We found evidence for strong genetic structure across the species range. Two hierarchical levels of significant differentiation were observed: (i) five clusters (regional gene pools, F ST = 0.38–0.75) isolated by low gene flow were associated with watershed limits and (ii) modest local structure among tributaries within a watershed that are not connected through direct downstream flow (local gene pools, F ST = 0.06–0.10). Sampling sites connected with direct upstream-to-downstream water flow were not differentiated. Our analyses suggest that regional watersheds are isolated from one another, with very limited (possibly no) gene flow over recent generations. This isolation is paired with small effective population sizes across regional gene pools (N e = 62.4–147.1). Genetic diversity was variable across sites and watersheds ( H e = 0.09–0.22). Those with the highest diversity may have been refugia and are now potential sources of genetic diversity for other populations. These findings highlight which portions of the species range may be most vulnerable to future habitat fragmentation and provide management consideration for maintaining local effective population sizes and genetic connectivity.

California↗