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David C. Kazyak

Publications and source records attributed to David C. Kazyak.

At least 37 records · Page 2Linked to original sources

Multispecies approaches to status assessments in support of endangered species classifications

Multispecies risk assessments have developed within many international conservation programs, reflecting a widespread need for efficiency. Under the United States Endangered Species Act (ESA), multispecies assessments ultimately lead to species-level listing decisions. Although this approach provides opportunities for improved efficiency, it also risks overwhelming or biasing the assessment process and would benefit from clear guidance for practitioners. We reviewed multispecies assessments conducted between 1993 and 2019 for ESA listing decisions to identify the ecological basis for combining species, the assessment approach used, and the policy factors influencing their efficacy. We identified 42 cases covering 359 species. Most assessments (81%) included two to five species, although the maximum was 82. A common theme involved grouping narrow endemics or habitat specialists based on taxonomic relatedness, similar distributions, and common threats to persistence. All assessments included a combined threats analysis, but few employed a common species' response model or expert elicitation process. Although ESA risk assessments are distinct from policy decisions, most assessments (50%) supported decisions that all species warranted endangered status. Available guidance has generally emphasized ecological similarity as the key attribute leading to successful multispecies assessments. The challenge with consistently selecting species based on qualitative proxies such as common distributions or threats to persistence is that ecological patterns and processes are scale dependent. Focusing instead on the assessment methods and their potential for bias and increased efficiency may provide a stronger basis for developing consistent and transparent guidance.

Conservation Science and Practice

Evaluating sources of bias in pedigree-based estimates of breeding population size

Applications of genetic-based estimates of population size are expanding, especially for species for which traditional demographic estimation methods are intractable due to the rarity of adult encounters. Estimates of breeding population size ( N S ) are particularly amenable to genetic-based approaches as the parameter can be estimated using pedigrees reconstructed from genetic data gathered from discrete juvenile cohorts, therefore eliminating the need to sample adults in the population. However, a critical evaluation of how genotyping and sampling effort influence bias in pedigree reconstruction, and how these biases subsequently influence estimates of N S , is needed to evaluate the efficacy of the approach under a range of scenarios. We simulated a model system to understand the interactive effects of genotyping and sampling effort on error in genetic pedigrees reconstructed from the program COLONY . We then evaluated how errors in pedigree reconstruction influenced bias and precision in estimates of N S using three different rarefaction estimators. Results indicated that pedigree error can be minimal when adequate genetic data are available, such as when juvenile sample sizes are large and/or individuals are genotyped at many informative loci. However, even in cases for which data are limited, using results of the simulation analysis to understand the magnitude and sources of bias in reconstructed pedigrees can still be informative when estimating N S . We applied results of the simulation analysis to evaluate Nˆ S for a population of federally endangered Atlantic sturgeon ( Acipenser oxyrinchus oxyrinchus ) in the Delaware River, USA. Our results indicated that N S is likely to be three orders of magnitude lower compared with historic breeding population sizes, which is a considerable advancement in our understanding of the population status of Atlantic sturgeon in the Delaware River. Our analyses are broadly applicable in the design and interpretation of studies seeking to estimate N S and can help to guide conservation decisions when ecological uncertainty is high. The utility of these results is expected to grow as rapid advances in genetic technologies increase the popularity of genetic population monitoring and estimation.

Delaware, New Jersey, Pennsylvania

Population genetics of three at-risk tiger beetles Habroscelimorpha dorsalis dorsalis, H. d. media, and Ellipsoptera puritana

Many tiger beetles (Family Cicindelidae ) are critically imperiled due to their dependence on small patches of suitable habitat that are frequently threatened by natural and anthropogenic disturbances. In the eastern United States, conservation of three tiger beetles - Habroscelimorpha dorsalis dorsalis , H. dorsalis media , and Ellipsoptera puritana - has been inhibited by the absence of population genetic information that is needed for effective recovery planning and potential reintroductions. Using microsatellite panels, we performed population genetic analyses and compared patterns in diversity and differentiation within and between taxa. Nearly all collections of the three taxa had less observed heterozygosity than expected under Hardy-Weinberg Equilibrium, and there was a strong latitudinal gradient in genetic diversity in H. d. dorsalis distributed along the eastern and western shores of the Chesapeake Bay. We also found clear spatial patterns of genetic differentiation which reflected strong isolation-by-distance within all three taxa and between collections of H. d. dorsalis and H. d. media. However, there was evidence of admixture in current (mouth of the Chesapeake Bay) and former (coastal New Jersey) contact zones of H. d. dorsalis and H. d. media . Taken together, our study suggests that relatively few adult tiger beetles may maintain many populations, and that gene flow among nearby habitat patches is common in all three taxa – a characteristic that may help tiger beetles persist in dynamic coastal environments. Results of our analyses can be used to support conservation and management by identifying the spatial scale of metapopulation connectivity and locating populations at the greatest risk of extirpation.

Maryland, Virginia

Population genetics of Brook Trout (Salvelinus fontinalis) in the southern Appalachian Mountains

Broad-scale patterns of genetic diversity for Brook Trout remain poorly understood across their endemic range in the eastern United States. We characterized variation at 12 microsatellite loci in 22,020 Brook Trout among 836 populations from Georgia, USA to Quebec, Canada to the western Great Lakes region. Within-population diversity was typically lower in the southern Appalachians relative to the mid-Atlantic and northeastern regions. Effective population sizes in the southern Appalachians were often very small, with many estimates less than 30 individuals. The population genetics of Brook Trout in the southern Appalachians are far more complex than a conventionally held simple “northern” versus “southern” dichotomy would suggest. Contemporary population genetic variation was consistent with geographic expansion of Brook Trout from Mississippian, mid-Atlantic, and Acadian glacial refuges, as well as differentiation among drainages within these broader clades. Genetic variation was pronounced among drainages (57.4% of overall variation occurred among Hydrologic Unit Code (HUC)10 or larger units) but was considerable even at fine spatial scales (13% of variation occurred among collections within HUC12 drainage units). Remarkably, 87.2% of individuals were correctly assigned to their collection of origin. While comparisons with fish from existing major hatcheries showed impacts of stocking in some populations, genetic introgression did not overwhelm the signal of broad-scale patterns of population genetic structure. Although our results reveal deep genetic structure in Brook Trout over broad spatial extents, fine-scale population structuring is prevalent across the southern Appalachians. Our findings highlight the distinctiveness and vulnerability of many Brook Trout populations in the southern Appalachian Mountains and have important implications for wild Brook Trout management. To facilitate application of our findings by conservation practitioners, we provide an interactive online visualization tool to allow our results to be explored at management relevant scales.

North Carolina, Virginia, West Virginia

Benefits of genetic data for the design of Brook Trout translocation efforts

With wild trout populations in decline, many conservation practitioners are evaluating the feasibility of incorporating reintroduction and genetic rescue into management frameworks. As interest in these conservation tools continues to grow, so too has the need for rigorous science to evaluate translocation success and improve the efficacy of future efforts. From this, it has become increasingly apparent that approaches which consider both demographics and genetics are most likely to result in successful translocations. In particular, while demographic data are often a central component of project designs, they are insufficient for diagnosing genetic threats such as low diversity, maladaptation, and introgression that characterize many wild trout populations. Consideration for these genetic characteristics is important for long-term project success and to reduce the unintended spread of domestic lineages across the landscape. Using a case study of reintroduction of Brook Trout Salvelinus fontinalis into a North Carolina stream, we show how a combined demographic and genetic approach can be used throughout all stages of project design. In particular, we highlight how genetic data were informative for identifying source populations that had the greatest potential to establish a population with the genetic diversity needed for future adaptation. We also discuss how genetic monitoring of the reintroduced population provided insights into reproductive success and genetic diversity that could be indicative of long-term population persistence. While monitoring is ongoing, this combined genetic and demographic approach provides a promising framework for helping meet reintroduction goals and provides more opportunities for adaptive management following translocation.

Conference Paper

Conservation genetics and wild trout: Evolving opportunities to support management

It is increasingly apparent that our planet is undergoing rapid, unprecedented environmental change. These changes are already impacting wild trout populations, leading to declines in occupancy and abundance across increasingly fragmented landscapes. Many changes are projected to intensify in the coming decades, which are likely to be crucial to the future of many wild populations. While there is some uncertainty in exactly how changes will manifest, we can be confident that many populations will need to rapidly adapt to change if they are to persist. The foundation of such rapid change is genetic diversity, and conservation strategies are most likely to be successful when they consider the role of genetics in the outlook for wild trout populations. While not a panacea, rapid advances in the field of conservation genetics allow longstanding questions to be addressed with greater rigor and present new opportunities to support management against a backdrop of accelerating change. Here, we review major advances in conservation genetics as they relate to wild trout and highlight potential opportunities to support conservation in the Anthropocene and key areas of continuing uncertainty.

Conference Paper

Utilization of genetic data to inform native Brook Trout conservation in North Carolina

As North Carolina’s only native salmonid, Brook Trout Salvelinus fontinalis is a fish of considerable ecological and cultural significance in the state, but anthropogenic alterations to the landscape and introductions of nonnative salmonids have fragmented and reduced its native range. As a result, the North Carolina Wildlife Resources Commission (NCWRC) has enacted numerous efforts to help conserve the species. Annual demographic surveys of self-sustaining Brook Trout populations have been on-going since 1978, which have also included successful efforts to document previously unidentified populations. Beginning in earnest during the 1990s, allozyme testing was used to assess patterns of hatchery introgression, with over 480 collections genotyped at the creatine kinase locus. In 2010, the NCWRC began using microsatellite markers to conduct an extensive survey of Brook Trout genetic diversity and variation. To date, 541 Brook Trout collections representing 11,090 individuals have been genotyped at 12 microsatellite loci. These data have provided insights into evolutionary relationships among populations, spatial patterns of genetic diversity, and the extent of hatchery introgression within populations. Ultimately, increased understanding of genetic diversity and relatedness have been informative for determining that Brook Trout management in North Carolina is likely best enacted at the level of individual populations. Moreover, we have used these data to actively guide stream restoration and population reintroduction activities. Over the last 15 years, NCWRC and its partners have used genetic data to prioritize habitat enhancement activities and guide 17 Brook Trout population reintroduction projects. In the future, we plan to continue expanding the microsatellite genetic baseline while also exploring the utility of phylogenomic analyses to inform Brook Trout conservation activities. Genetic and genomic approaches have great potential to improve the efficacy of conservation actions for Brook Trout in North Carolina and throughout its native range.

North Carolina

Stock composition of the historical New York Bight Atlantic sturgeon (Acipenser oxyrinchus oxyrinchus) intercept fishery revealed through microsatellite analysis of archived spines

A targeted commercial fishery for Atlantic Sturgeon Acipenser oxyrinchus oxyrinchus once operated in the New York Bight, where it was assumed that most harvested Atlantic Sturgeon were natal to the Hudson River population. However, more recent evidence suggests that the fishery may have been targeting a mixed-stock aggregation, in which case harvested Atlantic Sturgeon could have been comprised of individuals from multiple populations throughout the species’ range. Although there is now a moratorium on Atlantic Sturgeon harvest in the New York Bight, modern molecular approaches provide an opportunity to use archived tissues to perform a retrospective mixed-stock analysis on the fishery. Genomic DNA extracted from archived fin spines from 80 Atlantic Sturgeon collected nearly 30 years ago suggests that the fishery primarily harvested individuals from the Hudson River population. However, based on individual-based assignment tests, our results indicate that the fishery also harvested individuals from at least eight other populations located throughout the species’ range. This study highlights how archival hard parts that were previously used for age and growth analyses can be employed for retrospective genetic analyses. Further, because the New York Bight harbors relatively high concentrations of Atlantic Sturgeon, the study shows how localized management decisions can influence Atlantic Sturgeon conservation at rangewide scales. When integrated with more recent knowledge of species ecology, these analyses can be used to evaluate the efficacy of previous management strategies and understand the effects of historical processes on contemporary demography.

New York

Landscape and stocking effects on population genetics of Tennessee Brook Trout

Throughout their range, Brook Trout ( Salvelinus fontinalis ) occupy thousands of disjunct drainages with varying levels of disturbance, which presents substantial challenges for conservation. Within the southern Appalachian Mountains, fragmentation and genetic drift have been identified as key threats to the genetic diversity of the Brook Trout populations. In addition, extensive historic stocking of domestic lineages of Brook Trout to augment fisheries may have eroded endemic diversity and impacted locally adapted populations. We used 12 microsatellite loci to describe patterns of genetic diversity within 108 populations of wild Brook Trout from Tennessee and used linear models to explore the impacts of land use, drainage area, and hatchery stockings on metrics of genetic diversity, effective population size, and hatchery introgression. We found levels of within-population diversity varied widely, although many populations showed very limited diversity. The extent of hatchery introgression also varied across the landscape, with some populations showing high affinity to hatchery lineages and others appearing to retain their endemic character. However, we found relatively weak relationships between genetic metrics and landscape characteristics, suggesting that contemporary landscape variables are not strongly related to observed patterns of genetic diversity. We consider this result to reflect both the complex history of these populations and the challenges associated with accurately defining drainages for each population. Our study highlights the importance of genetic data to guide management decisions, as complex processes interact to shape the genetic structure of populations and make it difficult to infer the status of unsampled populations.

Tennessee

Broadscale population structure and hatchery introgression of Midwestern brook trout: Midwestern brook trout population genetics

Brook Trout Salvelinus fontinalis have faced significant declines throughout their native range and have been stocked in Midwestern waters since the late 1800s to offset such losses. Several studies have investigated the genetic effects of these stockings, but these efforts have been confined to relatively small spatial scales. In this study, we compiled 8,454 Brook Trout microsatellite genotypes from 188 wild Midwestern populations and 26 hatchery strains to provide novel insights of broadscale population structure, regional patterns of genetic diversity, and estimates of hatchery introgression for inland Wisconsin populations. Our results indicate high levels of differentiation among our study populations, a lack of hydrological population structuring, lower estimates of genetic diversity in the Driftless Area, and that hatchery introgression has been largely confined to regions of inland Wisconsin that have been heavily affected by anthropogenic disturbances (i.e., the Driftless Area). We also provide evidence that populations may be able to purge hatchery‐derived alleles, discuss possible mechanisms behind this phenomenon, and consider their relevance to accurate estimation of hatchery introgression. Collectively, these results summarize the genetic effects of over a century of anthropogenic disturbance on native Brook Trout populations and emphasize the importance of integrating historical data into contemporary genetic research of intensively managed species.

Iowa, Minnesota, Wisconsin

Understanding genetics for successful conservation and restoration of resilient Chesapeake Bay brook trout populations

Traditionally, fisheries management has focused on the abundance, distribution, and size structure of populations. Although these factors remain key aspects of management, a large and growing body of evidence highlights the importance of genetics in conserving wild populations, especially when populations are small and isolated (Frankham et al. 2017). Local adaptations are very common among fishes and help populations cope with specific conditions in their local environment (Fraser et al. 2011). The field of conservation genetics and genomics is highly technical and has advanced rapidly in recent years, offering a wealth of information to support brook trout conservation and restoration. A major impediment to successfully incorporating these advances into conservation outcomes is that most fisheries managers have only a basic understanding of fish genetics and its relevance to their management decisions.

Maryland, Virginia

Optimization of a suite of flathead catfish (Pylodictis olivaris) microsatellite markers for understanding the population genetics of introduced populations in the northeast United States

Flathead catfish are rapidly expanding into nonnative waterways throughout the United States. Once established, flathead catfish may cause disruptions to the local ecosystem through consumption and competition with native fishes, including species of conservation concern. Flathead catfish often become a popular sport fish in their introduced range, and so management strategies must frequently balance the need to protect native and naturalized fauna while meeting the desire to maintain or enhance fisheries. However, there are currently few tools available to inform management of invasive flathead catfish ( Pylodictis olivaris ). We describe a suite of microsatellite loci that can be used to characterize population structure, predict invasion history, and assess potential mitigation strategies for flathead catfish.

Pennsylvania

Establishment of a microsatellite genetic baseline for North American Atlantic sturgeon (Acipenser o. oxyrhinchus) and range-wide analysis of population genetics

Atlantic sturgeon ( Acipenser oxyrinchus oxyrinchus ) is a long-lived, anadromous species that is broadly distributed along the Atlantic coast of North America. Historic overharvest and habitat degradation resulted in significant declines to Atlantic sturgeon populations and, following decades of limited recovery, the species was listed under the Endangered Species Act of the United States in 2012. Given continued threats to recovery and limited information about population demography, there is a need for new tools to assist in Atlantic sturgeon conservation. Here, we present a range-wide microsatellite genetic baseline for North American Atlantic sturgeon that is comprised of 2510 individuals from 18 genetically distinct groups collected in 13 rivers and one estuary. Analysis of this baseline suggested that populations from the northern range of Atlantic sturgeon were more highly differentiated than those from the southern extent, where patterns of differentiation were complicated by rivers with genetically distinct spring and fall spawning runs and less geographic distance separating populations. Despite significant demographic bottleneck events, all populations showed at least moderate levels of genetic diversity across a suite of metrics. Additionally, individual-based assignment tests had over 80% accuracy for assigning individuals to their river of origin, highlighting the utility of this baseline for characterizing the composition of mixed-stock aggregations and understanding stock-specific vulnerability and recovery. The expanded spatial coverage of this baseline dataset enabled novel inferences about patterns of genetic differentiation and spawning phenology in Atlantic sturgeon which can be used to support conservation and management efforts.

Atlantic Coast

Impacts of sediment removal from and placement in coastal barrier island systems

Executive Summary On June 24, 2019, Congressman Raul Grijalva of Arizona, Chair of the House Committee on Natural Resources, sent a letter to the directors of the U.S. Fish and Wildlife Service and the U.S. Geological Survey to request their assistance in answering questions regarding coastal sediment resource management within the Coastal Barrier Resources System as defined by the Coastal Barrier Resources Act (Public Law 97–348; 96 Stat. 1653; 16 U.S.C. 3501 et seq.). For the purposes of this response, coastal sediment resource management refers to the removal of sediment from one part of a barrier island system for placement in another part of the coastal system, for either hazard mitigation (for example, erosion or flood control) or coastal restoration (for example, expansion or restoration of beach, dune, and [or] marsh habitats). The specific topics of concern are as follows (paraphrased from Congressman Grijalva’s letter): 1. Disruption of coastal sediment supply resulting from sediment removal and placement, including the replenishment rate of removed sediments and impacts to other components of the barrier island system (discussed in sec. 3). 2. Physical and biological impacts of sediment removal and placement on benthic habitats (discussed in sec. 4). 3. Impacts of sediment removal and placement on fish and other marine species (discussed in sec. 5). 4. Changes in migratory bird nesting and foraging habitats resulting from sediment removal and placement (discussed in sec. 6). 5. Long-term impacts of sediment removal and placement on physical coastal resiliency (discussed in sec. 7).

Open-File Report

Atlantic sturgeon status and movement ecology in an extremely small spawning habitat: The Nanticoke River-Marshyhope Creek, Chesapeake Bay

Biotelemetry of Atlantic sturgeon Acipenser oxyrinchus oxyrinchus has exposed spawning behaviors in ever-smaller estuaries, surprising for the NW Atlantic’s largest anadromous species. Small estuary — the Nanticoke River and Marshyhope Creek (Chesapeake Bay) — spawning-run adults and their habitat affinities are described based upon direct sampling and biotelemetry for the period 2014–2018. High rates of recapture over this period indicate a very small adult population size. Genetics revealed a very small effective population size ( N e = 12.2, 95% CI = 6.7–21.9). Most returns occurred during September at 20–27 °C. All fish departed as fall temperatures declined below 20 °C. Multi-beam sonar identified small-dispersed areas of sand-cobble and cobble, which could support adhesive embryo attachment. Movements of adults were higher during nighttime than daytime, with habitat preference for hard bottom habitats. Genetic evidence indicates that the sudden discovery of this population was unrelated to a hatchery release of several thousand juvenile sturgeon (Hudson River progeny) in 1997. The newly discovered population in the Nanticoke River exhibits a degree of resilience including multiple spawning regions and suitable spawning habitat. Still, critical vulnerabilities persist including curtailed habitat, continued agricultural and maritime development, invasive blue catfish, and a very small apparent population size.

Delaware, Maryland

Stock composition of Atlantic sturgeon (Acipenser oxyrinchus oxyrinchus) encountered in marine and estuarine environments on the U.S. Atlantic Coast

Atlantic sturgeon ( Acipenser oxyrinchus oxyrinchus ) is a large, anadromous fish native to the Atlantic Coast of North America. Although this species once supported important fisheries, centuries of exploitation and habitat degradation have resulted in dramatic declines, presumed extirpation in some rivers, and ultimately listing under the U.S. Endangered Species Act (ESA). Under the ESA, Atlantic sturgeon are listed as five separate Distinct Population Segments (DPSs), which form the basis for federal management. Despite state and federal protections Atlantic sturgeon still face significant threats to their recovery, including fisheries bycatch mortality, marine construction, dredging, dams, and vessel strikes. However, because subadult and adult Atlantic sturgeon migrate extensively across estuarine and marine environments and frequently form mixed-stock aggregations in non-natal habitats, it can be difficult to determine how these threats impact specific populations and DPSs. To better understand ontogenetic shifts in habitat use and stock-specific exposure to anthropogenic threats, we performed a mixed-stock analysis of 1704 Atlantic sturgeon encountered across the U.S. Atlantic Coast. Collections made north of Cape Cod, MA and south of Cape Hatteras, NC were dominated by individuals from regional stocks; however, we found extensive stock mixing in the mid-Atlantic region, particularly in coastal environments where individuals from all five DPSs were commonly observed. Subadults and adults that were encountered in offshore environments had moved, on average, 277 km from their natal source; however, 23% were sampled over 500 km from their natal river suggesting long-distance movements are relatively common in these age classes. Overall, our work highlights that Atlantic sturgeon populations are vulnerable to threats over vast areas and emphasizes the need for continued genetic monitoring to track recovery progress.

Atlantic Coast

Genetic structure of Maryland Brook Trout populations: Management implications for a threatened species

Brook Trout Salvelinus fontinalis have declined across their native range due to multiple anthropogenic factors, including landscape alteration and climate change. Although coldwater streams in Maryland (eastern United States) historically supported significant Brook Trout populations, only fragmented remnant populations remain, with the exception of the upper Savage River watershed in western Maryland. Using microsatellite data from 38 collections, we defined genetic relationships of Brook Trout populations in Maryland drainages. Microsatellite analyses of Brook Trout indicated the presence of five major discrete units defined as the Youghiogheny (Ohio), Susquehanna, Patapsco/Gunpowder, Catoctin, and Upper Potomac, with a distinct genetic subunit present in the Savage River (upper Potomac). We did not observe evidence for widespread hatchery introgression with native Brook Trout. However, genetic effects due to fragmentation were evident in several Maryland Brook Trout populations, resulting in erosion of diversity that may have negative implications for their future persistence. Our current study supplements an increasing body of evidence that Brook Trout populations in Maryland are highly susceptible to multiple anthropogenic stresses, and many populations may be extirpated in the near future. Future management efforts focused on habitat protection and potential stream restoration, coupled with a comprehensive assessment framework that includes genetic considerations, may provide the best outlook for Brook Trout populations in Maryland.

Maryland

Phenotypic variation in Brook Trout Salvelinus fontinalis (Mitchill) at broad spatial scales makes morphology an insufficient basis for taxonomic reclassification of the species

It was recently proposed that there are three new species of Salvelinus with microendemic distributions in the Great Smoky Mountains National Park, Tennessee, USA. The three species of Salvelinus were hypothesized to be distinct from their congener Brook Trout S. fontinalis based on three meristic traits—pored lateral-line scales, vertebral counts, and number of basihyal teeth. After analyses that included specimens sampled from a larger portion of the geographic range of S. fontinalis , we conclude that the three populations of Salvelinus recently described as new species are not morphometrically distinct from Brook Trout and consider all three to be synonyms of S. fontinalis . Moreover, the low number of specimens originally examined conflates morphological differences among populations with sexual dimorphism and/or phenotypic plasticity, both of which are documented extensively in Brook Trout but were not controlled for in the species descriptions. While there is currently insufficient phenotypic or genotypic evidence to support the hypothesis of three new species that are distinct from S. fontinalis , we acknowledge the need to understand the unique selection pressures that shape evolutionary trajectories in small, isolated populations of Brook Trout and to conserve evolutionarily significant sources of genotypic and phenotypic diversity. To that end, we provide comments on research opportunities to support Brook Trout conservation, including the importance of collaborative, range-wide phylogenetic studies to identify the most appropriate scales of management efforts.

New York, Tennessee