Pacific Salmon, Oncorhynchus spp., and the Definition of "Species" Under the Endangered Species Act

For purposes ofthe Endangered Species Act (ESA), a "species" is defined to include "any distinct population segment of any species of vertebrate fish or wildlife which interbreeds when mature. "Federal agencies charged with carrying out the provisions of the ESA have struggled for over a decade to develop a consistent approach for interpreting the term "distinct population segment." This paper outlines such an approach and explains in some detail how it can be applied to ESA evaluations of anadromous Pacific salmonids. The following definition is proposed: A population (or group of populations) will be considered "distinct" (and hence a "species ")for purposes of the ESA if it represents an evolutionarily significant unit (ESU) of the biological species. A population must satisfy two criteria to be considered an ESU: 1) It must be substantially reproductively isolated from other conspecific population units, and 2) It must represent an important component in the evolutionary legacy of the species. Isolation does not have to be absolute, but it must be strong enough to permit evolutionarily important differences to accrue in different population units. The second criterion would be met if the population contributes substantially to the ecological/genetic diversity of the species as a whole. Insights into the extent of reproductive isolation can be provided by movements of tagged fish, natural recolonization rates observed in other populations, measurements of genetic differences between populations, and evaluations of the efficacy of natural barriers. Each of these methods has its limitations. Identification of physical barriers to genetic exchange can help define the geographic extent of distinct populations, but reliance on physical features alone can be misleading in the absence of supporting biological information. Physical tags provide information about the movements of individual fish but not the genetic consequences of migration. Furthermore, measurements ofc urrent straying or recolonization rates provide no direct information about the magnitude or consistency of such rates in the past. In this respect, data from protein electrophoresis or DNA analyses can be very useful because they reflect levels of gene flow that have occurred over evolutionary time scales. The best strategy is to use all available lines of evidence for or against reproductive isolation, recognizing the limitations of each and taking advantage of the often complementary nature of the different types of information. If available evidence indicates significant reproductive isolation, the next step is to determine whether the population in question is of substantial ecological/genetic importance to the species as a whole. In other words, if the population became extinct, would this event represent a significant loss to the ecological/genetic diversity of thes pecies? In making this determination, the following questions are relevant: 1) Is the population genetically distinct from other conspecific populations? 2) Does the population occupy unusual or distinctive habitat? 3) Does the population show evidence of unusual or distinctive adaptation to its environment? Several types of information are useful in addressing these questions. Again, the strengths and limitations of each should be kept in mind in making the evaluation. Phenotypic/life-history traits such as size, fecundity, and age and time of spawning may reflect local adaptations of evolutionary importance, but interpretation of these traits is complicated by their sensitivity to environmental conditions. Data from protein electrophoresis or DNA analyses provide valuable insight into theprocessofgenetic differentiation among populations but little direct information regarding the extent of adaptive genetic differences. Habitat differences suggest the possibility for local adaptations but do not prove that such adaptations exist. The framework suggested here provides a focal point for accomplishing the majorgoal of the Act-to conserve the genetic diversity of species and the ecosystems they inhabit. At the same time, it allows discretion in the listing of populations by requiring that they represent units of real evolutionary significance to the species. Further, this framework provides a means of addressing several issues of particular concern for Pacific salmon, including anadromous/nonanadromous population segments, differences in run-timing, groups of populations, introduced populations, and the role of hatchery fish

Population Dynamics and Genotypic Richness of the Threatened Acropora spp. and their Hybrid in the U.S. Virgin Islands

Since the 1980’s, there has been an unprecedented decline in the reef-building Caribbean corals, Acropora cervicornis and A. palmata, which has led to their listing as “threatened” under the U.S Endangered Species Act. Despite this protective status, these Acropora species continue to experience declines primarily attributed to disease, global climate change, and storm damage. Recent evidence suggests the hybrid of these threatened species (A. prolifera) is found at abundances similar to or higher than the parental species at many sites throughout the Caribbean. However, there is still much that is unknown as to how and why hybrids may be increasing in abundance at select sites. In 2007, scientists from NOAA NMFS established 9 permanent transects at three sites in the USVI to quantify fish diversity and coral tissue condition in A. cervicornis thickets. Over the years, they observed that A. prolifera seemed to be increasing in abundance on transects that were once dominated by A. cervicornis. This dataset provided a unique opportunity to investigate whether a shift from a threatened parental species to its hybrid may have occurred. This study has two objectives, (1) to quantify the change in A. cervicornis and A. prolifera percent cover and colony health over a 9-year period, and (2) to compare the genotypic diversity among the three Caribbean acroporids on and near the transects to determine the primary method of propagation, i.e., sexual versus asexual. For this study, I used transect photographs taken in March, July and November 2009, April 2012, and August 2017 to compare intra- and interannual variation in acroporid cover and colony health. Striking losses were observed in A. cervicornis cover between March 2009 and August 2017. At Thatch Cay, A. cervicornis declined from 25.7% to 8.9% between March 2009 and November 2009, but remained stable (10.2%) up to August 2017. Acropora cervicornis cover declined from 13.2% to 0% at Lovango Cay, and from 8.2% to 0% at No-Name Bay. At the one site (No-Name Bay) that A. prolifera was present during the original surveys of the transects, the percent cover remained relatively high and stable over the sample period. At No-Name Bay, A. prolifera percent cover (18.2%) was significantly higher than A. cervicornis (5.4%) by November 2009. It appears that A. prolifera expanded in the habitat left void by the decline in A. cervicornis. The general health of A. cervicornis based on the amount of healthy versus white and pale tissue appeared to decline at all sites between March 2009 and November 2009. To determine if the high percent cover on some transects was derived from asexual propagation or sexual recruitment, 139 tissue samples were collected in 2017 and genotyped using five microsatellite markers. No significant difference in genotypic richness (number of unique genotypes divided by the sample size) was observed among A. cervicornis (0.62), A. prolifera (0.64), and A. palmata (0.68). This suggests that the hybrid colonization is from multiple sexually derived individuals, not just asexual propagation from a rare hybridization event. High genotypic diversity, stable population abundance, and healthier colonies, suggest acroporid hybrids may become the primary habitat building coral of shallow reefs in the U.S. Virgin Islands. Due to considerable differences in morphologies between A. cervicornis and A. prolifera, it is unclear how a shift to the hybrid may affect the organisms that occupy acroporid structure and if the same ecological functions can be fulfilled

The ecomics of ecosystems and biodiversity: scoping the scale

The G8 decided in March 2007 to initiate a “Review on the economics of biodiversity loss”, in the so called Potsdam Initiative: 'In a global study we will initiate the process of analysing the global economic benefit of biological diversity, the costs of the loss of biodiversity and the failure to take protective measures versus the costs of effective conservation. The study is being supported by the European Commission (together with the European Environmental Agency and in cooperation with the German Government. “The objective of the current study is to provide a coherent overview of existing scientific knowledge upon which to base the economics of the Review, and to propose a coherent global programme of scientific work, both for Phase 2 (consolidation) and to enable more robust future iterations of the Review beyond 2010.

Geographic variation in clonal structure in a reef-building Caribbean coral, Acropora palmata

Species that build the physical structure of ecosystems often reproduce clonally, both in terrestrial (e.g., grasses, trees) and marine (e.g., corals, seagrasses) environments. The degree of clonality may vary over a species\u27 range in accordance with the relative success of sexual and asexual recruitment. High genotypic (clonal) diversity of structural species may promote the species diversity and resilience of ecosystems in the face of environmental extremes. Conversely, low genotypic diversity may indicate an asexual strategy to maintain resources and genetic variation during population decline. Here, we use microsatellite markers to assess geographic variation in clonality in the coral Acropora palmata sampled from 26 reefs in eight regions spanning its tropical western Atlantic range (n=751). Caribbean-wide, the ratio (±SD) of genets (Ng) to sampled ramets (N) was 0.51 ± 0.28. Within reefs (30-70 m) and among reefs (10-100 km) within regions, clonal structure varied from being predominantly asexual (Ng/N approaching 0) to purely sexual (N g/N = 1). However, two genetically isolated regions (western and eastern Caribbean) differed in clonal structure: genotypically depauperate populations (Ng/N=0.43 ± 0.31) with lower densities (0.13 ± 0.08 colonies/m2) characterized the western region, while denser (0.30 ± 0.21 colonies/m2), genotypically rich stands (Ng/N = 0.64 ± 0.17) typified the eastern Caribbean. Genotypic richness (standardized to sample size; Ng/N) and genotypic diversity (Go/Ge) were negatively related to colony density within each province (r2 = 0.49-0.66, P \u3c 0.001), indicating that dense stands have higher rates of asexual recruitment than less dense populations. Asexual recruitment was not correlated with largescale disturbance history or abundance of large colonies (potential fragment sources) but was negatively correlated with shelf area (r2 = 0.57, P \u3c 0.01). We argue that sexual recruitment is more prevalent in the eastern range of A. palmata than the west, and that these geographic differences in the contribution of reproductive modes to population structure may be related to habitat characteristics. The two populations of the threatened A. palmata differ fundamentally in reproductive character and may respond differently to environmental change. © 2006 by the Ecological Society of America

Population dynamics of the threatened staghorn coral, Acropora cervicornis, and the development of a species-specific monitoring protocol

Historically, Acropora cervicornis was found in high densities on many Caribbean, Florida, and Gulf of Mexico reefs. A disease outbreak in the late 1970s and 80s caused up to 99% loss of A. cervicornis cover at some sites, leaving populations sparsely distributed throughout its range and typically found as isolated colonies. Even though populations are depauperate causing a decrease in sexual reproduction, its fast growth rate and ability to reproduce through asexual fragmentation affords this species the potential for quick recovery and population growth. However, limited to no natural recovery has been documented. Many of these populations are poorly studied because most monitoring programs are not designed to capture A. cervicornis’ unique life history characteristics. Its patchy distribution, complex growth form, frequent fragmentation, and dislodgment present a challenge for long term tracking. Furthermore, its ability to exist from small isolated colonies to semi-continuous patches spanning hectares makes defining individuals to assess abundance, survival, health, and growth a difficult task. The aim of this dissertation was to develop a species-specific monitoring protocol to describe the abundance and cover of A. cervicornis and the effects of disease, predation, and disturbance events across space and time. The monitoring protocol was developed and used across three sub-regions of the Florida Reef Tract (Broward County, Middle Keys, and Dry Tortugas). Several permanent 3.5 m radial plots were installed across multiple sites in each sub-region. A species census, percent cover, and demographic data of a sub-set of colonies were collected three times per year (winter, summer, and fall) from 2008-2016. These results were then used to assist in designing and testing optimal outplant strategies. Outplanting occurred at seven sites in Broward County, FL between 2012- 2015. Experiments were designed to assess the effects outplant colony density, host genotype, colony size, and attachment technique had on colony survival, growth, and health. The monitoring protocol was successfully used for identifying spatial and temporal patterns and trends in cover, disease, and predation on A. cervicornis across a range of population sizes. Percent cover of living A. cervicornis declined significantly during the duration of the project. Disease prevalence and occurrence was highest during the summer. Colony size and volume increased with depth and were the largest in the Broward County sub-region. Disease caused the most mortality, however fireworms were the most prevalent cause of recent mortality. Disease and predation were more prevalent on masses (individuals larger than 1.5 m in diameter). The outplant experiments showed that colony survival and health were greatest when colonies had greater than 15 cm in total tissue and in densities less than 1 col/m2. Host genotype and outplant site had variable effects on survival and growth. Outplanted colonies quickly acclimated to their environment and increased colony abundance within sites by fragmentation. Prevalence of disease and predation were lower on outplanted colonies than wild colonies. Frequent disturbances such as tropical storms, hurricanes, and disease events caused increased, prolonged, and widespread mortality and fragmentation, however periods void of disturbances resulted in recovery and growth. Therefore, reducing the effects of climate change and determining and decreasing the causes of disease could promote species recovery. In the meantime, population enhancement by outplanting is a viable way to assist species conservation and recovery

Biological Assessments of Six Selected Fishes, Amphibians, and Mussels in Illinois

ID: 8758; issued November 1, 1996INHS Technical Report prepared for Illinois Department of Natural Resources, Division of Natural Heritag

Climate Change and the Biodiversity Crisis as Promoters for Emergent Diseases

What are the possible effects of the ecosystem degradation being driven by human activity? While not easy to predict, some of these consequences are becoming evident, as is the case with the emergence and spread of new diseases

Ecological equivalence: a realistic assumption for niche theory as a testable alternative to neutral theory

Hubbell's 2001 neutral theory unifies biodiversity and biogeography by modelling steady-state distributions of species richness and abundances across spatio-temporal scales. Accurate predictions have issued from its core premise that all species have identical vital rates. Yet no ecologist believes that species are identical in reality. Here I explain this paradox in terms of the ecological equivalence that species must achieve at their coexistence equilibrium, defined by zero net fitness for all regardless of intrinsic differences between them. I show that the distinction of realised from intrinsic vital rates is crucial to evaluating community resilience. An analysis of competitive interactions reveals how zero-sum patterns of abundance emerge for species with contrasting life-history traits as for identical species. I develop a stochastic model to simulate community assembly from a random drift of invasions sustaining the dynamics of recruitment following deaths and extinctions. Species are allocated identical intrinsic vital rates for neutral dynamics, or random intrinsic vital rates and competitive abilities for niche dynamics either on a continuous scale or between dominant-fugitive extremes. Resulting communities have steady-state distributions of the same type for more or less extremely differentiated species as for identical species. All produce negatively skewed log-normal distributions of species abundance, zero-sum relationships of total abundance to area, and Arrhenius relationships of species to area. Intrinsically identical species nevertheless support fewer total individuals, because their densities impact as strongly on each other as on themselves. Truly neutral communities have measurably lower abundance/area and higher species/abundance ratios. Neutral scenarios can be parameterized as null hypotheses for testing competitive release, which is a sure signal of niche dynamics. Ignoring the true strength of interactions between and within species risks a substantial misrepresentation of community resilience to habitat los

A Scale-Explicit Framework for Conceptualizing the Environmental Impacts of Agricultural Land Use Changes

Demand for locally-produced food is growing in areas outside traditionally dominant agricultural regions due to concerns over food safety, quality, and sovereignty; rural livelihoods; and environmental integrity. Strategies for meeting this demand rely upon agricultural land use change, in various forms of either intensification or extensification (converting non-agricultural land, including native landforms, to agricultural use). The nature and extent of the impacts of these changes on non-food-provisioning ecosystem services are determined by a complex suite of scale-dependent interactions among farming practices, site-specific characteristics, and the ecosystem services under consideration. Ecosystem modeling strategies which honor such complexity are often impenetrable by non-experts, resulting in a prevalent conceptual gap between ecosystem sciences and the field of sustainable agriculture. Referencing heavily forested New England as an example, we present a conceptual framework designed to synthesize and convey understanding of the scale- and landscape-dependent nature of the relationship between agriculture and various ecosystem services. By accounting for the total impact of multiple disturbances across a landscape while considering the effects of scale, the framework is intended to stimulate and support the collaborative efforts of land managers, scientists, citizen stakeholders, and policy makers as they address the challenges of expanding local agriculture