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USGS2001

Artificial insemination in captive Whooping Cranes: Results from genetic analyses

Artificial insemination has been used frequently in the captive whooping crane (Grus americana) population. In the 1980s, it was necessary at times to inseminate females with semen from several males during the breeding season or with semen from multiple males simultaneously due to unknown sperm viability of the breeding males. The goals of this study were to apply microsatellite DNA profiles to resolve uncertain paternities and to use these results to evaluate the current paternity assignment assumptions used by captive managers. Microsatellite DNA profiles were successful in resolving 20 of 23 paternity questions. When resolved paternities were coupled with data on insemination timing, substantial information was revealed on fertilization timing in captive whooping cranes. Delayed fertilization from inseminations 6+ days pre-oviposition suggests capability of sperm storage.

Zoo Biology↗

USGS2015

Hierarchical stochastic modeling of large river ecosystems and fish growth across spatio-temporal scales and climate models: the Missouri River endangered pallid sturgeon example

We present a hierarchical series of spatially decreasing and temporally increasing models to evaluate the uncertainty in the atmosphere – ocean global climate model (AOGCM) and the regional climate model (RCM) relative to the uncertainty in the somatic growth of the endangered pallid sturgeon (Scaphirhynchus albus). For effects on fish populations of riverine ecosystems, cli- mate output simulated by coarse-resolution AOGCMs and RCMs must be downscaled to basins to river hydrology to population response. One needs to transfer the information from these climate simulations down to the individual scale in a way that minimizes extrapolation and can account for spatio-temporal variability in the intervening stages. The goal is a framework to determine whether, given uncertainties in the climate models and the biological response, meaningful inference can still be made. The non-linear downscaling of climate information to the river scale requires that one realistically account for spatial and temporal variability across scale. Our down- scaling procedure includes the use of fixed/calibrated hydrological flow and temperature models coupled with a stochastically parameterized sturgeon bioenergetics model. We show that, although there is a large amount of uncertainty associated with both the climate model output and the fish growth process, one can establish significant differences in fish growth distributions between models, and between future and current climates for a given model.

Missouri River basin↗

USGS2017

Dynamic oceanography determines fine scale foraging behavior of Masked Boobies in the Gulf of Mexico

During breeding, foraging marine birds are under biological, geographic, and temporal constraints. These contraints require foraging birds to efficiently process environmental cues derived from physical habitat features that occur at nested spatial scales. Mesoscale oceanography in particular may change rapidly within and between breeding seasons, and findings from well-studied systems that relate oceanography to seabird foraging may transfer poorly to regions with substantially different oceanographic conditions. Our objective was to examine foraging behavior of a pan-tropical seabird, the Masked Booby ( Sula dactylatra ), in the understudied Caribbean province, a moderately productive region driven by highly dynamic currents and fronts. We tracked 135 individuals with GPS units during May 2013, November 2013, and December 2014 at a regionally important breeding colony in the southern Gulf of Mexico. We measured foraging behavior using characteristics of foraging trips and used area restricted search as a proxy for foraging events. Among individual attributes, nest stage contributed to differences in foraging behavior whereas sex did not. Birds searched for prey at nested hierarchical scales ranging from 200 m—35 km. Large-scale coastal and shelf-slope fronts shifted position between sampling periods and overlapped geographically with overall foraging locations. At small scales (at the prey patch level), the specific relationship between environmental variables and foraging behavior was highly variable among individuals but general patterns emerged. Sea surface height anomaly and velocity of water were the strongest predictors of area restricted search behavior in random forest models, a finding that is consistent with the characterization of the Gulf of Mexico as an energetic system strongly influenced by currents and eddies. Our data may be combined with tracking efforts in the Caribbean province and across tropical regions to advance understanding of seabird sensing of the environment and serve as a baseline for anthropogenic based threats such as development, pollution, and commercial fisheries.

Gulf of Mexico, Isla Muertos↗

USGS2013

Characterization of hydrodynamic and sediment conditions in the lower Yampa River at Deerlodge Park, east entrance to Dinosaur National Monument, northwest Colorado, 2011

The Yampa River in northwestern Colorado is the largest, relatively unregulated river system in the upper Colorado River Basin. Water from the Yampa River Basin continues to be sought for a number of municipal, industrial, and energy uses. It is anticipated that future water development within the Yampa River Basin above the amount of water development identified under the Upper Colorado River Endangered Fish Recovery Implementation Program and the Programmatic Biological Opinion may require additional analysis in order to understand the effects on habitat and river function. Water development in the Yampa River Basin could alter the streamflow regime and, consequently, could lead to changes in the transport and storage of sediment in the Yampa River at Deerlodge Park. These changes could affect the physical form of the reach and may impact aquatic and riparian habitat in and downstream from Deerlodge Park. The U.S. Geological Survey, in cooperation with the Colorado Water Conservation Board, began a study in 2011 to characterize the current hydrodynamic and sediment-transport conditions for a 2-kilometer reach of the Yampa River in Deerlodge Park. Characterization of channel conditions in the Deerlodge Park reach was completed through topographic surveying, grain-size analysis of streambed sediment, and characterization of streamflow properties. This characterization provides (1) a basis for comparisons of current stream functions (channel geometry, sediment transport, and stream hydraulics) to future conditions and (2) a dataset that can be used to assess channel response to streamflow alteration scenarios indicated from computer modeling of streamflow and sediment-transport conditions.

Colorado↗

USGS2005

Forestry practices and aquatic biodiversity: Fish

In the Pacific Northwest, fish communities are found in a diverse array of aquatic habitats ranging from the large coastal rivers of the temperate rainforests, to the fragmented and sometimes ephemeral streams of the xeric interior basins, and high-elevation streams and lakes in the mountainous areas (Rieman et al. 2003). Only high-elevation lakes and streams isolated above barriers to fish passage remained historically devoid of fish because they were never invaded following Pleistocene glaciation (Smith 1981). Despite this widespread distribution and once great population abundances, taxonomic diversity of fishes in these forested systems is naturally lower than in aquatic habitats in the eastern U.S. (Reeves, Bisson, and Dambacher 1998). Interactions among factors that influence species richness in aquatic systems (e.g., basin size, long-term stability of habitat, and barriers to colonization; Smith 1981) continue to influence the occurrence and persistence of fishes in these systems today. Consequently, the larger low-elevation rivers and estuaries support the greatest variety of fish species. In the high-elevation tributary streams, fish communities are less complex because these aquatic systems were less climatically and geologically stable, and fish populations were smaller and more prone to local extirpation. Furthermore, barriers to fish passage inhibited dispersal and colonization (Smith 1981). Streams in forested landscapes generally support salmon and trout, Oncorhynchus spp., whitefish Prosopium spp., sculpins Cottus spp., suckers Catostomus spp., and minnows (Cyprinidae), but in some of the colder streams, chars (e.g., Salvelinus confluentus and Salvelinus malma ) and lampreys (Petromyzontidae)may also occur (Rieman et al. 2003). Although biodiversity defined in terms of fish species richness is low in the Pacific Northwest, intraspecific variability is high, and polytypic fish species are common in the diverse aquatic habitats of the region. For example, the salmonids in the coastal rivers and streams, and the larger interconnected streams, rivers, and lakes of the interior exhibit a variety of ecotypes and migratory life histories (Healey 1986; Trotter 1989; Larson and McIntire 1993; Northcote 1997). This life-history variation appears to be associated with adaptation to spatial and temporal variation in environment (e.g., Schaffer and Elson 1975; Carl and Healey 1984; Beacham and Murray 1987), and there is some evidence of the genetic heritability of life-history traits (Carl and Healey 1984; Gharrett and Smoker 1993; Hankin, Nicholas, and Downey 1993). Persistence of any level of biological organization (e.g., life-history type, population, metapopulation, subspecies, species, community) is related to the interaction of environmental and biological components, and intraspecific diversity is a means of spreading risk ( sensu den Boer 1968) of extirpation in dynamic environments (Gresswell 1999). Unfortunately, despite the broad distribution and extensive intraspecific diversity, persistence of native fishes is uncertain in the Pacific Northwest. Many populations of anadromous salmonids, once synonymous with vigorous biological communities throughout the region, are threatened with extinction (Nehlsen, Williams, and Lichatowich 1991; Frissell 1993; Thurow, Lee, and Rieman 1997). Furthermore, over half of the native taxa in the Columbia River Basin are either listed under the Endangered Species Act, are being considered for listing, or are deemed sensitive by the management agencies (Lee et al. 1997; Thurow, Lee, and Rieman 1997). Potamodromous species like bull trout Salvelinus confluentus are estimated to occur as strong populations in less than 5% of their potential range (Rieman, Lee, and Thurow 1997). Although not currently listed under the endangered species list, the coastal cutthroat trout Oncorhynchus clarki is managed as a sensitive species in Oregon and California (Hall, Bisson, and Gresswell 1997). Native non-game fishes have rarely been monitored, but populations of species such as large-scale suckers ( Catostomus macrocheilus ), squawfish ( Ptychocheilus umpquae ), and Pacific lamprey ( Lampetra tridentata ) also are declining in some drainages (Oregon Department of Fish and Wildlife, unpublished data).

Pacific Northwest↗

USGS2004

Seafloor habitat mapping and classification in Glacier Bay, Alaska: Phase 1 & 2 1996-2004

Glacier Bay is a diverse fjord ecosystem with multiple sills, numerous tidewater glaciers and a highly complex oceanographic system. The Bay was completely glaciated prior to the 1700’s and subsequently experienced the fastest glacial retreat recorded in historical times. Currently, some of the highest sedimentation rates ever observed occur in the Bay, along with rapid uplift (up to 2.5 cm/year) due to a combination of plate tectonics and isostatic rebound. Glacier Bay is the second deepest fjord in Alaska, with depths over 500 meters. This variety of physical processes and bathymetry creates many diverse habitats within a relatively small area (1,255 km 2 ). Habitat can be defined as the locality, including resources and environmental conditions, occupied by a species or population of organisms (Morrison et al 1992). Mapping and characterization of benthic habitat is crucial to an understanding of marine species and can serve a variety of purposes including: understanding species distributions and improving stock assessments, designing special management areas and marine protected areas, monitoring and protecting important habitats, and assessing habitat change due to natural or human impacts. In 1996, Congress recognized the importance of understanding benthic habitat for fisheries management by reauthorizing the Magnuson-Stevens Fishery Conservation and Management Act and amending it with the Sustainable Fisheries Act (SFA). This amendment emphasizes the importance of habitat protection to healthy fisheries and requires identification of essential fish habitat in management decisions. Recently, the National Park Service’s Ocean Stewardship Strategy identified the creation of benthic habitat maps and sediment maps as crucial components to complete basic ocean park resource inventories (Davis 2003). Glacier Bay National Park managers currently have very limited knowledge about the bathymetry, sediment types, and various marine habitats of ecological importance in the Park. Ocean floor bathymetry and sediment type are the building blocks of marine communities. Bottom type and shape affects the kinds of benthic communities that develop in a particular environment as well as the oceanographic conditions that communities are subject to. Accurate mapping of the ocean floor is essential for park manager’s understanding of existing marine communities and will be important in assessing human induced changes (e.g., vessel traffic and commercial fishing), biological change (e.g., rapid sea otter recolonization), and geological processes of change (e.g., deglaciation). Information on animal-habitat relationships, particularly within a marine reserve framework, will be valuable to agencies making decisions about critical habitats, marine reserve design, as well as fishery management. Identification and mapping of benthic habitat provides National Park Service mangers with tools to increase the effectiveness of resource management. The primary objective of this project is to investigate the geological characteristics of the biological habitats of halibut, Dungeness crab, king crab, and Tanner crab within Glacier Bay National Park. Additionally, habitat classification of shallow water regions of Glacier Bay will provide crucial information on the relationship between benthic habitat features and the abundance of benthic prey items for a variety of marine predators, including sea ducks, the rapidly increasing population of sea otters, and other marine mammals.

Alaska↗

USGS2015

Coastal landforms and processes at the Cape Cod National Seashore, Massachusetts—A primer

Anyone who spends more than a few days on Cape Cod (the Cape) quickly becomes a coastal geologist, quickly learning the rhythms of daily tides and the seasonal cycles of beaches growing and being swept away by storms; swimmers and surfers track how the breakers appear, and dog-walkers notice the hard-packed sand blanketed overnight by an airy layer that leaves deep labored tracks. Careful observers whose paths wander to the ocean’s edge will observe many of the landforms and coastal processes described in this book and if we have done our job well, the stories told here will seem familiar. Watchful experience brings insights; indeed, this is how scientists and perhaps how artists work, describing patterns that explain and predict. When is the next high tide? What will the winter bring? Where do we build, fish, swim? How do wind and waves offshore in the North Atlantic help arrange the plants and dunes and hollows on the beach? And most of all, as human animals drawn to live and play on the edge of the ocean, how do we get the benefits of this complex natural system of geology and biology? How do we affect coastal processes; how is the coast changing now and how is the coast likely to change in years ahead with climate warming and climate change? This book is about the highly dynamic coastal landforms of Cape Cod—the beaches, bluffs, spits, dunes, barrier beaches, estuaries, and salt marshes. What they are, why they are where they are, how they behave with respect to the greater Cape Cod coastal system—how the landforms respond to day-to-day and long-term geologic processes, such as waves and currents, change in sediment transport, relative sea-level rise, and meteorological processes such as hurricanes, nor’easters, and cold front passages. It is also about how the landforms got to be where they are and the way they are and where they are headed in the near future with the predicted effects of global climate warming and change. Our objective is to provide a single source of understandable and readable scientific information for those who live, play, and work on outer Cape Cod and at the Cape Cod National Seashore, as well as to provide an introduction to Cape Cod’s coastal landforms for anyone with an interest in Earth science and nature who wants a better understanding of coastal systems and processes. Basic to an understanding of coastal landforms is the fact that they work together—they interact—as elements of many systems, and therefore our ultimate concern is not the individual landform itself but rather the geologic systems that make up Cape Cod and the Cape Cod National Seashore. Much of this discussion can be applied as well to Nantucket, Martha’s Vineyard, and other coastal regions. The coast of outer Cape Cod, about 15,000 years old and about 30 miles (mi; 50 kilometers [km]) long, is but a tiny piece of the global Earth system that operates within a much larger realm of space and time. Cape Cod’s coastal landforms are temporary holding patterns within a continual interplay of land, sea, atmosphere, climate, ice, and life, including a variety of human activities that both affect and are affected by these processes. These interactions produce the landforms, and the landforms alter the interactions. The resulting landforms provide habitats for a wide variety of coastal plants and animals. The habitats along with their inhabitants and the interacting environmental factors controlling them constitute the Cape’s complex and varied ecosystems. But for now, we are here to enjoy it. We welcome you to delight and wonder at the perpetually changing handshake between the ocean and shore at New England’s Great Beach.

Massachusetts↗

USGS2005

Simulation of hydraulic characteristics in the white sturgeon spawning habitat of the Kootenai River near Bonners Ferry, Idaho

Hydraulic characterization of the Kootenai River, especially in the white sturgeon spawning habitat reach, is needed by the Kootenai River White Sturgeon Recovery Team to promote hydraulic conditions that improve spawning conditions for the white sturgeon (Acipenser transmontanus) in the Kootenai River. The decreasing population and spawning failure of white sturgeon has led to much concern. Few wild juvenile sturgeons are found in the river today. Determining the location of the transition between backwater and free-flowing water in the Kootenai River is a primary focus for biologists who believe that hydraulic changes at the transition affect the location where the sturgeon choose to spawn. The Kootenai River begins in British Columbia, Canada, and flows through Montana, Idaho, and back into British Columbia. The 65.6-mile reach of the Kootenai River in Idaho was studied. The study area encompasses the white sturgeon spawning reach that has been designated as a critical habitat. A one-dimensional hydraulic-flow model of the study reach was developed, calibrated, and used to develop relations between hydraulic characteristics and water-surface elevation, discharge, velocity, and backwater extent. The model used 164 cross sections, most of which came from a previous river survey conducted in 2002-03. The model was calibrated to water-surface elevations at specific discharges at five gaging stations. Calibrated water-surface elevations ranged from about 1,743 to about 1,759 feet, and discharges used in calibration ranged from 5,000 to 47,500 cubic feet per second. Model calibration was considered acceptable when the difference between measured and simulated water-surface elevations was ?0.15 foot or less. Measured and simulated average velocities also were compared. These comparisons indicated agreement between measured and simulated values. The location of the transition between backwater and free-flowing water was determined using the calibrated model. The model was used to simulate hydraulic characteristics for a range of water-surface elevations from 1,741 to 1,762 feet and discharges from 4,000 to 75,000 cubic feet per second. These simulated hydraulic characteristics were used to develop a three-parameter relation-discharge in the study reach, water-surface elevation at Kootenai River at Porthill gaging station (12322000), and the location of the transition between backwater and free-flowing water. Simulated hydraulic characteristics produced backwater locations ranging from river mile (RM) 105.6 (Porthill) to RM 158 (near Crossport), a span of about 52 miles. However, backwater locations from measured data ranged primarily from RM 152 to RM 157, a 5-mile span. The average backwater location from measured data was at about RM 154. Three-parameter relations also were developed for determining the amount of discharge in the Shorty Island side channel and average velocity at selected cross sections in the study reach. Simulated discharge for the side channel relative to measured data ranged from 0 to about 5,500 cubic feet per second, and simulated average velocity relative to measured data ranged from 0 to about 3.5 feet per second. Relations using other hydraulic, sediment/incipient motion, ecological, and biological characteristics also could be developed. The relations also can be used in real time by accessing data from the Web. Discharge and stage data for two gaging stations, Tribal Hatchery (12310100) and Porthill (12322500), are available from the Idaho U.S. Geological Survey web page (URL: http://waterdata.usgs.gov/id/nwis/current/?type=flow). Because the coordinate axes of the three-parameter relations use discharge from the Tribal Hatchery gaging station and water-surface elevation from the Porthill gaging station, the location of the transition between backwater and free-flowing water can be determined for current conditions using the real-time data. Similarly, discharge in the Shorty Island side channel and (or) average velocity at selected cross sections also can be determined for current conditions.

British Columbia;Idaho;Montana↗

USGS2006

Tidal saltmarsh fragmentation and persistence of San Pablo Song Sparrows (Melospiza melodia samuelis): Assessing benefits of wetland restoration in San Francisco Bay

The San Pablo Song Sparrow (Melospiza melodia samuelis) is one of three morphologically distinct Song Sparrow subspecies in tidal marshes of the San Francisco Bay estuary. These subspecies are rare, because as the human population has grown, diking and development have resulted in loss of 79% of the historic tidal marshes. Hundreds of projects have been proposed in the past decade to restore tidal marshes and benefit endemic populations. To evaluate the value of these restoration projects for Song Sparrows, we developed a population viability analysis (PVA) model to examine persistence of samuelis subspecies in relation to parcel size, connectivity, and catastrophe in San Pablo Bay. A total of 101 wetland parcels were identified from coverages of modern and historic tidal marshes. Parcels were grouped into eight fragments in the historical landscape and 10 in the present landscape. Fragments were defined as a group of parcels separated by >1 km, a distance that precluded regular interchange. Simulations indicated that the historic (circa 1850) samuelis population was three times larger than the modern population. However, only very high levels (>70% mortality) of catastrophe would threaten their persistence. Persistence of populations was sensitive to parcel size at a carrying capacity of <10 pairs, but connectivity of parcels was found to have little importance because habitats were dominated by a few large parcels. Our analysis indicates little risk of extinction of the samuelis subspecies with the current extent of tidal marshes, but the vulnerability of the small-est parcels suggests that restoration should create larger continuous tracts. Thus, PVA models may be useful tools for balancing the costs and benefits of restoring habitats for threatened tidal-marsh populations in wetland restoration planning.

Studies in Avian Biology↗

USGS2016

Space and habitat use by breeding Golden-winged Warblers in the central Appalachian Mountains

Spot-mapping, or recording locations of observed use by territorial songbirds, is often used to delineate core breeding territories. However, a recent radiotelemetry study in Minnesota found that male Golden-winged Warblers ( Vermivora chrysoptera ) occurring in high-density populations used resources outside their spot-mapped territories. We compared differences in space use and quantified vegetation characteristics in territories and home ranges of individual male Golden-winged Warblers that we monitored using both spot-mapping and radiotelemetry. Our study sites in Pennsylvania and West Virginia had lower population density than in Minnesota. We recorded 524 telemetry locations among 12 male Golden-winged Warblers in Pennsylvania and 488 telemetry locations among seven males in West Virginia. Telemetry-delineated home ranges (100% and 50% minimum convex polygons [MCPs]) were two to four times larger than spot-mapped territories. Spot-mapped territories had minimal overlap among individual males, but home ranges had extensive space-use overlap in both the number and amount of MCP overlap among several males. Forty percent of telemetry locations were outside of spot-mapped territories. Sapling abundance was greater in home ranges (mean 22.5 saplings ± 2.1 SE) than spot-mapped territories in Pennsylvania (11.8 ± 1.9). In managed pastures of West Virginia, tree abundance was greater in home ranges (7.3 trees ± 0.8) than spot-mapped territories (1.9 ± 0.6). More telemetry locations than spot-mapped locations occurred in forest in both states, and telemetry locations were closer to intact forested edges of shrublands than spot-mapped locations in West Virginia. On several occasions, we observed radiomarked individuals >200 m (maximum of 1.5 km) from their MCP spot-mapped territory boundaries. Why Golden-winged Warblers leave their spot-mapped territories is unknown, but our observations suggest foraging, forays for extra-pair mating, and reconnaissance for postbreeding movements as possible motives. Our results from areas with low Golden-winged Warbler territory densities are similar to patterns reported for a high-density population in Minnesota. Ultimately, spot-mapping alone does not accurately reflect space use of Golden-winged Warblers during the breeding season, nor does it characterize all cover types used even in areas with relatively low territory densities. Current conservation plans for Golden-winged Warblers that are based on habitat characteristics measured within spot-mapped territories or at the landscape scale may not adequately incorporate space use at intermediate spatial scales of clusters of territories or home ranges.

Studies in Avian Biology↗

USGS2004

Bighorn sheep ( Ovis canadensis ) survivorship and habitat studies in Bighorn Canyon National Recreation Area and surrounding lands, Wyoming and Montana, 2000–2003

In the 1850s, bighorn sheep (Ovis canadensis) were numerous and distributed throughout the Bighorn and Pryor Mountains of Montana and Wyoming. After European settlement, bighorn sheep populations declined, and local extinctions occurred in much of their historic range in the western United States. The current bighorn sheep population of Bighorn Canyon National Recreation Area (BICA) is the product of several reintroductions into BICA and surrounding lands. Following a release in 1973 and growth rates near maximum potential of 19.8% per year, the population grew to an estimated peak population of about 211 animals in 1993 and 1994 (Kissell and others, 1996). Recent counts indicate the bighorn sheep population has declined. Kissell and others (1996) reported that the population began to decline rapidly in 1995 and 1996. He noted low ewe:lamb ratios during the decline phase. Bighorn sheep numbers declined to the lowest minimum viable population size of 100 animals recommended by several bighorn sheep experts (Bailey, 1990; Berger, 1990; Smith and others, 1991). National Park Service (NPS) and Bureau of Land Management (BLM) managers were concerned about the decline and requested a study of its causes. In 2000, the U.S. Geological Survey- Biological Resources Division (USGS-BRD) received funding to start a 3-year study of survivorship, condition, and population growth rate of the BICA bighorn sheep population. Several possibilities exist for the bighorn sheep decline. The herd may have experienced a rapid population expansion, followed by a decline to stability at a lower long-term carrying capacity. This pattern of apparently overshooting carrying capacity following an initial release has been reported for a number of ungulates (Caughley, 1976). Disease may have caused the decline; predation and/or competition with wild horses (Equus caballus) may also have been factors. A spatial model of wild horse carrying capacity (Coughenour, 1999) was developed to assist managers in evaluating wild horse population numbers. Studies of summer consumption rates by wild horses and other ungulates were conducted by James Detling and students from Colorado State University (Peterson and others, 1997; Gerhardt and Detling, 1998; Fahnestock, 1998). Diets and habitat use of wild horses, bighorn sheep and mule deer were studied by Coates and Schemnitz (1989) and Kissell and others (1996). Both Coates and Schemnitz (1989) and Kissell and others (1996) reported a high degree of dietary overlap between wild horses and bighorn sheep. However, Kissell and others (1996) concluded that a high degree of spatial separation between wild horses and bighorn sheep, at least under the study conditions, precluded any significant negative competitive influences. The most important overlap of bighorn sheep and wild horses seems to be on winter range. Competition can be difficult to determine, since current conditions may not reveal competition that has already occurred. Managers remained concerned about the declining bighorn population for the following reasons: Our objectives for the study were to: Evaluate current disease problems and mortality rates, including predation rates, in bighorn sheep through captures and monitoring of bighorn sheep. Determine winter spatial relations of wild horses and bighorn sheep through aerial surveys of winter range. Conduct habitat measurements to determine why bighorn sheep were not using what had been mapped with a GIS-based habitat model as suitable bighorn sheep habitat, and sample winter and summer consumption rates of key forage species to see if there were other factors precluding use of these areas by bighorn sheep. Compare winter lamb recruitment rates and total vegetation consumption rates on bighorn sheep winter use areas, with and without wild horses present. Complete year-round GIS-based distribution maps for wild horses and bighorn sheep in order to identify key areas of species overlap and key areas of species separation for potential habitat improvements. NPS park staff asked USGS to answer the following questions: (a) how large is the population?; (b) how many rams are in the population?; (c) in addition to low lamb recruitment, is mortality or dispersal of adults likely contributing to the decline?; and (d) is trophy hunting of rams contributing to the decline?

Report↗

USGS2018

Disentangling the effects of low pH and metal mixture toxicity on macroinvertebrate diversity

One of the primary goals of biological assessment of streams is to identify which of a suite of chemical stressors is limiting their ecological potential. Elevated metal concentrations in streams are often associated with low pH, yet the effects of these two potentially limiting factors of freshwater biodiversity are rarely considered to interact beyond the effects of pH on metal speciation. Using a dataset from two continents, a biogeochemical model of the toxicity of metal mixtures (Al, Cd, Cu, Pb, Zn) and quantile regression, we addressed the relative importance of both pH and metals as limiting factors for macroinvertebrate communities. Current environmental quality standards for metals proved to be protective of stream macroinvertebrate communities and were used as a starting point to assess metal mixture toxicity. A model of metal mixture toxicity accounting for metal interactions was a better predictor of macroinvertebrate responses than a model considering individual metal toxicity. We showed that the direct limiting effect of pH on richness was of the same magnitude as that of chronic metal toxicity, independent of its influence on the availability and toxicity of metals. By accounting for the direct effect of pH on macroinvertebrate communities, we were able to determine that acidic streams supported less diverse communities than neutral streams even when metals were below no-effect thresholds. Through a multivariate quantile model, we untangled the limiting effect of both pH and metals and predicted the maximum diversity that could be expected at other sites as a function of these variables. This model can be used to identify which of the two stressors is more limiting to the ecological potential of running waters.

Environmental Pollution↗

USGS1988

Proceedings of a workshop on the development and evaluation of habitat suitability criteria: A compilation of papers and discussions presented at Colorado State University, Fort Collins, Colorado, December 8-12, 1986

The development of reliable habitat suitability criteria is critical to the successful implementation of the Instream Flow Incremental Methodology (IFIM), or any other habitat based evaluation technology. It is also a fascinating topic of research, for several reasons. First, the “science” of habitat quantification is relatively young. Descriptions of habitat use and partitioning can be traced back to Darwin, if not further. Attempts to actually quantify habitat use can be found predominantly during the last two decades, with most of the activity occurring in about the last five years. Second, this work is challenging because we are usually working with fish or some other organism that lives out of sight in an environment that is foreign to humans. Most of the data collection techniques that have been developed for standard fisheries work are unsuited, without modification, for criteria development. These factors make anyone involved in this type of research a pioneer, of sorts. Pioneers often make new and wonderful discoveries, but they also sometimes get lost. In our opinion, however, there is an even more rewarding aspect to criteria development research. It seems that the field of biology has tended to become increasingly clinical over the years. Criteria development demands the unobtrusive observation of organisms in their natural environment, a fact that allows the biological to be a naturalist and still get paid for it. The relative youth and importance of habitat quantification have resulted in rapid advancements in the state of the art. The expansion of methods is vividly demonstrated simply by comparing the two Instream Flow Information Papers written on the subject in 1978 and in 1986. One of the missions of the Aquatic Systems Branch (formerly the Instream Flow Group) is to serve as a clearinghouse for new techniques and methods. In keeping with this role, a workshop was conducted during December 1986 to discuss current and newly evolving methods for developing and evaluating habitat suitability criteria. Participation in this workshop was largely by invitation only. The objective was to obtain insights into problems and possible solutions to criteria development, from the perspective of professionals closely involved with the subject. These proceedings of that workshop are intended to supplement the information contained in Instream Flow Information Paper 21, "Development and Evaluation of Habitat Suitability Criteria for Use in the Instream Flow Incremental Methodology." The workshop was closely arranged in five sessions, roughly following the outline of Information Paper 21. The first session dealt with various aspects of study design and how they can influence the outcome of a study. Session two investigated techniques for developing criteria from professional judgment, and some of the problems encountered when personal or agency prejudice enters the picture. Session three concentrated on field data collection procedures, whereas session four examined methods of converting field data into curves. Field verification studies were discussed in session five. Each presentation in the workshop was followed by a question and answer period of 15 to 30 minutes. These discussions were recorded, transcribed, and appended to the end of each paper in these proceedings. We have attempted to capture the essence of these discussions as accurately as possible, but hope that the reader can appreciate the difficulty in translating a free-ranging discussion (from a barely audible tape) to something that makes sense in print. These question and answer sessions constitute the peer review for each of the papers. This provides the reader with the unique opportunity to review the interactions between authors and reviewers.

Book↗

USGS2020

Ontogenetic shifts in mesohabitat use of young-of-year Rio Grande blue sucker in the Big Bend region of the Rio Grande

Alteration of flow regimes by anthropogenic activities is one of the primary environmental problems in riverine systems. Understanding how hydrologic conditions can affect ontogenetic habitat shifts of imperiled fishes is important in order to develop conservation and management strategies for each life-history stage. We examined relationships between the abundance of young-of-the-year (YOY) Rio Grande Blue Sucker and various abiotic variables in the Trans-Pecos region of the Rio Grande in Texas, USA. We used open N -mixture modeling to better understand the factors affecting ontogenetic habitat shifts of the imperiled aridland river fish. In addition, we examined differences in Rio Grande Blue Sucker total length among three mesohabitat types (pool, riffle, and run). The results of open N -mixture modeling suggested that as pool area increased, the abundance of YOY Rio Grande Blue Sucker increased. Total length of YOY Rio Grande Blue Sucker also significantly differed among the three mesohabitat types. The total lengths of YOY Rio Grande Blue Sucker in pool habitats were lower than in other mesohabitats, suggesting that YOY Rio Grande Blue Sucker undergo ontogenetic habitat shifts into greater current velocity habitats as they grow. The habitat associations we documented support the growing body of research emphasizing the importance of maintaining sufficient and appropriately timed flows to avoid prolonged low flows that limit habitat availability for native fish species during sensitive life stages in the Rio Grande and other aridland rivers.

Texas↗

USGS2004

Designation of the type species of Musaraneus Pomel, 1848 (Mammalia: Soricomorpha: Soricidae)

The genus name Musaraneus often is attributed to Brisson (1762), however, most of Brisson's names are unavailable. Pomel (1848) subsequently made the name Musaraneus available, but did not designate a type species. The 18 species that Pomel listed under Musaraneus currently are distributed among five modern genera, two of which (Cryptotis Pomel, 1848 and Diplomesodon Brandt, 1852) are predated by Musaraneus. Because Cryptotis and Diplomesodon potentially could be considered junior synonyms of Musaraneus, I propose Sorex leucodon Hermann, 1780 (= Crocidura leucodon) as the type species for Musaraneus, thereby establishing Musaraneus as a junior synonym of Crocidura Wagler, 1832.

Proceedings of the Biological Society of Washingto↗

USGS2007

Seabirds as indicators of marine ecosystems: Introduction: A modern role for seabirds as indicators

A key requirement for implementing ecosystem-based management is to obtain timely information on significant fluctuations in the ecosystem (Botsford et al. 1997). However, obtaining all necessary information about physical and biological changes at appropriate temporal and spatial scales is a daunting task. Intuitively, one might assume that physical data are more important for the interpretation of ecosystem changes than biological data, but analyses of time series data suggest otherwise: physical data are more erratic and often confusing over the short term compared to biological data, which tend to fluctuate less on annual time scales (Hare & Mantua 2000). Even so, biological time-series may also be confusing when coexisting marine species respond differently to ecosystem variability. For example, while warming temperatures in the Gulf of Alaska following the 1976 to 1977 regime shift favored an increase in gadoids and flatfish, a variety of forage fish and pandalid shrimp species virtually disappeared (Anderson & Piatt 1999). Zooplankton communities in the Gulf of Alaska also demonstrated similar patterns of response (Francis et al. 1998). At the basin scale, favorable conditions for salmon in Alaska following the regime shift were matched inversely by poor conditions in the California Current (Francis et al. 1998). In marine birds, subtropical species increased, while subarctic ones decreased during a warming phase in the southern California Bight. Clearly, no single index can tell the whole story accurately. Multi-species, multi-region, and multi-trophic level approaches are needed to quantify fluctuations in marine ecosystem processes and in the distribution and abundance of its inhabitants, to determine critical parameter thresholds and to use this information in management and marine conservation.

Marine Ecology Progress Series↗

USGS1987

Distribution of ferromanganese nodules in the Pacific Ocean.

The occurrence and distribution of deep-ocean ferromanganese nodules are related to the lithology of pelagic surface-sediment, sediment accumulation rates, sea-floor bathymetry, and benthic circulation. Nodules often occur in association with both biosiliceous and pelagic clay, and less often with calcareous sediment. Factors which influence the rather complex patterns of sediment lithology and accumulation rates include the supply of material to the sea-floor and secondary processes in the deep ocean which alter or redistribute that supply. The supply is largely controlled by: 1) proximity to a source of alumino-silicate material and 2) primary biological productivity in the photic zone of the ocean. Primary productivity controls the 'rain' to the sea-floor of biogenic detritus, which consists mostly of siliceous and calcareous tests of planktonic organisms but also contains smaller proportions of phosphatic material and organic matter. The high accumulation rate (5 mm/1000 yr) of sediment along the equator is a direct result of high productivity in this region of the Pacific. Secondary processes include the dissolution of particulate organic matter at depth in the ocean, notably CaCO3, and the redistribution of sedimentary particles by deep-ocean currents. -J.M.H.

Chemie der Erde↗

USGS2013

Backcasting the decline of a vulnerable Great Plains reproductive ecotype: identifying threats and conservation priorities

Conservation efforts for threatened or endangered species are challenging because the multi-scale factors that relate to their decline or inhibit their recovery are often unknown. To further exacerbate matters, the perceptions associated with the mechanisms of species decline are often viewed myopically rather than across the entire species range. We used over 80 years of fish presence data collected from the Great Plains and associated ecoregions of the United States, to investigate the relative influence of changing environmental factors on the historic and current truncated distributions of the Arkansas River shiner Notropis girardi . Arkansas River shiner represent a threatened reproductive ecotype considered especially well adapted to the harsh environmental extremes of the Great Plains. Historic ( n = 163 records) and current ( n = 47 records) species distribution models were constructed using a vector-based approach in MaxEnt by splitting the available data at a time when Arkansas River shiner dramatically declined. Discharge and stream order were significant predictors in both models; however, the shape of the relationship between the predictors and species presence varied between time periods. Drift distance (river fragment length available for ichthyoplankton downstream drift before meeting a barrier) was a more important predictor in the current model and indicated river segments 375–780 km had the highest probability of species presence. Performance for the historic and current models was high (area under the curve; AUC > 0.95); however, forecasting and backcasting to alternative time periods suggested less predictive power. Our results identify fragments that could be considered refuges for endemic plains fish species and we highlight significant environmental factors (e.g., discharge) that could be manipulated to aid recovery.

Great Plains↗