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At least 379 records · Page 21Linked to original sources
USGS2021

Acute mortality in California tiger salamander (Ambystoma californiense) and Santa Cruz long-toed salamander (Ambystoma macrodactylum croceum) caused by Ribeiroia ondatrae (Class: Trematoda)

In early September 2019, a morbidity and mortality event affecting California tiger salamanders ( Ambystoma californiense ) and Santa Cruz long-toed salamanders ( Ambystoma macrodactylum croceum ) in late stages of metamorphosis was reported at a National Wildlife Refuge in Santa Cruz County, California, U.S.A. During the postmortem disease investigation, severe integumentary metacercarial (Class: Trematoda) infection, associated with widespread skin lesions, was observed. Planorbid snails collected from the ponds of the refuge within seven days of the mortality event were infected with Ribeiroia ondatrae, a digenetic trematode that can cause malformation and death in some amphibians. We suggest sustained seasonal high-water levels due to active habitat management along with several years of increased rainfall led to increased bird visitation, increased over-wintering of snails, and prolonged salamander metamorphosis, resulting in a confluence of conditions and cascading of host-parasite dynamics to create a hyper-parasitized state.

California↗
USGS2014

California State Waters Map Series — Offshore of Half Moon Bay, California

In 2007, the California Ocean Protection Council initiated the California Seafloor Mapping Program (CSMP), designed to create a comprehensive seafloor map of high-resolution bathymetry, marine benthic habitats, and geology within the 3-nautical-mile limit of California’s State Waters. The CSMP approach is to create highly detailed seafloor maps through collection, integration, interpretation, and visualization of swath sonar data, acoustic backscatter, seafloor video, seafloor photography, high-resolution seismic-reflection profiles, and bottom-sediment sampling data. The map products display seafloor morphology and character, identify potential marine benthic habitats, and illustrate both the surficial seafloor geology and shallow (to about 100 m) subsurface geology. The Offshore of Half Moon Bay map area is located in northern California, on the Pacific coast of the San Francisco Peninsula about 40 kilometers south of the Golden Gate. The city of Half Moon Bay, which is situated on the east side of the Half Moon Bay embayment, is the nearest significant onshore cultural center in the map area, with a population of about 11,000. The Pillar Point Harbor at the north edge of Half Moon Bay offers a protected landing for boats and provides other marine infrastructure. The map area lies offshore of the Santa Cruz Mountains, part of the northwest-trending Coast Ranges that run roughly parallel to the San Andreas Fault Zone. The Santa Cruz Mountains lie between the San Andreas Fault Zone and the San Gregorio Fault system. The flat coastal area, which is the most recent of numerous marine terraces, was formed by wave erosion about 105 thousand years ago. The higher elevation of this same terrace west of the Half Moon Bay Airport is caused by uplift on the Seal Cove Fault, a splay of the San Gregorio Fault Zone. Although originally incised into the rising terrain horizontally, the ancient terrace surface has been gently folded into a northwest-plunging syncline by compression related to right-lateral strike-slip movement along the San Gregorio Fault Zone. The lowest elevation coincides with the deepest part of Half Moon Bay; the terrace surface rises both to the north and to the south. Uplift in this map area has resulted in relatively shallow water depths within California’s State Waters and, thus, little accommodation space for sediment accumulation. Sediment is observed in the shelter of Half Moon Bay and on the outer half of the California’s State Waters shelf. Sediment in the area is mobile, often forming dunes and sand waves. A westward bend in the San Andreas Fault Zone, southeast of the map area, coupled with right-lateral movement along the Seal Cove Fault, which comes ashore in Pillar Point Harbor, has resulted in the folding and uplifting of sedimentary rocks of the Purisima Formation in the offshore. Differential erosion of these folded and faulted layers of the Purisima Formation has exposed the parallel curved-rock ridges that are visible on the seafloor from the headland at Pillar Point. During the winter, strong North Pacific storms generate large, long-period waves that shoal and break over this bedrock reef at the world-famous surfing location known as Mavericks. The Offshore of Half Moon Bay map area lies within the cold-temperate biogeographic zone that is called either the “Oregonian province” or the “northern California ecoregion.” This biogeographic province is maintained by the long-term stability of the southward-flowing California Current, an eastern limb of the North Pacific subtropical gyre that flows from Oregon to Baja California. At its midpoint off central California, the California Current transports subarctic surface (0–500 m deep) waters southward, about 150 to 1,300 km from shore. Seasonal northwesterly winds that are, in part, responsible for the California Current, generate coastal upwelling. The south end of the Oregonian province is at Point Conception (about 365 km south of the map area), although its associated phylogeographic group of marine fauna may extend beyond to the area offshore of Los Angeles in southern California. The ocean off central California has experienced a warming over the last 50 years that is driving an ecosystem shift away from the productive subarctic regime towards a depopulated subtropical environment. Seafloor habitats in the Offshore of Half Moon Bay map area, which lies within the Shelf (continental shelf) megahabitat, range from significant rocky outcrops that support kelp-forest communities nearshore to rocky-reef communities in deep water. Biological productivity resulting from coastal upwelling supports populations of sea birds such as Sooty Shearwater, Western Gull, Common Murre, Cassin’s Auklet, and many other less populous bird species. In addition, an observable recovery of Humpback and Blue Whales has occurred in the area; both species are dependent on coastal upwelling to provide nutrients. The large extent of exposed inner shelf bedrock supports large forests of “bull kelp,” which is well adapted for high wave-energy environments. Common fish species found in the kelp beds and rocky reefs include lingcod and various species of rockfish and greenling.

California↗
USGS2014

California State Waters Map Series — Offshore of San Gregorio, California

In 2007, the California Ocean Protection Council initiated the California Seafloor Mapping Program (CSMP), designed to create a comprehensive seafloor map of high-resolution bathymetry, marine benthic habitats, and geology within the 3-nautical-mile limit of California's State Waters. The CSMP approach is to create highly detailed seafloor maps through collection, integration, interpretation, and visualization of swath sonar data, acoustic backscatter, seafloor video, seafloor photography, high-resolution seismic-reflection profiles, and bottom-sediment sampling data. The map products display seafloor morphology and character, identify potential marine benthic habitats, and illustrate both the surficial seafloor geology and shallow (to about 100 m) subsurface geology. The Offshore of San Gregorio map area is located in northern California, on the Pacific coast of the San Francisco Peninsula about 50 kilometers south of the Golden Gate. The map area lies offshore of the Santa Cruz Mountains, part of the northwest-trending Coast Ranges that run roughly parallel to the San Andreas Fault Zone. The Santa Cruz Mountains lie between the San Andreas Fault Zone and the San Gregorio Fault system. The nearest significant onshore cultural centers in the map area are San Gregorio and Pescadero, both unincorporated communities with populations well under 1,000. Both communities are situated inland of state beaches that share their names. No harbor facilities are within the Offshore of San Gregorio map area. The hilly coastal area is virtually undeveloped grazing land for sheep and cattle. The coastal geomorphology is controlled by late Pleistocene and Holocene slip in the San Gregorio Fault system. A westward bend in the San Andreas Fault Zone, southeast of the map area, coupled with right-lateral movement along the San Gregorio Fault system have caused regional folding and uplift. The coastal area consists of high coastal bluffs and vertical sea cliffs. Coastal promontories in the northern and southern parts of the map area are the result of right-lateral motion on strands of the San Gregorio Fault system. In the south, headlands near Pescadero Point have been uplifted by motion along the west strand of the San Gregorio Fault (also called the Frijoles Fault), which separates rocks of the Pigeon Point Formation south of the fault from rocks of the Purisima Formation north of the fault. The regional uplift in this map area has caused relatively shallow water depths within California's State Waters and, thus, little accommodation space for sediment accumulation. Sediment is observed offshore in the central part of the map area, in the shelter of the headlands north of the east strand of the San Gregorio Fault (also called the Coastways Fault) around Miramontes Point (about 5 km north of the map area) and also on the outer half of the California's State Waters shelf in the south where depths exceed 40 m. Sediment in the outer shelf of California's State Waters is rippled, indicating some mobility. The Offshore of San Gregorio map area lies within the cold-temperate biogeographic zone that is called either the "Oregonian province" or the "northern California ecoregion." This biogeographic province is maintained by the long-term stability of the southward-flowing California Current, an eastern limb of the North Pacific subtropical gyre that flows from Oregon to Baja California. At its midpoint off central California, the California Current transports subarctic surface (0–500 m deep) waters southward, about 150 to 1,300 km from shore. Seasonal northwesterly winds that are, in part, responsible for the California Current, generate coastal upwelling. The south end of the Oregonian province is at Point Conception (about 350 km south of the map area), although its associated phylogeographic group of marine fauna may extend beyond to the area offshore of Los Angeles in southern California. The ocean off of central California has experienced a warming over the last 50 years that is driving an ecosystem shift away from the productive subarctic regime towards a depopulated subtropical environment. Seafloor habitats in the Offshore of San Gregorio map area, which lies within the Shelf (continental shelf) megahabitat, range from significant rocky outcrops that support kelp-forest communities nearshore to rocky-reef communities in deep water. Biological productivity resulting from coastal upwelling supports diverse populations of sea birds such as Sooty Shearwater, Western Gull, Common Murre, Cassin's Auklet, and many other less populous bird species. In addition, an observable recovery of Humpback and Blue Whales has occurred in the area; both species are dependent on coastal upwelling to provide nutrients. The large extent of exposed inner shelf bedrock supports large forests of "bull kelp," which is well adapted for high wave-energy environments. Common fish species found in the kelp beds and rocky reefs include lingcod and various species of rockfish and greenling.

California↗
USGS2015

Habitat edges have weak effects on duck nest survival at local spatial scales

Edge effects on nesting success have been documented in breeding birds in a variety of contexts, but there is still uncertainty in how edge type and spatial scale determine the magnitude and detectability of edge effects. Habitat edges are often viewed as predator corridors that surround or penetrate core habitat and increase the risk of predation for nearby nests. We studied the effects of three different types of potential predator corridors (main perimeter roads, field boundaries, and ATV trails within fields) on waterfowl nest survival in California. We measured the distance from duck nests to the nearest edge of each type, and used distance as a covariate in a logistic exposure analysis of nest survival. We found only weak evidence for edge effects due to predation. The best supported model of nest survival included all three distance categories, and while all coefficient estimates were positive (indicating that survival increased with distance from edge), 85% coefficient confidence intervals approached or bounded zero indicating an overall weak effect of habitat edges on nest success. We suggest that given the configuration of edges at our site, there may be few areas far enough from hard edges to be considered ‘core’ habitat, making edge effects on nest survival particularly difficult to detect.

Ardea↗
USGS2013

Uniform California earthquake rupture forecast, version 3 (UCERF3): the time-independent model

In this report we present the time-independent component of the Uniform California Earthquake Rupture Forecast, Version 3 (UCERF3), which provides authoritative estimates of the magnitude, location, and time-averaged frequency of potentially damaging earthquakes in California. The primary achievements have been to relax fault segmentation assumptions and to include multifault ruptures, both limitations of the previous model (UCERF2). The rates of all earthquakes are solved for simultaneously, and from a broader range of data, using a system-level "grand inversion" that is both conceptually simple and extensible. The inverse problem is large and underdetermined, so a range of models is sampled using an efficient simulated annealing algorithm. The approach is more derivative than prescriptive (for example, magnitude-frequency distributions are no longer assumed), so new analysis tools were developed for exploring solutions. Epistemic uncertainties were also accounted for using 1,440 alternative logic tree branches, necessitating access to supercomputers. The most influential uncertainties include alternative deformation models (fault slip rates), a new smoothed seismicity algorithm, alternative values for the total rate of M≥5 events, and different scaling relationships, virtually all of which are new. As a notable first, three deformation models are based on kinematically consistent inversions of geodetic and geologic data, also providing slip-rate constraints on faults previously excluded because of lack of geologic data. The grand inversion constitutes a system-level framework for testing hypotheses and balancing the influence of different experts. For example, we demonstrate serious challenges with the Gutenberg-Richter hypothesis for individual faults. UCERF3 is still an approximation of the system, however, and the range of models is limited (for example, constrained to stay close to UCERF2). Nevertheless, UCERF3 removes the apparent UCERF2 overprediction of M6.5–7 earthquake rates and also includes types of multifault ruptures seen in nature. Although UCERF3 fits the data better than UCERF2 overall, there may be areas that warrant further site-specific investigation. Supporting products may be of general interest, and we list key assumptions and avenues for future model improvements.

California↗
USGS2021

Using high resolution satellite and telemetry data to track flooded habitats, their use by waterfowl, and evaluate effects of drought on waterfowl and shorebird bioenergetics in California

Wetland managers in the Central Valley of California, a dynamic hydrological landscape, require information regarding the amount and location of existing wetland habitat to make decisions on how to best use water resources to support multiple wildlife objectives, particularly during drought. Scientists from the U.S. Geological Survey Western Ecological Research Center (WERC), Point Blue Conservation Science (Point Blue), and the U.S. Fish and Wildlife Service (USFWS) partnered to learn how wetland and flooded agricultural habitats used by waterfowl and shorebirds change during the non-breeding season (July–April) particularly during drought. During extreme drought conditions, the ability to provide sufficient water for wildlife often depends on the timing of water deliveries to managed wetlands and winter-flooded crop fields and decisions on whether to fallow croplands. Waterfowl and shorebirds could be particularly affected by these decisions because they typically rest and feed in flooded habitats. Poor habitat conditions resulting from spatially or temporally suboptimal water deliveries (that is, mismatch between waterfowl habitat needs and timing and location of flooded habitats) could reduce waterfowl hunting opportunities and body condition. Point Blue scientists developed a system for near real-time tracking of habitats used by waterfowl, shorebirds, and some other wetland-dependent “waterbirds” ( www.pointblue.org/watertracker ) and to assess the impacts of drought on habitat availability and on waterfowl and shorebird bioenergetics. The WERC researchers linked these data with near real-time tracking (telemetry) data of duck locations throughout the Valley. The team used these two datasets to relate duck locations to open-water characteristics and to learn how waterfowl use habitats under spatially and temporally changing conditions during drought and non-drought periods. We found that recent extreme drought (2013–15) significantly changed the timing and magnitude of flooding and consequently reduced the availability of habitats used by waterfowl and shorebirds more than other recent historic droughts 2000–11. Drought reduced irrigations of moist soil seed plants and thus there was lower food energy available for waterfowl. Analyses using bioenergetics models indicated that, overall, extreme drought increased food energy deficits (total number of deficit days) for shorebirds and waterfowl. Our analysis indicated a strong direct relationship between duck locations and classified habitat derived from open-water data during the wintering period (October–March). This result helps confirm the application of dynamic water data to identify flooded areas that provide waterfowl habitat. Presence of open water at a 1-hectare resolution can be used effectively to identify flooded landscape areas available as habitat for ducks. Our discoveries from evaluating use of space by ducks also indicated that nighttime feeding locations of ducks were concentrated nearby primary roosts and that foraging distances could depend on hydrologic dynamics of location (Suisun Marsh versus California excluding Suisun Marsh) and time of season (early, middle, late). Other results indicated that some areas on the California landscape with extremely reliable water supplies could receive consistent use by ducks year after year (in essence, almost drought proof). The Water Tracker is set up to automatically track wetland habitat and food availability each year and is making these data available to water and wetland managers. Results from this research are a significant step toward understanding how waterfowl and shorebird habitats can be optimally managed on the landscape to support desired populations of these migratory birds during extreme drought.

California↗
USGS2001

Fall migration routes, timing, and wintering sites of North American ospreys as determined by satellite telemetry

Satellite telemetry was used to determine fall migratory movements of Ospreys (Pandion haliaetus) breeding in the United States. Study areas were established along the lower Columbia River between Oregon and Washington; in north-central Minnesota; on Shelter Island, New York; and in southern New Jersey. Seventy-four adults (25 males, 49 females) were tracked from 1995 through 1999. Migration routes differed among populations but not by sex. Western Ospreys migrated through California and to a lesser degree other western states and wintered in Mexico (88%), El Salvador (6%), and Honduras (6%) (25.9A?N to 13.0A?N and 108.3A?W to 87.3A?W). Minnesota Ospreys migrated along three routes: (1) through the Central U.S. and then along the east coast of Mexico, (2) along the Mississippi River Valley, then across the Gulf of Mexico, or (3) through the southeastern U.S., then across the Caribbean. East Coast birds migrated along the eastern seaboard of the U.S., through Florida, and across the Caribbean. Midwestern birds wintered from Mexico south to Bolivia (22.35A?N to 13.64A?S, and 91.75A?W to 61.76A?W), while East Coast birds wintered from Florida to as far south as Brazil (27.48A?N to 18.5A?S and 80.4A?W to 57.29A?W). Dates of departure from breeding areas differed significantly between sexes and geographic regions, with females leaving earlier than males. Western birds traveled a shorter distance than either midwestern or eastern Ospreys. Females traveled farther than males from the same population, which resulted in females typically wintering south of males.

The Condor↗
USGS2015

California State Waters Map Series — Offshore of San Francisco, California

In 2007, the California Ocean Protection Council initiated the California Seafloor Mapping Program (CSMP), designed to create a comprehensive seafloor map of high-resolution bathymetry, marine benthic habitats, and geology within California’s State Waters. The CSMP approach is to create highly detailed seafloor maps through collection, integration, interpretation, and visualization of swath sonar data, acoustic backscatter, seafloor video, seafloor photography, high-resolution seismic-reflection profiles, and bottom-sediment sampling data. The map products display seafloor morphology and character, identify potential marine benthic habitats, and illustrate both the surficial seafloor geology and shallow (to about 100 m) subsurface geology. The Offshore of San Francisco map area is centered on the City of San Francisco and the Golden Gate channel, a waterway that connects the Pacific Ocean to the San Francisco Bay between the Marin Headlands and San Francisco Peninsula. The San Francisco Bay Area is the second-largest urban area on the U.S. West Coast with a combined population of over seven million. The bay supports several major cargo ports and the Port of San Francisco’s Fisherman’s Wharf is a major center for Northern California’s commercial and sport fishing fleets. The coastal part of the map area predominantly consists of high bluffs and vertical sea cliffs shaped by uplift and erosion of the Marin Headlands and San Francisco Peninsula east of the San Andreas and San Gregorio Fault Zones. The seafloor in the map area extends from the shoreline and western end of the Golden Gate channel to water depths of about 30 to 50 m, except for the San Andreas graben area, where water depths reach 75 m. Sea-level rise, tidal currents, and tectonics have shaped bathymetry in the map area. During the Last Glacial Maximum, Sea level was about 125 m lower than present day and the shoreline was more than 45 km west of San Francisco near the Farallon Islands. At that time, the map area was part of a large alluvial plain connected to a drainage basin that included much of California’s Central Valley. A river system flowed westward through the narrows of the Golden Gate channel and an alluvial valley bounded to the north and south by bedrock highlands, including the present-day Pacifica-Pescadero and Bolinas shelves. Rising seas entered the Golden Gate about 11,000 to 10,000 years ago and subsequent marine flooding led to progressive growth of the San Francisco Bay. Strong tidal currents, accelerating through the relatively narrow Golden Gate, have scoured the bedrock channel to a depth of 113 m. East and west of the channel, tidal currents decelerate and form large fields of sand waves. Offshore of the Marin Headlands, eastward transfer of right-lateral fault slip in a complex of faults northwest of the map area has caused extension and the formation of a sediment basin called the San Andreas graben on the continental shelf. The accommodation space created by extension on the shelf and the proximity to sediment transported to the ocean through San Francisco Bay results in a sand-dominated offshore shelf environment. Seafloor habitats in the Offshore of San Francisco map area comprise significant sand-dominated sediment habitat with sand wave and ripple bedforms indicative of high wave and current energy. North of the Golden Gate, biological productivity resulting from coastal upwelling supports populations of Sooty Shearwater, Western Gull, Common Murre, Cassin’s Auklet, and many other less populous bird species. In addition, an observable recovery of Humpback and Blue Whales has occurred in the area; both species are dependent on coastal upwelling to provide nutrients. For the first time in 65 years, Pacific Harbor Porpoise returned to San Francisco Bay in 2009. On the coast north of the Golden Gate, the large extent of exposed inner shelf bedrock supports large forests of “bull kelp,” which is well adapted for high wave-energy environments. Common fish species found in the kelp beds and rocky reefs include painted greenling, kelp greenling, lingcod, and several varieties of rockfish. Circulation over the continental shelf in the Offshore of San Francisco map area is dominated by the southward-flowing California Current, an eastern limb of the North Pacific Gyre that flows from Oregon to Baja California. At its midpoint offshore of central California, the California Current transports subarctic surface waters southeastward, about 150 to 1,300 km from shore. Seasonal northwesterly winds that are, in part, responsible for the California Current, generate coastal upwelling. Ocean temperatures offshore of central California have increased over the past 50 years, driving an ecosystem shift from the productive subarctic regime towards a depopulated subtropical environment.

California↗
USGS2025

Predation of Lost River and Shortnose suckers by piscivorous colonial waterbirds in the Upper Klamath Basin: An analysis of predation effects during 2021–2023

Previously published research indicated that predation by piscivorous colonial waterbirds in the Upper Klamath Basin was a source of mortality for Lost River suckers ( Deltistes luxatus ) and Shortnose suckers ( Chasmistes brevirostris ), including mortality of Sucker Assisted Rearing Program (SARP) fish. Avian predation on recently released Chinook Salmon ( Oncorhynchus tshawytscha ) in the Upper Klamath Basin has not been studied. To provide fisheries managers with the most up-to-date information, we estimated predation rates on passive integrated transponder tagged (PIT) suckers and Chinook Salmon by breeding colonies of American White Pelicans ( Pelecanus erythrorhynchos ), Double-crested Cormorants ( Nannopterum auritum ), Caspian Terns ( Hydroprogne caspia ), California Gulls ( Larus californicus ), Ring-billed Gulls ( L. delawarensis ), Great Blue Herons ( Ardea herodias ), and Great Egrets ( A. alba ) during 2021–2023. Predation rate estimates were variable depending on the fish species, age-class (juvenile, adult), waterbody (Upper Klamath Lake, Clear Lake Reservoir, Sheepy Lake), and year. Results indicated that avian predation rates were highest on juvenile suckers and on suckers in Clear Lake Reservoir. SARP fish released in the spring/summer were more likely to be consumed by breeding birds than those released in the fall/winter, although the number of fish released in the fall/winter that survived to the spring/summer was unknown and could bias predation estimates low. Predation rate estimates on Chinook Salmon varied by year, release timing (spring/summer, fall/winter), release location (Upper Klamath Lake, Klamath River), and age-class (subyearling, yearling). The location and size of colonies were also highly variable depending on the bird species, colony location, and year. Future research could focus on identifying biotic and abiotic factors associated with sucker susceptibility to piscivorous colonial waterbirds and determining to what degree avian predation limits the recovery of suckers in the Upper Klamath Basin.

California, Oregon↗
USGS2016

Differentiating sex and species of Western Grebes ( Aechmophorus occidentalis ) and Clark's Grebes ( Aechmophorus clarkii ) and their eggs using external morphometrics and discriminant function analysis

In birds where males and females are similar in size and plumage, sex determination by alternative means is necessary. Discriminant function analysis based on external morphometrics was used to distinguish males from females in two closely related species: Western Grebe ( Aechmophorus occidentalis ) and Clark's Grebe ( A. clarkii ). Additionally, discriminant function analysis was used to evaluate morphometric divergence between Western and Clark's grebe adults and eggs. Aechmophorus grebe adults ( n = 576) and eggs ( n = 130) were sampled across 29 lakes and reservoirs throughout California, USA, and adult sex was determined using molecular analysis. Both Western and Clark's grebes exhibited considerable sexual size dimorphism. Males averaged 6–26% larger than females among seven morphological measurements, with the greatest sexual size dimorphism occurring for bill morphometrics. Discriminant functions based on bill length, bill depth, and short tarsus length correctly assigned sex to 98% of Western Grebes, and a function based on bill length and bill depth correctly assigned sex to 99% of Clark's Grebes. Further, a simplified discriminant function based only on bill depth correctly assigned sex to 96% of Western Grebes and 98% of Clark's Grebes. In contrast, external morphometrics were not suitable for differentiating between Western and Clark's grebe adults or their eggs, with correct classification rates of discriminant functions of only 60%, 63%, and 61% for adult males, adult females, and eggs, respectively. Our results indicate little divergence in external morphology between species of Aechmophorus grebes, and instead separation is much greater between males and females.

Waterbirds↗
USGS2009

Avian influenza at both ends of a migratory flyway: characterizing viral genomic diversity to optimize surveillance plans for North America

Although continental populations of avian influenza viruses are genetically distinct, transcontinental reassortment in low pathogenic avian influenza (LPAI) viruses has been detected in migratory birds. Thus, genomic analyses of LPAI viruses could serve as an approach to prioritize species and regions targeted by North American surveillance activities for foreign origin highly pathogenic avian influenza (HPAI). To assess the applicability of this approach, we conducted a phylogenetic and population genetic analysis of 68 viral genomes isolated from the northern pintail (Anas acuta) at opposite ends of the Pacific migratory flyway in North America. We found limited evidence for Asian LPAI lineages on wintering areas used by northern pintails in California in contrast to a higher frequency on breeding locales of Alaska. Our results indicate that the number of Asian LPAI lineages observed in Alaskan northern pintails, and the nucleotide composition of LPAI lineages, is not maintained through fall migration. Accordingly, our data indicate that surveillance of Pacific Flyway northern pintails to detect foreign avian influenza viruses would be most effective in Alaska. North American surveillance plans could be optimized through an analysis of LPAI genomics from species that demonstrate evolutionary linkages with European or Asian lineages and in regions that have overlapping migratory flyways with areas of HPAI outbreaks.

Alaska, California↗
USGS2015

Science foundation Chapter 5 Appendix 5.1: Case study marsh macroinvertebrates

This case study includes representative macroinvertebrates that live in the marsh plain, its associated channels and pannes (ponds), and the marsh-upland transition zone. While less visible than animals such as birds, invertebrates play important roles in physical and biological processes (e.g., burrowing activity and channel bank erosion, and detritivores breaking down organic matter) and are important food resources for higher trophic animals. Common invertebrates in these habitats include plant-hopper ( Prokelisia marginata ), beach hopper ( Traskorchestia traskiana ), pygmy blue butterfly ( Brephidium exilis ), inchworm moth ( Perizoma custodiata ), western tanarthus beetle ( Tanarthus occidentalis ), salt marsh mosquitoes ( Aedes spp.; Maffei 2000a, Maffei 2000b, Maffei 2000c), crabs (native Hemigrapsus oregonensis and introduced Carcinus maenas ), copepods, snails (e.g. native California horn snail Cerithidea californica and introduced Ilyanassa obsoleta , Myosotella myosotis ), polychaetes (e.g. Capitella spp., Eteone californica , Neanthes brandti ), small clams ( Macoma petalum / M. balthica ), and corophiid amphipods (Cohen 2011, Race 1982, Robinson et al. 2011). Some common species were described in detail in the San Francisco Bay Goals Project Species and Community Profiles (Goals Project 2000).

California↗
USGS2023

Integrated science strategy for assessing and monitoring water availability and migratory birds for terminal lakes across the Great Basin, United States

Executive Summary In 2022, the U.S. Geological Survey (USGS) established the Saline Lake Ecosystems Integrated Water Availability Assessment (IWAAs) to monitor and assess the hydrology of terminal lakes in the Great Basin and the migratory birds and other wildlife dependent on those habitats. Scientists from across the USGS (with specialties in water quantity, water quality, limnology, avian biology, data science, landscape ecology, and science communication) formed the Saline Lake Ecosystems IWAAs Team. The team has developed this regional strategic science plan to guide data collection and assessment activities at terminal lakes in the Great Basin. The U.S. Congress requested the USGS to establish the Saline Lake Ecosystems IWAAs in response to historically low water levels at terminal lakes and associated wetlands across the Great Basin. Not all Great Basin terminal lakes have high salinity; however, all terminal lakes occur in endorheic, closed, basins with no surface-water outflow. Low lake levels across the Great Basin are the result of increased water use for agriculture and municipalities, drought conditions, and a warming climate. Great Basin terminal lake water extents have decreased by as much as 90 percent over the last 150 years, and terminal lake wetlands have decreased in area by as much as 47 percent since 1984. Lake elevations and wetland areas are primarily supported by freshwater inputs from snowmelt feeding upgradient rivers, streams, and springs. These freshwater inputs have been severely reduced because of continued and increased surface-water diversions and surface-water capture through groundwater pumping for agriculture, mining, and public supply as well as unprecedented drought conditions and warming temperatures related to climate change. Water quality, specifically salinity, is highly variable for terminal lakes of the Great Basin, and this variability is a result of the balance between freshwater inflow and evaporation. Variability of salinity at each of the terminal lakes can be affected by lake morphology, hydrogeologic features of the basin, annual variability in weather patterns, and changes in upgradient water use. Hypersaline terminal lakes provide abundant food resources such as brine shrimp and brine flies that support nesting and migrating birds. The density and composition of invertebrates are closely tied to lake salinity. Increased salinity can exceed the tolerance of invertebrates, severely limiting their biomass. In contrast, decreased salinity can lead to altered invertebrate community composition, reducing the abundance of optimal avian prey resources. Great Basin terminal lake ecosystems, including open-water and adjacent aquatic and terrestrial environments, provide resources necessary to sustain many animal populations throughout the year. Although a variety of taxa use terminal lakes, these ecosystems are of acute importance for the millions of migratory waterbirds (for example, shorebirds, wading birds, and waterfowl) dependent on the network of terminal lakes and their associated wetlands. Migratory birds transiting the Pacific and Central Flyways use Great Basin terminal lake ecosystems throughout the year to feed, nest, and transit between wintering and breeding ranges. As such, successful conservation of birds and their habitats requires coordinated management of water and habitats across the Great Basin network of terminal lakes and wetlands. The linkages between water availability and ecosystem vulnerability of terminal lakes in the Great Basin are not well understood. The vulnerability of terminal lakes is related to the factors driving change and adaptive capacity of the lake ecosystem. Saline lake ecosystems are vulnerable when changes in water quantity affect ecosystem function. Water quantity affects salinity, which affects food webs and habitat; these linkages can be investigated with water-quality and food web monitoring. Water quantity also affects inundated habitat, which can be quantified through remote sensing. It is necessary to quantify hydroclimatic and water use controls on water availability to terminal lakes to assess the response of the ecosystems. Remotely sensed data can provide a broad-scale and long-term synoptic view of terminal lake hydrologic characteristics, but ground observations are required to interpret changes in water quality and ecological functions. Some terminal lake basins have ongoing monitoring and modeling efforts within the Great Basin (for example, Great Salt Lake, Carson River Basin), yet most monitoring locations are hydrologically upgradient and too far away from lake inflows to provide an accurate assessment of hydrological trends for the lake ecosystems. Other terminal lakes have no long-term hydrological monitoring in their respective watersheds (for example, Lake Abert). Ecological data collection in the Great Basin is also insufficient to understand how many birds exist on the landscape, how birds use the mosaic of terminal-lake habitats as an interconnected system, and how Great Basin terminal lakes are linked to the larger continental system of the Pacific and Central Flyways. Across agencies and organizations, tracking bird movement, abundance, and diversity is inconsistent, with some lakes having once- or twice-a-year bird survey efforts and a few locations having more intensive ecological data-gathering efforts (for example, Great Salt Lake, Lake Abert). Bridging hydrological and ecological information gaps will improve understanding of the trends in water supply and water quality, habitat availability and usage, and impacts on vulnerable waterbird species, all of which would be used by managers in coordinated conservation of this unique network of terminal-lake habitats. The terminal lakes of the Great Basin are part of the Basin and Range physiographic province that extends from the Colorado Plateau on the east to the Sierra Nevada on the west, and from the Snake River Plain on the north to the Garlock fault and the Mojave block on the south. The Great Basin is larger than 650,000 square kilometers and encompasses most of the State of Nevada but also extends to western Utah, eastern California, southeastern Idaho, southwestern Wyoming, and southeastern Oregon. The climate is arid to semiarid with a hydrologic regime that is snowmelt dominated, providing as much as 75 percent of total annual runoff for the region. Terminal lakes of the Great Basin occupy the lowest areas of closed (endorheic) drainage basins, such that lake levels and water quality respond rapidly to surface-water inflow. Terminal lakes provide local and regional economic value to the States in the Great Basin, including mineral extraction, aquaculture, public works, and recreational uses. As an example, assessments of Great Salt Lake’s ecological health and economic impact find hemispheric importance for the former and regional importance for the latter. Great Salt Lake creates about 7,000 jobs and $2 billion of economic output per year, most of which would be lost with further declines in lake level. The objectives of this Science Strategy are threefold: (1) to identify how changing water availability affects the quality, diversity, and abundance of habitats supporting continental waterbird populations; (2) to highlight the scientific monitoring and assessment needs of Great Basin terminal lakes; and (3) to support coordinated management and conservation actions to benefit those ecosystems, migratory birds, and other wildlife. There are long-term hydrological, ecological, and societal challenges associated with terminal lakes ecosystems in the Great Basin. This Science Strategy benefits partners by providing a conceptual model, nested at different spatial extents, that identifies key scientific information needs to inform coordinated implementation of management and conservation plans within and among hydrologic basins to address these complex challenges.

California, Idaho, Nevada, Oregon, Utah, Wyoming↗
USGS2023

Nest attendance, incubation constancy, and onset of incubation in dabbling ducks

In birds, parents must provide their eggs with a safe thermal environment suitable for embryonic development. Species with uniparental incubation must balance time spent incubating eggs with time spent away from the nest to satisfy self-maintenance needs. Patterns of nest attendance, therefore, influence embryonic development and the time it takes for eggs to hatch. We studied nest attendance (time on the nest), incubation constancy (time nests were at incubation temperatures), and variation in nest temperature of 1,414 dabbling duck nests of three species in northern California. Daily nest attendance increased from only 1–3% on the day the first egg was laid to 51–57% on the day of clutch completion, and 80–83% after clutch completion through hatch. Variation in nest temperature also decreased gradually during egg-laying, and then dropped sharply (33–38%) between the day of and the day after clutch completion because increased nest attendance, particularly at night, resulted in more consistent nest temperatures. During the egg-laying stage, nocturnal nest attendance was low (13–25%), whereas after clutch completion, nest attendance was greater at night (≥87%) than during the day (70–77%) because most incubation recesses occurred during the day. Moreover, during egg-laying, nest attendance and incubation constancy increased more slowly among nests with larger final clutch sizes, suggesting that the number of eggs remaining to be laid is a major driver of incubation effort during egg-laying. Although overall nest attendance after clutch completion was similar among species, the average length of individual incubation bouts was greatest among gadwall ( Mareca strepera ; 779 minutes), followed by mallard ( Anas platyrhynchos ; 636 minutes) and then cinnamon teal ( Spatula cyanoptera ; 347 minutes). These results demonstrate that dabbling ducks moderate their incubation behavior according to nest stage, nest age, time of day, and clutch size and this moderation likely has important implications for egg development and overall nest success.

California↗
USGS2017

Mass mortality attributed to acanthocephaliasis at a Gull-billed Tern (Gelochelidon nilotica) colony in coastal California

From 12 May 2013 to 29 May 2013, the Gull-billed Tern ( Gelochelidon nilotica ) colony at the San Diego Bay National Wildlife Refuge, California, experienced a mass die-off of at least 92 adults, representing 71–92% of the breeding population on the US west coast. Cause of death was determined to be peritonitis due to perforations of the intestine by a large quantity of acanthocephala ( Profilicolis [= Polymorphus ] altmani ). This is a unique report of P. altmani infecting G. nilotica , and a report of a great impact to a tern population in southern California. Mole crabs ( Emerita analoga ), the intermediate host for P. altmani and a major component of the Gull-billed Tern diet in San Diego, were found in the stomachs of necropsied terns along with cystacanths, and are the presumed source of the parasite infection. The tern's dietary reliance upon mole crabs likely amplified parasite transmission and infection. We suggest additional research to determine factors that influence parasite infection of intermediate and definitive hosts, particularly mole crabs, given that they are a vital resource for migrating birds within the coastal zone.

California↗
USGS2024

Eggshell membrane thickness and its contribution to total eggshell thickness for 13 waterbird species

Eggshell thickness can be an indicator of environmental pollution in wild birds and shell quality in wild and domestic birds, but it is difficult to measure calcite eggshell thickness due to the presence of the adherent outer eggshell membrane. Eggshells of 13 waterbird species were divided in half longitudinally and the outer membrane was removed from one of the halves. Subsequently, we measured eggshell thickness, both with and without the outer eggshell membrane, using a Hall-effect thickness gauge to the nearest 0.001 mm along the equator of each eggshell half. Outer eggshell membrane thicknesses ranged from 0.014 to 0.073 mm. Caspian Tern ( Hydroprogne caspia ) and California Gull ( Larus californicus ) had the thickest eggshell membranes (0.056 and 0.073 mm, respectively), and Green Heron ( Butorides virescens ) and Killdeer ( Charadrius vociferus ) had the thinnest membranes (0.014 and 0.022 mm, respectively). The eggshell membrane, as a percent of the total eggshell and membrane thickness, varied among the 13 species and ranged among species from 7.9% to 20.6%. The outer membrane comprised a greater percent of the total eggshell and membrane thickness for Black Skimmer (19.3%; Rynchops niger ), California Gull (20.5%), and Forster's Tern (20.6%; Sterna forsteri ) than for Green Heron (7.9%), Double-crested Cormorant (10.4%; Phalacrocorax auritus ), and Western Grebe (10.6%; Aechmophorus occidentalis ). Within species, the outer membrane thickness was not correlated with egg morphometrics but, for a subset of species, there was some indication that the calcite eggshell thickness decreases with embryo development (age). We discuss several reasons for conducting future eggshell thickness measurements without removing the membrane.

The Wilson Journal of Ornithology↗
USGS2015

California State Waters map series — Offshore of Scott Creek, California

Introduction In 2007, the California Ocean Protection Council initiated the California Seafloor Mapping Program (CSMP), designed to create a comprehensive seafloor map of high-resolution bathymetry, marine benthic habitats, and geology within the 3-nautical-mile limit of California’s State Waters. The CSMP approach is to create highly detailed seafloor maps through collection, integration, interpretation, and visualization of swath sonar data, acoustic backscatter, seafloor video, seafloor photography, high-resolution seismic-reflection profiles, and bottom-sediment sampling data. The map products display seafloor morphology and character, identify potential marine benthic habitats, and illustrate both the surficial seafloor geology and shallow subsurface geology. The Offshore of Scott Creek map area is located in central California, on the Pacific Coast about 65 km south of San Francisco and 12 km northwest of Santa Cruz. The onshore part of the map area is sparsely populated; the only cultural center is Davenport, a small community with a population of less than 500. The hilly coastal area is virtually undeveloped, and a large percentage of coastal land is incorporated in open-space trusts. Agricultural land is almost entirely limited to coastal areas between the shoreline and the northwest-trending Santa Cruz Mountains, on Pleistocene alluvial fan deposits and the lowest emergent marine terrace. The Santa Cruz Mountains are part of the northwest-trending Coast Ranges that run roughly parallel to the San Andreas Fault Zone. The map area is cut by the San Gregorio Fault Zone, and it lies a few kilometers southwest of the San Andreas Fault Zone. Regional folding and uplift along the coast has been attributed to a westward bend in the San Andreas Fault Zone and also to right-lateral movement along the San Gregorio Fault Zone. The irregular coastal geomorphology of this area, which consists of low, rocky cliffs and sparse, small pocket beaches backed by low, terraced hills, is partly attributable to this ongoing deformation. The shelf in the map area is underlain by variable amounts (0 to 25 m) of upper Quaternary shelf, nearshore, and fluvial sediments deposited as sea level fluctuated in the late Pleistocene. The northernmost part of the map area is characterized by the presence of uplifted bedrock that has been linked to a local transpressional zone in the San Gregorio Fault Zone. This uplift, coupled with high wave energy, has resulted in little or no sediment cover in this area where exposures of bedrock are present at water depths of as much as 45 m. The thickest deposits of sediment lie offshore of both Davenport and the mouth of Waddell Creek. Coastal sediment transport in the map area is characterized by north-to-south littoral transport of sediment that is derived mainly from streams in the Santa Cruz Mountains and also from local coastal erosion. Shoreline-change studies indicate long-term erosion; within the region between San Francisco and Davenport, the highest long- and short-term coastal-erosion rates occur north of the map area, just north of Point Año Nuevo. During the last approximately 300 years, as much as 18 million cubic yards (14 million cubic meters) of sand-sized sediment has been eroded from the area between Año Nuevo Island and Point Año Nuevo and transported south. Once widened by this pulse of eroded sediment, beaches in the map area are now narrowing as the tail end of this mass of sand progresses farther south. The Offshore of Scott Creek map area lies within the cold-temperate biogeographic zone that is called either the “Oregonian province” or the “northern California ecoregion.” This biogeographic province is maintained by the long-term stability of the southward-flowing California Current, the eastern limb of the North Pacific subtropical gyre that flows from southern British Columbia to Baja California. At its midpoint off central California, the California Current transports subarctic surface (0–500 m deep) waters southward, about 150 to 1,300 km from shore. Seasonal northwesterly winds that are, in part, responsible for the California Current, generate coastal upwelling. The south end of the Oregonian province is at Point Conception (about 320 km south of the map area), although its associated phylogeographic group of marine fauna may extend beyond to the area offshore of Los Angeles in southern California. The ocean off of central California has experienced a warming over the last 50 years that is driving an ecosystem shift away from the productive subarctic regime towards a depopulated subtropical environment. Seafloor habitats in the Offshore of Scott Creek map area, which lie within the Shelf (continental shelf) megahabitat, range from significant rocky outcrops that support kelp-forest communities nearshore to rocky-reef communities in deeper water. Biological productivity resulting from coastal upwelling supports populations of Sooty Shearwater, Western Gull, Common Murre, Cassin’s Auklet, and many other less populous bird species. In addition, an observable recovery of Humpback and Blue Whales has occurred in the area; both species are dependent on coastal upwelling to provide nutrients. The large extent of exposed inner shelf bedrock supports large forests of “bull kelp,” which is well adapted for high-wave-energy environments. The kelp beds are the northernmost known habitat for the population of southern sea otters. Common fish species found in the kelp beds and rocky reefs include lingcod and various species of rockfish and greenling.

California↗
USGS1990

Selenium in wetlands and waterfowl foods at Kesterson Reservoir, California, 1984

Kesterson Reservoir (Kesterson) received subsurface agricultural drainwater containing high levels of salts and selenium from farmland in the San Joaquin Valley of California. The accumulation of selenium in wetlands and waterfowl foods at Kesterson was investigated during May, August, and December of 1984. High concentrations of selenium were found in water, sediments, terrestrial and aquatic vegetation, and aquatic insects. Mean selenium concentrations in aquatic plants and insects ranged from 1.5 to 170 (μg/g dry weight and were about 11 to 290 times those found at a nearby reference site. Concentrations in some waterfowl food plants and insects at Kesterson were up to 64 times those reported to be a health hazard to birds. Selenium concentrations were more seasonally variable in aquatic plants than in aquatic insects. Few differences in selenium accumulation were found among ponds. Deposition of selenium in plant parts was not uniform; rhizomes contained higher concentrations than seeds and leaves were intermediate. Most biota bioaccumulated maximum selenium concentrations that were 1,000 to nearly 5,000 times the concentration in the water.

California↗