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At least 145 records · Page 8Linked to original sources
USGS2003

Host and geographic range extensions of the North American strain of viral hemorrhagic septicemia virus

Viral hemorrhagic septicemia virus (VHSV) was isolated from populations of Pacific sardine Sardinops sagax from the coastal waters of Vancouver Island, British Columbia, Canada, and central and southern California, USA. The virus was also isolated from Pacific mackerel Scomber japonicus in southern California, from eulachon or smelt Thaleichthys pacificus , and surf smelt Hypomesus pretiosus pretiosus from Oregon, USA. Mortality and skin lesions typical of viral hemorrhagic septicemia in other marine fish species were observed among sardine in Canada and in a few surf smelt from Oregon, but the remaining isolates of VHSV were obtained from healthy appearing fish. The prevalence of VHSV among groups of apparently healthy sardine, mackerel and smelt ranged from 4 to 8% in California and Oregon. A greater prevalence of infection (58%) occurred in groups of sardine sampled in Canada that sustained a naturally occurring epidemic during 1998-99. A captive group of surf smelt in Oregon exhibited an 81% prevalence of infection with clinical signs in only a few fish. The new isolates were confirmed as North American VHSV and were closely related based on comparisons of the partial nucleotide sequence of the glycoprotein (G) gene. The VHSV isolates from sardine in Canada and California were the most closely related, differing from isolates obtained from other marine fish species and salmonids in British Columbia, Canada, Alaska and Washington, USA. These new virus isolations extend both the known hosts (sardine, mackerel and 2 species of smelt) and geographic range (Oregon and California, USA) of VHSV.

Diseases of Aquatic Organisms↗
USGS2023

Midwinter dry spells amplify post-fire snowpack decline

Increasing wildfire and declining snowpacks in mountain regions threaten water availability. We combine satellite-based fire detections with snow seasonality classifications to examine fire activity in California’s seasonal and ephemeral snow zones. We find a nearly tenfold increase in fire activity during 2020-2021 versus 2001-2019. Accumulation season broadband snow albedo declined 25-71% in two burned sites (2021 and 2022) as measured by in-situ data relative to un-burned conditions, with greater declines associated with increased burn severity. By enhancing snowpack susceptibility to melt, decreased snow albedo and canopy drove midwinter melt during a multi-week dry spell in 2022. Despite similar meteorological conditions in 2013 and 2022, which we link to persistent high pressure weather regimes, minimal melt occurred in 2013. Post-fire differences are confirmed with satellite measurements. With growing geographical overlap between wildfire and snow, our findings suggest California’s snowpack is increasingly vulnerable to the compounding effects of dry spells and wildfire.

California↗
USGS2008

Application of Geographic Information System Methods to Identify Areas Yielding Water that will be Replaced by Water from the Colorado River in the Vidal and Chemehuevi Areas, California, and the Mohave Mesa Area, Arizona

Relations between the elevation of the static water level in wells and the elevation of the accounting surface within the Colorado River aquifer in the vicinity of Vidal, California, the Chemehuevi Indian Reservation, California, and on Mohave Mesa, Arizona, were used to determine which wells outside the flood plain of the Colorado River are presumed to yield water that will be replaced by water from the Colorado River. Wells that have a static water-level elevation equal to or below the elevation of the accounting surface are presumed to yield water that will be replaced by water from the Colorado River. Geographic Information System (GIS) interpolation tools were used to produce maps of areas where water levels are above, below, and near (within ? 0.84 foot) the accounting surface. Calculated water-level elevations and interpolated accounting-surface elevations were determined for 33 wells in the vicinity of Vidal, 16 wells in the Chemehuevi area, and 35 wells on Mohave Mesa. Water-level measurements generally were taken in the last 10 years with steel and electrical tapes accurate to within hundredths of a foot. A Differential Global Positioning System (DGPS) was used to determine land-surface elevations to within an operational accuracy of ? 0.43 foot, resulting in calculated water-level elevations having a 95-percent confidence interval of ? 0.84 foot. In the Vidal area, differences in elevation between the accounting surface and measured water levels range from -2.7 feet below to as much as 17.6 feet above the accounting surface. Relative differences between the elevation of the water level and the elevation of the accounting surface decrease from west to east and from north to south. In the Chemehuevi area, differences in elevation range from -3.7 feet below to as much as 8.7 feet above the accounting surface, which is established at 449.6 feet in the vicinity of Lake Havasu. In all of the Mohave Mesa area, the water-level elevation is near or below the elevation of the accounting surface. Differences in elevation between water levels and the accounting surface range from -0.2 to -11.3 feet, with most values exceeding -7.0 feet. In general, the ArcGIS Triangulated Irregular Network (TIN) Contour and Natural Neighbor tools reasonably represent areas where the elevation of water levels in wells is above, below, and near (within ? 0.84 foot) the elevation of the accounting surface in the Vidal and Chemehuevi study areas and accurately delineate areas around outlying wells and where anomalies exist. The TIN Contour tool provides a strict linear interpolation while the Natural Neighbor tool provides a smoothed interpolation. Using the default options in ArcGIS, the Inverse Distance Weighted (IDW) and Spline tools also reasonably represent areas above, below, and near the accounting surface in the Vidal and Chemehuevi areas. However, spatial extent of and boundaries between areas above, below, and near the accounting surface vary among the GIS methods, which results largely from the fundamentally different mathematical approaches used by these tools. The limited number and spatial distribution of wells in comparison to the size of the areas, and the locations and relative differences in elevation between water levels and the accounting surface of wells with anomalous water levels also influence the contouring by each of these methods. Qualitatively, the Natural Neighbor tool appears to provide the best representation of the difference between water-level and accounting-surface elevations in the study areas, on the basis of available well data.

Scientific Investigations Report↗
USGS2008

Novel patterns of historical isolation, dispersal, and secondary contact across Baja California in the Rosy Boa (Lichanura trivirgata)

Mitochondrial DNA (mtDNA) sequence variation was examined in 131 individuals of the Rosy Boa (Lichanura trivirgata) from across the species range in southwestern North America. Bayesian inference and nested clade phylogeographic analyses (NCPA) were used to estimate relationships and infer evolutionary processes. These patterns were evaluated as they relate to previously hypothesized vicariant events and new insights are provided into the biogeographic and evolutionary processes important in Baja California and surrounding North American deserts. Three major lineages (Lineages A, B, and C) are revealed with very little overlap. Lineage A and B are predominately separated along the Colorado River and are found primarily within California and Arizona (respectively), while Lineage C consists of disjunct groups distributed along the Baja California peninsula as well as south-central Arizona, southward along the coastal regions of Sonora, Mexico. Estimated divergence time points (using a Bayesian relaxed molecular clock) and geographic congruence with postulated vicariant events suggest early extensions of the Gulf of California and subsequent development of the Colorado River during the Late Miocene-Pliocene led to the formation of these mtDNA lineages. Our results also suggest that vicariance hypotheses alone do not fully explain patterns of genetic variation. Therefore, we highlight the importance of dispersal to explain these patterns and current distribution of populations. We also compare the mtDNA lineages with those based on morphological variation and evaluate their implications for taxonomy. ?? 2007 Elsevier Inc. All rights reserved.

Molecular Phylogenetics and Evolution↗
USGS1987

Trends in spawning populations of Pacific anadromous salmonids

Annual escapement records for 1968-1984 for five species of Pacific salmon-chinook ( Oncorhynchus tshawytscha ), coho ( O. kisutch ), sockeye (O. nerka ), pink ( O. gorbuscha ), and chum (O. keta )—and steelhead ( Salmo gairdneri ) were obtained from published and unpublished sources and organized in a computer database. More than 25,500 escapement records were obtained for more than 1,100 locations throughout Alaska, Washington, Idaho, Oregon, and California. Escapement trends for naturally reproducing populations for which data were available for at least 7 years from 1968 to 1984 and at least 4 years from 1975 to 1984 were analyzed by linear regression. Significant trends were observed in about 30% of the 886 populations examined. Trends were summarized by species for three geographic regions in Alaska and four in the Pacific Northwest (including California). For chinook, sockeye, and pink salmon, trends were predominantly increasing in the Alaska regions and either lacking or predominantly decreasing in most of the Pacific Northwest regions; for coho and chum salmon, trends were predominantly decreasing in one or more Alaska regions as well as in most of the Pacific Northwest regions. For steelhead, too few populations were examined to enable us to characterize trends throughout their range. Among the 657 salmonid populations excluded from the trend analysis because the data sets were incomplete, 13 (of which 2 were in Alaska) declined to zero during the period of analysis. For coho, sockeye, pink, and chum salmon and steelhead, major data gaps were revealed by a comparison of the geographic distribution of escapement records with the spawning distribution of the species. For chinook salmon, escapement records were more geographically representative of the spawning distribution.

Fish and Wildlife Technical Report↗
USGS2016

Nuclear and mitochondrial DNA analyses of golden eagles (Aquila chrysaetos canadensis) from three areas in western North America; initial results and conservation implications

Understanding the genetics of a population is a critical component of developing conservation strategies. We used archived tissue samples from golden eagles ( Aquila chrysaetos canadensis ) in three geographic regions of western North America to conduct a preliminary study of the genetics of the North American subspecies, and to provide data for United States Fish and Wildlife Service (USFWS) decision-making for golden eagle management. We used a combination of mitochondrial DNA (mtDNA) D-loop sequences and 16 nuclear DNA (nDNA) microsatellite loci to investigate the extent of gene flow among our sampling areas in Idaho, California and Alaska and to determine if we could distinguish birds from the different geographic regions based on their genetic profiles. Our results indicate high genetic diversity, low genetic structure and high connectivity. Nuclear DNA Fst values between Idaho and California were low but significantly different from zero (0.026). Bayesian clustering methods indicated a single population, and we were unable to distinguish summer breeding residents from different regions. Results of the mtDNA AMOVA showed that most of the haplotype variation (97%) was within the geographic populations while 3% variation was partitioned among them. One haplotype was common to all three areas. One region-specific haplotype was detected in California and one in Idaho, but additional sampling is required to determine if these haplotypes are unique to those geographic areas or a sampling artifact. We discuss potential sources of the high gene flow for this species including natal and breeding dispersal, floaters, and changes in migratory behavior as a result of environmental factors such as climate change and habitat alteration. Our preliminary findings can help inform the USFWS in development of golden eagle management strategies and provide a basis for additional research into the complex dynamics of the North American subspecies.

Alaska, California, Idaho, Oregon↗
USGS2002

Snow chemistry of the Cascade-Sierra Nevada Mountains

This investigation assesses geographic variations in atmospheric deposition in Washington, Oregon, and California using snow cores from the Cascade-Sierra Nevada Mountains, collected from late February to mid-March 1983. A statistical analysis of the analytical and sampling precision was made. The snowpack in the higher Cascades and Sierra Nevada is not strongly influenced by anthropogenic activities at present. The pH of snow samples ranges from 5.11 to 5.88. Sulfate and nitrate correlate with H+ in some segments of the sample traverse. The SO4 data show apparent influence from major source areas in Washington and California; nitrate does not. An apparent decrease in NH4 in snow in Washington and California suggests atmospheric interactions resulting in the removal of NH4. The NH4 reduction raises questions about nutrient supply to the mountain vegetation. Heavy-metal correlations included Cd, Cu, and Fe with Pb, and Mn with K and DOC, among others. No correlation was found between constituents and snow-water content.

California, Oregon, Washington↗
USGS2016

Golden Eagle fatalities and the continental-scale consequences of local wind-energy generation

Renewable energy production is expanding rapidly despite mostly unknown environmental effects on wildlife and habitats. We used genetic and stable isotope data collected from Golden Eagles (Aquila chrysaetos) killed at the Altamont Pass Wind Resource Area (APWRA) in California in demographic models to test hypotheses about the geographic extent and demographic consequences of fatalities caused by renewable energy facilities. Geospatial analyses of δ 2 H values obtained from feathers showed that ≥25% of these APWRA-killed eagles were recent immigrants to the population, most from long distances away (>100 km). Data from nuclear genes indicated this subset of immigrant eagles was genetically similar to birds identified as locals from the δ 2 H data. Demographic models implied that in the face of this mortality, the apparent stability of the local Golden Eagle population was maintained by continental-scale immigration. These analyses demonstrate that ecosystem management decisions concerning the effects of local-scale renewable energy can have continental-scale consequences.

Conservation Biology↗
USGS2014

Evolution of puma lentivirus in bobcats ( Lynx rufus ) and mountain lions ( Puma concolor ) in North America

Mountain lions ( Puma concolor ) throughout North and South America are infected with puma lentivirus clade B (PLVB). A second, highly divergent lentiviral clade, PLVA, infects mountain lions in southern California and Florida. Bobcats ( Lynx rufus ) in these two geographic regions are also infected with PLVA, and to date, this is the only strain of lentivirus identified in bobcats. We sequenced full-length PLV genomes in order to characterize the molecular evolution of PLV in bobcats and mountain lions. Low sequence homology (88% average pairwise identity) and frequent recombination (1 recombination breakpoint per 3 isolates analyzed) were observed in both clades. Viral proteins have markedly different patterns of evolution; sequence homology and negative selection were highest in Gag and Pol and lowest in Vif and Env. A total of 1.7% of sites across the PLV genome evolve under positive selection, indicating that host-imposed selection pressure is an important force shaping PLV evolution. PLVA strains are highly spatially structured, reflecting the population dynamics of their primary host, the bobcat. In contrast, the phylogeography of PLVB reflects the highly mobile mountain lion, with diverse PLVB isolates cocirculating in some areas and genetically related viruses being present in populations separated by thousands of kilometers. We conclude that PLVA and PLVB are two different viral species with distinct feline hosts and evolutionary histories.

North America↗
USGS1986

Data on snow chemistry of the Cascade-Sierra Nevada Mountains

Snow chemistry data were measured for solutes found in snow core samples collected from the Cascade-Sierra Nevada Mountains from late February to mid-March 1983. The data are part of a study to assess geographic variations in atmospheric deposition in Washington, Oregon, and California. The constituents and properties include pH and concentrations of hydrogen ion, calcium, magnesium, sodium, potassium, chloride, sulfate, nitrate, fluoride, phosphate, ammonium, iron, aluminum, manganese, copper, cadmium, lead, and dissolved organic carbon. Concentrations of arsenic and bromide were below the detection limit. (USGS)

Open-File Report↗
USGS2012

Methods for determining magnitude and frequency of floods in California, based on data through water year 2006

Methods for estimating the magnitude and frequency of floods in California that are not substantially affected by regulation or diversions have been updated. Annual peak-flow data through water year 2006 were analyzed for 771 streamflow-gaging stations (streamgages) in California having 10 or more years of data. Flood-frequency estimates were computed for the streamgages by using the expected moments algorithm to fit a Pearson Type III distribution to logarithms of annual peak flows for each streamgage. Low-outlier and historic information were incorporated into the flood-frequency analysis, and a generalized Grubbs-Beck test was used to detect multiple potentially influential low outliers. Special methods for fitting the distribution were developed for streamgages in the desert region in southeastern California. Additionally, basin characteristics for the streamgages were computed by using a geographical information system. Regional regression analysis, using generalized least squares regression, was used to develop a set of equations for estimating flows with 50-, 20-, 10-, 4-, 2-, 1-, 0.5-, and 0.2-percent annual exceedance probabilities for ungaged basins in California that are outside of the southeastern desert region. Flood-frequency estimates and basin characteristics for 630 streamgages were combined to form the final database used in the regional regression analysis. Five hydrologic regions were developed for the area of California outside of the desert region. The final regional regression equations are functions of drainage area and mean annual precipitation for four of the five regions. In one region, the Sierra Nevada region, the final equations are functions of drainage area, mean basin elevation, and mean annual precipitation. Average standard errors of prediction for the regression equations in all five regions range from 42.7 to 161.9 percent. For the desert region of California, an analysis of 33 streamgages was used to develop regional estimates of all three parameters (mean, standard deviation, and skew) of the log-Pearson Type III distribution. The regional estimates were then used to develop a set of equations for estimating flows with 50-, 20-, 10-, 4-, 2-, 1-, 0.5-, and 0.2-percent annual exceedance probabilities for ungaged basins. The final regional regression equations are functions of drainage area. Average standard errors of prediction for these regression equations range from 214.2 to 856.2 percent. Annual peak-flow data through water year 2006 were analyzed for eight streamgages in California having 10 or more years of data considered to be affected by urbanization. Flood-frequency estimates were computed for the urban streamgages by fitting a Pearson Type III distribution to logarithms of annual peak flows for each streamgage. Regression analysis could not be used to develop flood-frequency estimation equations for urban streams because of the limited number of sites. Flood-frequency estimates for the eight urban sites were graphically compared to flood-frequency estimates for 630 non-urban sites. The regression equations developed from this study will be incorporated into the U.S. Geological Survey (USGS) StreamStats program. The StreamStats program is a Web-based application that provides streamflow statistics and basin characteristics for USGS streamgages and ungaged sites of interest. StreamStats can also compute basin characteristics and provide estimates of streamflow statistics for ungaged sites when users select the location of a site along any stream in California.

California↗
USGS2017

Science advancements key to increasing management value of life stage monitoring networks for endangered Sacramento River winter-run Chinook salmon in California

A robust monitoring network that provides quantitative information about the status of imperiled species at key life stages and geographic locations over time is fundamental for sustainable management of fisheries resources. For anadromous species, management actions in one geographic domain can substantially affect abundance of subsequent life stages that span broad geographic regions. Quantitative metrics (e.g., abundance, movement, survival, life history diversity, and condition) at multiple life stages are needed to inform how management actions (e.g., hatcheries, harvest, hydrology, and habitat restoration) influence salmon population dynamics. The existing monitoring network for endangered Sacramento River winterrun Chinook Salmon (SRWRC, Oncorhynchus tshawytscha) in California’s Central Valley was compared to conceptual models developed for each life stage and geographic region of the life cycle to identify relevant SRWRC metrics. We concluded that the current monitoring network was insufficient to diagnose when (life stage) and where (geographic domain) chronic or episodic reductions in SRWRC cohorts occur, precluding within- and among-year comparisons. The strongest quantitative data exist in the Upper Sacramento River, where abundance estimates are generated for adult spawners and emigrating juveniles. However, once SRWRC leave the upper river, our knowledge of their identity, abundance, and condition diminishes, despite the juvenile monitoring enterprise. We identified six system-wide recommended actions to strengthen the value of data generated from the existing monitoring network to assess resource management actions: (1) incorporate genetic run identification; (2) develop juvenile abundance estimates; (3) collect data for life history diversity metrics at multiple life stages; (4) expand and enhance real-time fish survival and movement monitoring; (5) collect fish condition data; and (6) provide timely public access to monitoring data in open data formats. To illustrate how updated technologies can enhance the existing monitoring to provide quantitative data on SRWRC, we provide examples of how each recommendation can address specific management issues.

California↗