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USGS1998

Assemblages of fishes and their associations with environmental variables, lower San Joaquin River drainage, California

Twenty sites in the lower San Joaquin River drainage, California, were sampled from 1993 to 1995 to characterize fish assemblages and their associations with measures of water quality and habitat quality. In addition, four fish community metrics were assessed, including percentages of native fish, omnivorous fish, fish intolerant of environmental degradation, and fish with external anomalies. Of the 31 taxa of fish captured during the study, only 10 taxa were native to the drainage. Multivariate analyses of percentage data identified four site groups characterized by characterized by different groups of species. The distributions of fish species were related to specific conductance, gradient, and mean depth; however, specific conductance acted as a surrogate variable for a large group of correlated variables. Two of the fish community metrics--percentage of introduced fish and percentage of intolerant fish--appeared to be responsive to environmental quality but the responses of the other two metrics--percentage of omnivorous fish and percentage of fish with anomalies--were less direct. The conclusion of the study is that fish assemblages are responsive to environmental conditions, including conditions associated with human-caused disturbances, particularly agriculture and water development. The results suggest that changes in water management and water quality could result in changes in species distributions. Balancing the costs and benefits of such changes poses a considerable challenge to resource managers. different groups of species.

Open-File Report↗

USGS2011

Status and understanding of groundwater quality in the San Diego Drainages Hydrogeologic Province, 2004: California GAMA Priority Basin Project

Groundwater quality in the approximately 3,900-square-mile (mi 2 ) San Diego Drainages Hydrogeologic Province (hereinafter San Diego) study unit was investigated from May through July 2004 as part of the Priority Basin Project of the Groundwater Ambient Monitoring and Assessment (GAMA) Program. The study unit is located in southwestern California in the counties of San Diego, Riverside, and Orange. The GAMA Priority Basin Project is being conducted by the California State Water Resources Control Board in collaboration with the U.S. Geological Survey (USGS) and the Lawrence Livermore National Laboratory. The GAMA San Diego study was designed to provide a statistically robust assessment of untreated-groundwater quality within the primary aquifer systems. The assessment is based on water-quality and ancillary data collected by the USGS from 58 wells in 2004 and water-quality data from the California Department of Public Health (CDPH) database. The primary aquifer systems (hereinafter referred to as the primary aquifers) were defined by the depth interval of the wells listed in the California Department of Public Health (CDPH) database for the San Diego study unit. The San Diego study unit consisted of four study areas: Temecula Valley (140 mi 2 ), Warner Valley (34 mi 2 ), Alluvial Basins (166 mi 2 ), and Hard Rock (850 mi 2 ). The quality of groundwater in shallow or deep water-bearing zones may differ from that in the primary aquifers. For example, shallow groundwater may be more vulnerable to surficial contamination than groundwater in deep water-bearing zones. This study had two components: the status assessment and the understanding assessment. The first component of this study-the status assessment of the current quality of the groundwater resource-was assessed by using data from samples analyzed for volatile organic compounds (VOC), pesticides, and naturally occurring inorganic constituents, such as major ions and trace elements. The status assessment is intended to characterize the quality of groundwater resources within the primary aquifers of the San Diego study unit, not the treated drinking water delivered to consumers by water purveyors. The second component of this study-the understanding assessment-identified the natural and human factors that affect groundwater quality by evaluating land use, well construction, and geochemical conditions of the aquifer. Results from these evaluations were used to help explain the occurrence and distribution of selected constituents in the study unit. Relative-concentrations (sample concentration divided by benchmark concentration) were used as the primary metric for relating concentrations of constituents in groundwater samples to water-quality benchmarks for those constituents that have Federal and (or) California benchmarks. For organic and special-interest constituents, relative-concentrations were classified as high (> 1.0), moderate (> 0.1 and ≤1.0), and low (≤0.1). For inorganic constituents, relative concentrations were classified as high (> 1.0), moderate (> 0.5 and ≤1.0), and low (≤0.5). Grid-based and spatially weighted approaches were then used to evaluate the proportion of the primary aquifers (aquifer-scale proportions) with high, moderate, and low relative-concentrations for individual compounds and classes of constituents. One or more of the inorganic constituents with health-based benchmarks were high (relative to those benchmarks) in 17.6 percent of the primary aquifers in the Temecula Valley, Warner Valley, and Alluvial Basins study areas (hereinafter also collectively referred to as the Alluvial Fill study areas because they are composed of alluvial fill aquifers), and in 25.0 percent of the Hard Rock study area. Inorganic constituents with health-based benchmarks that were frequently detected at high relative-concentrations included vanadium (V), arsenic (As), and boron (B). Vanadium and As concentrations were not significantly correlated to either urban or agricultural land use indicating natural sources as the primary contributors of these constituents to groundwater. The positive correlation of B concentration to urban land-use was significant which indicates that anthropogenic activities are a contributing source of B to groundwater. The correlation of V, As and B concentrations to pH was positive, indicating that in alkaline groundwater these constituents are being desorbed from, or being inhibited from adsorbing to, particle surfaces. Inorganic constituents with aesthetic benchmarks that were detected at high relative-concentrations include manganese (Mn), iron (Fe), and total dissolved solids (TDS). In the Alluvial Fill study areas, Mn and TDS were detected at high relative-concentrations in 13.7 percent of the primary aquifers, and Fe in 6.9 percent. In the Hard Rock study area, Mn was detected at high relative-concentrations in 33.3 percent of the primary aquifers, and TDS in 16.7 percent; Fe was not detected at high relative-concentrations. Total dissolved solids concentrations were significantly correlated to agricultural land use suggesting that agricultural practices are a contributing source of TDS to groundwater. Manganese and Fe concentrations were highest in groundwater with low dissolved oxygen and pH indicating that the reductive dissolution of oxyhydroxides may be an important mechanism for the mobilization of Mn and Fe in groundwater. TDS concentrations were highest in shallow wells and in modern (< 50 yrs) groundwater which indicates anthropogenic activities as a source of TDS concentrations in groundwater. The relative-concentrations of organic constituents with health-based benchmarks were high in 3.0 percent of the primary aquifers in the Alluvial Fill study areas. A single detection in the Alluvial Basins study area of the discontinued gasoline oxygenate methyl tert-butyl ether (MTBE) was the only organic constituent detected at a high relative-concentration; high relative-concentrations of these constituents were not detected in the Hard Rock study area. Twelve of 88 VOCs and 14 of 123 pesticides and pesticide degradates analyzed in grid wells were detected. Chloroform was the only VOC detected in more than 10 percent of the grid wells. The herbicides simazine, atrazine, and prometon were each detected in greater than 10 percent of the grid wells. Perchlorate was detected in 22 percent of the grid wells sampled. The understanding assessment showed a significant correlation of trihalomethanes (THMs) and solvents to urban land-use, indicating that detections of these constituents are more likely to occur in groundwater underlying urbanized areas of the study unit. MTBE concentrations were negatively correlated to the distance from the nearest leaking underground fuel tank, indicating that point sources are the most significant contributing factor for MTBE concentrations to groundwater in the study unit. The positive correlation of THM and herbicide concentrations to modern groundwater was significant, as was the negative correlation of herbicide concentrations to pH and anoxic groundwater. The negative correlation of herbicides to pH and anoxic groundwater was likely due to the fact that these constituents were detected more frequently in shallow wells where groundwater conditions tend to be oxic with relatively low pH.

California↗

USGS2014

Documentation of a groundwater flow model (SJRRPGW) for the San Joaquin River Restoration Program study area, California

To better understand the potential effects of restoration flows on existing drainage problems, anticipated as a result of the San Joaquin River Restoration Program (SJRRP), the U.S. Geological Survey (USGS), in cooperation with the U.S. Bureau of Reclamation (Reclamation), developed a groundwater flow model (SJRRPGW) of the SJRRP study area that is within 5 miles of the San Joaquin River and adjacent bypass system from Friant Dam to the Merced River. The primary goal of the SJRRP is to reestablish the natural ecology of the river to a degree that restores salmon and other fish populations. Increased flows in the river, particularly during the spring salmon run, are a key component of the restoration effort. A potential consequence of these increased river flows is the exacerbation of existing irrigation drainage problems along a section of the river between Mendota and the confluence with the Merced River. Historically, this reach typically was underlain by a water table within 10 feet of the land surface, thus requiring careful irrigation management and (or) artificial drainage to maintain crop health. The SJRRPGW is designed to meet the short-term needs of the SJRRP; future versions of the model may incorporate potential enhancements, several of which are identified in this report. The SJRRPGW was constructed using the USGS groundwater flow model MODFLOW and was built on the framework of the USGS Central Valley Hydrologic Model (CVHM) within which the SJRRPGW model domain is embedded. The Farm Process (FMP2) was used to simulate the supply and demand components of irrigated agriculture. The Streamflow-Routing Package (SFR2) was used to simulate the streams and bypasses and their interaction with the aquifer system. The 1,300-square mile study area was subdivided into 0.25-mile by 0.25-mile cells. The sediment texture of the aquifer system, which was used to distribute hydraulic properties by model cell, was refined from that used in the CVHM to better represent the natural heterogeneity of aquifer-system materials within the model domain. In addition, the stream properties were updated from the CVHM to better simulate stream-aquifer interactions, and water-budget subregions were refined to better simulate agricultural water supply and demand. External boundary conditions were derived from the CVHM. The SJRRPGW was calibrated for April 1961 to September 2003 by using groundwater-level observations from 133 wells and streamflow observations from 19 streamgages. The model was calibrated using public-domain parameter estimation software (PEST) in a semi-automated manner. The simulated groundwater-level elevations and trends (including seasonal fluctuations) and surface-water flow magnitudes and trends reasonably matched observed data. The calibrated model is planned to be used to assess the potential effects of restoration flows on agricultural lands and the relative capabilities of proposed SJRRP actions to reduce these effects.

California↗

USGS2000

Water-quality assessment of the Sacramento River Basin, California — Water quality of fixed sites, 1996-1998

Water-quality samples were collected from 12 sites in the Sacramento River Basin, Cali-fornia, from February 1996 through April 1998. Field measurements (dissolved oxygen, pH, specific conductance, alkalinity, and water tem-perature) were completed on all samples, and laboratory analyses were done for suspended sediments, nutrients, dissolved and particulate organic carbon, major ions, trace elements, and mercury species. Samples were collected at four types of locations on the Sacramento River?large tributaries to the Sacramento River, agricul-tural drainage canals, an urban stream, and a flood control channel. The samples were collected across a range of flow conditions representative of those sites during the timeframe of the study. The water samples from the Sacramento River indi-cate that specific conductance increases slightly downstream but that the water quality is indicative of dilute water. Water temperature of the Sacramento River increases below Shasta Lake during the spring and summer irrigation season owing to diversion of water out of the river and subsequent lower flow. All 12 sites had generally low concentrations of nutrients, but chlorophyll concentrations were not measured; therefore, the actual consequences of nutrient loading could not be adequately assessed. Concentrations of dis-solved organic carbon in samples from the Sacramento River and the major tributaries were generally low; the formation of trihalomethanes probably does not currently pose a problem when water from the Sacramento River and its major tributaries is chlorinated for drinking-water purposes. However, dissolved organic carbon concentrations were higher in the urban stream and in agricultural drainage canals, but were diluted upon mixing with the Sacramento River. The only trace element that currently poses a water-quality problem in the Sacramento River is mercury. A federal criterion for the protection of aquatic life was exceeded during this study, and floodwater concentrations of mercury were mostly higher than the criterion. Exceedances of water-quality standards happened most frequently during winter when suspended-sediment concen-trations also were elevated. Most mercury is found in association with suspended sediment. The greatest loading or transport of mercury out of the Sacramento River Basin to the San Francisco Bay occurs in the winter and principally follows storm events.

California↗

USGS2011

Rapid assessment of rice seed availability for wildlife in harvested fields

Rice seed remaining in commercial fields after harvest (waste rice) is a critical food resource for wintering waterfowl in rice-growing regions of North America. Accurate and precise estimates of the seed mass density of waste rice are essential for planning waterfowl wintering habitat extents and management. In the Sacramento Valley of California, USA, the existing method for obtaining estimates of availability of waste rice in harvested fields produces relatively precise estimates, but the labor-, time-, and machineryintensive process is not practical for routine assessments needed to examine long-term trends in waste rice availability. We tested several experimental methods designed to rapidly derive estimates that would not be burdened with disadvantages of the existing method. We first conducted a simulation study of the efficiency of each method and then conducted field tests. For each approach, methods did not vary in root mean squared error, although some methods did exhibit bias for both simulations and field tests. Methods also varied substantially in the time to conduct each sample and in the number of samples required to detect a standard trend. Overall, modified line-intercept methods performed well for estimating the density of rice seeds. Waste rice in the straw, although not measured directly, can be accounted for by a positive relationship with density of rice on the ground. Rapid assessment of food availability is a useful tool to help waterfowl managers establish and implement wetland restoration and agricultural habitat-enhancement goals for wintering waterfowl. ?? 2011 The Wildlife Society.

Wildlife Society Bulletin↗

USGS2019

Gopherus agassizii (Cooper 1861) – Agassiz’s Desert Tortoise, Mojave Desert Tortoise

The Mojave Desert Tortoise, Gopherus agassizii (Family Testudinidae), is a large terrestrial species that can reach >370 mm in straight midline carapace length (CL) but most individuals are smaller. Both sexes reach adulthood at 12 to 21 years and ca. 180 mm CL. The species is sexually dimorphic, with males typically larger than females; sexual characteristics of males become more obvious with increasing size and age. Females lay from 1 to 10 eggs per clutch and from 0 to 3 clutches annually, with eggs hatching after 67 to 104 days. Populations of G. agassizii have declined rapidly over the last several decades. Habitat throughout the geographic range has experienced major losses, degradation, and fragmentation as a result of urban and agricultural development, livestock grazing, military activities, transportation and utility corridors, high levels of visitor use, vehicle-oriented recreation, and energy development. Disturbed habitats were vulnerable to invading non-native grasses and forbs, creating an unnatural and destructive grass-fire cycle. When consumed by tortoises as their only diet, non-native (and native) grasses are harmful because of limited nutrients. Additionally, subsidized predators (Common Ravens, Coyotes, and dogs), infectious diseases, drought, and vandalism, add to the catastrophic effects of habitat loss and degradation. Tortoise populations have declined rapidly in density, and most populations are below viability, with fewer than 3.9 adults/km2. These declines occurred despite protections afforded by federal and state laws and regulations, ca. 26,000 km2 of federally designated critical habitat units, two Recovery Plans, and efforts to reduce the negative impacts of human activities. As noted by Allison and McLuckie (2018), the negative population trends in most of the critical habitat units suggest that under current conditions G. agassizii is on the path to extinction. Distribution. – USA. Distributed in parts of the southern Great Basin, Mojave, and western Sonoran deserts in southeastern California, southern Nevada, northwestern Arizona, and southwestern Utah, north and west of the Grand Canyon/Colorado River complex, with the exception of a small population east of the Colorado River. Synonymy. – Xerobates agassizii Cooper 1861, Testudo agassizii, Gopherus agassizii, Gopherus polyphemus agassizii, Scaptochelys agassizii, Xerobates lepidocephalus Ottley and Velázques Solis 1989. Subspecies . – None currently recognized. Status. – IUCN 2019 Red List: Vulnerable (VU A1acde+2cde; assessed 1996) ; TFTSG Provisional Red List: Critically Endangered (CR; assessed 2011, 2018); CITES: Appendix II (Testudinidae spp.); US ESA: Threatened.

Arizona, California, Nevada, Utah↗

USGS2023

The Searsville Lake Site (California, USA) as a candidate Global boundary Stratotype Section and Point for the Anthropocene series

Cores from Searsville Lake within Stanford University’s Jasper Ridge Biological Preserve, California, USA, are examined to identify a potential GSSP for the Anthropocene: core JRBP2018-VC01B (944.5 cm-long) and tightly correlated JRBP2018-VC01A (852.5 cm-long). Spanning from 1900 CE ± 3 years to 2018 CE, a secure chronology resolved to the sub-annual level allows detailed exploration of the Holocene-Anthropocene transition. We identify the primary GSSP marker as first appearance of 239,240 Pu (372–374 cm) in JRBP2018-VC01B and designate the GSSP depth as the distinct boundary between wet and dry season at 366 cm (6 cm above the first sample containing 239,240 Pu) and corresponding to October-December 1948 CE. This is consistent with a lag of 1–2 years between ejection of 239,240 Pu into the atmosphere and deposition. Auxiliary markers include: first appearance of 137 Cs in 1958; late 20th-century decreases in δ 15 N; late 20th-century elevation in SCPs, Hg, Pb, and other heavy metals; and changes in abundance and presence of ostracod, algae, rotifer and protozoan microfossils. Fossil pollen document anthropogenic landscape changes related to logging and agriculture. As part of a major university, the Searsville site has long been used for research and education, serves users locally to internationally, and is protected yet accessible for future studies and communication about the Anthropocene.

California↗

USGS2009

Sediment yield from the tectonically active semiarid Western Transverse Ranges of California

Sediment yields from the world's rivers are generally highest from steep drainage basins with weak lithology, active tectonics, or severe land-use impacts. Here, we evaluate sediment yields from the Western Transverse Ranges of California in an attempt to explain why they are two- to tenfold greater than the surrounding areas of California. We found that suspended-sediment yields across the gauged basins of the Western Transverse Range during 1969-1999 varied by approximately an order of magnitude (740-5300 t/km 2 /yr). Similarly, fine-sediment concentrations for normalized discharge rates varied by almost two orders of magnitude (e.g., 1.3-110 g/L for the mean annual flood) for 11 previously unmonitored drainages of the Santa Ynez Mountains. Areas with high sediment yields consistently have weakly consolidated bedrock (Quaternary-Pliocene marine formations) and are associated with the highest rates of tectonic uplift of the region (>5 mm/yr). These regions are important to the sediment discharge budgets, because ???50% of the total suspended-sediment discharge from the Western Transverse Range is estimated to be generated within these regions, even though they represent only ???10% of the total watershed area. Previous estimates of suspended-sediment discharge from the Ventura River have likely been underestimated by ???50% because the gauging station is located immediately upstream of a high sediment yield region. We also found a significant and positive correlation between sediment yield and the percentage of a watershed with grassland and agricultural land use. These results suggest that there is adequate variation within the lithology, tectonics, and land use of the broader Western Transverse Range geologic province to induce large variations in sediment yield at the local scale. ?? 2009 Geological Society of America.

Geological Society of America Bulletin↗

USGS1989

Trace elements in bed sediments of the San Joaquin River and its tributary streams, California, 1985

Bed sediments were sampled at 24 sites on the San Joaquin River, California and its tributaries in October 1985 to assess the distribution of trace elements and factors affecting their concentrations. The proportion of less than 62-micrometer sediment was significantly (alpha=0.05) correlated with organic-carbon concentrations. Bed sediments from tributaries originating in the Sierra Nevada were much coarser than sediments in streams draining the Coast Range and western valley. Selenium concentrations in water have been measured. Interrelations among trace elements were examined using principal component analysis. 57% of the variance was accounted for in the first two principal components, which together show a distinct separation between sites dominated by Coast Range sediments and sites dominated by Sierra Nevada sediments. The third and fourth components accounted for 21% of the variance and distinguished the mixed-source sediments of the intermittent upper San Joaquin River from other parts of the river system. Generally, elements in bed sediments of the San Joaquin River and its tributaries were similar in concentration to elements in San Joaquin Valley soils, and concentrations were far below hazardous waste criteria. Concentrations were lower than in sediments from some polluted urban rivers and water more comparable to other rural agricultural rivers. (USGS)

Water-Resources Investigations Report↗

USGS2011

Winter habitat associations of diurnal raptors in Californias Central Valley

The wintering raptors of California's Central Valley are abundant and diverse. Despite this, little information exists on the habitats used by these birds in winter. We recorded diurnal raptors along 19 roadside survey routes throughout the Central Valley for three consecutive winters between 2007 and 2010. We obtained data sufficient to determine significant positive and negative habitat associations for the White-tailed Kite (Elanus leucurus), Bald Eagle {Haliaeetus leucocephalus), Northern Harrier (Circus cyaneus), Red-tailed Hawk (Buteo jamaicensis), Ferruginous Hawk (Buteo regalis), Rough-legged Hawk (Buteo lagopus), American Kestrel (Falco sparverius), and Prairie Falcon (Falco mexicanus). The Prairie Falcon and Ferruginous and Rough-legged hawks showed expected strong positive associations with grasslands. The Bald Eagle and Northern Harrier were positively associated not only with wetlands but also with rice. The strongest positive association for the White-tailed Kite was with wetlands. The Red-tailed Hawk was positively associated with a variety of habitat types but most strongly with wetlands and rice. The American Kestrel, Northern Harrier, and White-tailed Kite were positively associated with alfalfa. Nearly all species were negatively associated with urbanized landscapes, orchards, and other intensive forms of agriculture. The White-tailed Kite, Northern Harrier, Redtailed Hawk, Ferruginous Hawk, and American Kestrel showed significant negative associations with oak savanna. Given the rapid conversion of the Central Valley to urban and intensive agricultural uses over the past few decades, these results have important implications for conservation of these wintering raptors in this region.

Western Birds↗

USGS2011

Valuation of rangeland ecosystem services

Economic valuation lends itself well to the anthropocentric orientation of ecosystem services. An economic perspective on ecosystems portrays them as natural assets providing a flow of goods and services valuable to individuals and society collectively. A few examples include the purification of drinking water, reduced risk from flooding and other extreme events, pollination of agricultural crops, climate regulation, and recreation opportunities from plant and animal habitat maintenance, among many others. Once these goods and services are identified and quantified, they can be monetized to complete the valuation process. The monetization of ecosystem goods and services (in the form of dollars) provides a common metric that allows for cross-comparison of attributes and evaluation of differing ecological scenarios. Complicating the monetization process is the fact that most of these goods and services are public and non-market in nature; meaning they are non-rival and non-exclusive and are typically not sold in a traditional market setting where monetary values are revealed. Instead, one must employ non-market valuation techniques, with primary valuation methods typically being very time and resource consuming, intimidating to non-economists, and often impractical. For these reasons, benefit transfer methods have gained popularity. This methodology harnesses the primary collection results of existing studies to make inferences about the economic values of non-market goods and services at an alternative policy site (in place and/or in time). For instance, if a primary valuation study on oak reestablishment on rangelands in southern California yielded a value of $30 per-acre associated with water regulation, this result can be transferred, with some adjustments, to say something about the value of an acre of oaks on rangelands in northern portions of the state. The economic valuation of rangeland ecosystem services has many roles. Economic values may be used as input into analyzing the costs and benefits associated with policies being proposed, or possibly already implemented. For example, with monetized values acting as a common metric, one could compare the 'benefits' of converting a rangeland ecosystem for commercial development (perhaps estimated at the market value of the developed land) with the foregone ecosystem service values (in addition to any land income lost) resulting from that land conversion. Similarly, ecosystem service values can be used to determine the level of return on an investment. rhis is a primary objective for private land conservation organizations who typically have very limited resources. Ecosystem service valuation can also have a role in damage assessments from incidents that require compensation such as oil spills. Additionally, valuation can be very informative when investigating regulatory programs that trade ecological assets such as wetland mitigation programs. Typically these programs are based simply on an 'acre for acre' criterion, and do not take into consideration varying welfare values associated with that ecosystem. Lastly, and most fundamental, ecosystem service valuation serves as a recognition tool for people of all backgrounds. Identifying and valuing ecosystem goods and services on rangelands brings to light the value these natural assets have to human welfare that often remain hidden do to their public and non-market attributes. This type of recognition is vital to the preservation of rangeland ecosystems in the future and the many ecological benefits they provide.

Conference Paper↗

USGS2011

Application of a watershed model (HSPF) for evaluating sources and transport of pathogen indicators in the Chino Basin drainage area, San Bernardino County, California

A watershed model using Hydrologic Simulation Program-FORTRAN (HSPF) was developed for the urbanized Chino Basin in southern California to simulate the transport of pathogen indicator bacteria, evaluate the flow-component and land-use contributions to bacteria contamination and water-quality degradation throughout the basin, and develop a better understanding of the potential effects of climate and land-use change on water quality. The calibration of the model for indicator bacteria was supported by historical data collected before this study and by samples collected by the U.S. Geological Survey from targeted land-use areas during storms in water-year 2004. The model was successfully calibrated for streamflow at 5 gage locations representing the Chino Creek and Mill Creek drainages. Although representing pathogens as dissolved constituents limits the model's ability to simulate the transport of pathogen indicator bacteria, the bacteria concentrations measured over the period 1998-2004 were well represented by the simulated concentrations for most locations. Hourly concentrations were more difficult to predict because of high variability in measured bacteria concentrations. In general, model simulations indicated that the residential and commercial land uses were the dominant sources for most of the pathogen indicator bacteria during low streamflows. However, simulations indicated that land used for intensive livestock (dairies and feedlots) and mixed agriculture contributed the most bacteria during storms. The calibrated model was used to evaluate how various land use, air temperature, and precipitation scenarios would affect flow and transport of bacteria. Results indicated that snow pack formation and melt were sensitive to changes in air temperature in the northern, mountainous part of the Chino Basin, causing the timing and magnitude of streamflow to shift in the natural drainages and impact the urbanized areas of the central Chino Basin. The relation between bacteria concentrations and air temperature was more complicated, and did not substantially affect the quality of water discharging from the Chino Basin into the Santa Ana River. Changes in precipitation had a greater basin-wide affect on bacteria concentrations than changes in air temperature, and varied according to location. Drainages representing natural conditions had a decrease in bacteria concentrations in correlation with an increase in precipitation, whereas drainages in the central and southern part of the Chino Basin had an increase in bacteria concentrations. Drier climate conditions tended to result in higher sensitivity of simulated bacteria concentrations to changes in precipitation. Simulated bacteria concentrations in wetter climates were usually less sensitive to changes in precipitation because bacteria transport becomes more dependent on the land-use specified bacteria loading rates and the storage limits. Bacteria contamination from impervious-area runoff is affected to a greater degree by drier climates, whereas contamination from pervious-area runoff is affected to a greater degree by wetter climates. Model results indicated that the relation between precipitation, runoff, and bacteria contamination is complicated because after the initial bacteria washoff and transport from the land surfaces during the beginning of a storm period, subsequent runoff has fewer bacteria available for washoff, which then dilutes the concentrations of bacteria in the downstream reach. It was illustrated that pathogen indicator bacteria transport depends most significantly on the relation of imperviousness to runoff, which controls the frequency, and often the magnitude, of transport, and on the contribution of higher bacteria loading rates used for pervious land areas, especially intensive feedlots, to the infrequent, but very high, peaks of bacteria contamination. The indicator bacteria transport model for the Chino Basin was based on the assumption that no

California↗

USGS2015

Groundwater quality in the Northern Coast Ranges Basins, California

The Northern Coast Ranges (NOCO) study unit is 633 square miles and consists of 35 groundwater basins and subbasins (California Department of Water Resources, 2003; Mathany and Belitz, 2015). These basins and subbasins were grouped into two study areas based primarily on locality. The groundwater basins and subbasins located inland, not adjacent to the Pacific Ocean, were aggregated into the Interior Basins (NOCO-IN) study area. The groundwater basins and subbasins adjacent to the Pacific Ocean were aggregated into the Coastal Basins (NOCO-CO) study area (Mathany and others, 2011). The primary aquifer system in the NOCO-IN study area occurs in alluvial basins made up of sand, silt, gravel, clay, and thin volcanic ash layers or lenses. Groundwater movement in the NOCO-IN study area follows the topography and direction of surface-water features. In the NOCO-CO study area, groundwater is present in alluvial fan, floodplain, and terrace deposits. Groundwater movement in the NOCO-CO study area is from east to west towards the Pacific Ocean. The primary aquifer system in the study unit generally is defined as those parts of the aquifer system corresponding to the perforated intervals of sites listed in the California Department of Public Health (CDPH) database of public drinking-water supply sources. Well depths in the NOCO-IN study area ranged from 36 to 400 feet below land surface (ft bls), and depths to top-of-perforations ranged from 15 to 148 ft bls. In the NOCO-CO study area, well depths ranged from 15 to 400 ft bls, and depths to top-of-perforations ranged from 10 to 356 ft bls. Water quality in the primary aquifer system may differ from that in the shallower and deeper parts of the aquifer system. Average annual rainfall in the NOCO study unit ranges from 22 to 79 inches. In the NOCO-IN study area, the climate is classified as Mediterranean, with warm to hot, dry summers and cold, wet winters. In the NOCO-CO study area, the climate is influenced by the Pacific Ocean and is characterized by cool to mild summers and cold, wet winters. The study unit is drained by several rivers and their principal tributaries: the Eel, Russian, Mad, Navarro, Smith, Klamath, Noyo, and Big Rivers. Land use in the study unit is about 60 percent (%) natural (mostly grassland and forest), 29% agricultural, and 11% urban. The primary uses of agricultural lands are pasture, row crops, hay, vineyards, and timberlands. The largest urban areas are the cities of Crescent City, Arcata, Eureka, Fort Bragg, Willits, Ukiah, and Lakeport. Recharge to the groundwater system is primarily from mixture of ambient sources, including direct percolation of precipitation and irrigation waters, infiltration of runoff from surrounding hills/areas, seepage from rivers and creeks, and subsurface inflow (from non-alluvial geologic units that bound the alluvial basins). The primary sources of discharge are evaporation, discharge to streams, and water pumped for municipal supply and irrigation.

California↗

USGS1998

Survey of vesicular-arbuscular mycorrhizae in lettuce production in relation to management and soil factors

The occurrence of vesicular-arbuscular mycorrhizae (VAM) root colonization and spore number in soil was assessed for 18 fields under intensive lettuce (Lactuca sativa L.) production in California during July and August of 1995. Data on management practices and soil characteristics were compiled for each field, and included a wide range of conditions. The relationship between these factors and the occurrence of VAM in these fields was explored with multivariate statistical analysis. VAM colonization of lettuce tended to decrease with the use of chemical inputs, such as pesticides and high amounts of P and N fertilizers. Addition of soil organic matter amendments, the occurrence of other host crops in the rotation, and soil carbon:phosphorus and carbon:nitrogen ratios, were positively associated with VAM colonization of lettuce roots. The number of VAM spores in soil was strongly correlated with the number of other host crops in the rotation, the occurrence of weed hosts and sampling date, but was more affected by general soil conditions than by management inputs. Higher total soil N, C and P, as well as CEC, were inversely related to soil spore number. A glasshouse study of the two primary lettuce types sampled in the field showed no significant differences in the extent of root colonization under similar growing conditions. The results of this study are compared with other studies on the effects of management and soil conditions on mycorrhizal occurrence in agriculture.

Journal of Agricultural Science↗

USGS2014

Dissolved pesticide concentrations entering the Sacramento-San Joaquin Delta from the Sacramento and San Joaquin Rivers, California, 2012-13

Surface-water samples were collected from the Sacramento and San Joaquin Rivers where they enter the Sacramento–San Joaquin Delta, and analyzed by the U.S. Geological Survey for a suite of 99 current-use pesticides and pesticide degradates. Samples were collected twice per month from May 2012 through July 2013 and from May 2012 through April 2013 at the Sacramento River at Freeport, and the San Joaquin River near Vernalis, respectively. Samples were analyzed by two separate laboratory methods by using gas chromatography with mass spectrometry or liquid chromatography with tandem mass spectrometry. Method detection limits ranged from 0.9 to 10.5 nanograms per liter (ng/L). A total of 37 pesticides and degradates were detected in water samples collected during the study (18 herbicides, 11 fungicides, 7 insecticides, and 1 synergist). The most frequently detected pesticides overall were the herbicide hexazinone (detected in 100 percent of the samples); 3,4-dichloroaniline (97 percent), which is a degradate of the herbicides diuron and propanil; the fungicide azoxystrobin (83 percent); and the herbicides diuron (72 percent), simazine (66 percent), and metolachlor (64 percent). Insecticides were rarely detected during the study. Pesticide concentrations varied from below the method detection limits to 984 ng/L (hexazinone). Twenty seven pesticides and (or) degradates were detected in Sacramento River samples, and the average number of pesticides per sample was six. The most frequently detected compounds in these samples were hexazinone (detected in 100 percent of samples), 3,4-dichloroaniline (97 percent), azoxystrobin (88 percent), diuron (56 percent), and simazine (50 percent). Pesticides with the highest detected maximum concentrations in Sacramento River samples included the herbicide clomazone (670 ng/L), azoxystrobin (368 ng/L), 3,4-dichloroaniline (364 ng/L), hexazinone (130 ng/L), and propanil (110 ng/L), and all but hexazinone are primarily associated with rice agriculture. In addition to the twice monthly sampling, surface-water samples were collected from the Sacramento River on 5 consecutive days following a rainfall event in the Sacramento urban area. Samples collected following this event contained an average of 11 pesticides. The insecticides carbaryl, fipronil, and imidacloprid; the herbicide DCPA; and the fungicide imazalil were only detected in the Sacramento River during this storm-runoff event, and two detections of fipronil during this period exceeded the U.S. Environmental Protection Agency Aquatic Life Benchmark (11 ng/L) for chronic toxicity to invertebrates in freshwater. In San Joaquin River samples, 26 pesticides and (or) degradates were detected, and the average number detected per sample was 9. The most frequently detected compounds in these samples were hexazinone and metolachlor (detected in 100 percent of samples); diuron (96 percent); the fungicide boscalid (96 percent); the degradates 3,4-dicloroaniline (92 percent) and NN-(3,4-Dichlorophenyl)-N’-methylurea (DCPMU; 83 percent); simazine (83 percent); and azoxystrobin (75 percent). The pesticides with the highest detected maximum concentrations were hexazinone (984 ng/L), diuron (695 ng/L), simazine (524 ng/L), the herbicide prometryn (155 ng/L), metolachlor (127 ng/L), boscalid (112 ng/L), DCPMU (111 ng/L), and the herbicide pendimethalin (108 ng/L).

California↗

USGS2025

Characterizing pyrethroid and fipronil concentrations in biosolids

Pesticides are prevalent in wastewater, yet few studies have measured pesticides in biosolids and aqueous media from samples collected concurrently. Seventeen California wastewater treatment plants (WWTPs) were sampled in May 2020. Biosolids samples were analyzed for 27 analytes, and paired aqueous samples (influent and effluent) were analyzed for 23 analytes. Analytes included fipronil and its transformation products (fiproles), pyrethroids, novaluron, and several other pesticides with down-the-drain transport potential. Of the 27 compounds analyzed in biosolids samples, 16 were detected in at least one sample, and 10 had a detection frequency (DF) of at least 25 %. Fipronil sulfone, fipronil sulfide, and fipronil were the most frequently detected fiproles (DF = 100 %, 94 %, and 67 %, respectively); permethrin was the most frequently detected pyrethroid (DF = 100 %), followed by bifenthrin (DF = 94 %), cyhalothrin (DF = 89 %), and etofenprox (DF = 78 %). To elucidate fipronil transformation pathways within the treatment system, data from the three sample types were compared; findings were generally consistent with transformation pathways reported previously (e.g., some fiproles were rarely detected in influent or biosolids, but frequently detected in effluent, indicating their formation during the treatment process). No correlations were found between WWTP characteristics and pesticide concentrations in biosolids. The fraction of organic carbon ( f OC ) of each biosolids sample was measured, and a statistically significant negative correlation was observed between f OC and some fiproles, but not fipronil; possible explanations are discussed. Additional analysis for two major agricultural pesticides (bifenthrin and permethrin) indicated that estimated mass loads of these pesticides in biosolids applied to land as a soil amendment are minimal (approximately 2 to 3 orders of magnitude lower) compared to inputs from agricultural applications. This study provides insight on the magnitude of pesticides entering the environment via land-applied biosolids; existing regulations surrounding agricultural pesticide applications are expected to also be protective of the relatively low inputs from biosolids.

Science of the Total Environment↗

USGS2008

Hydrogeology, Water Chemistry, and Factors Affecting the Transport of Contaminants in the Zone of Contribution of a Public-Supply Well in Modesto, Eastern San Joaquin Valley, California

Ground-water chemistry in the zone of contribution of a public-supply well in Modesto, California, was studied by the U.S. Geological Survey National Water Quality Assessment (NAWQA) Program's topical team for Transport of Anthropogenic and Natural Contaminants (TANC) to supply wells. Twenty-three monitoring wells were installed in Modesto to record baseline hydraulic information and to collect water-quality samples. The monitoring wells were divided into four categories that represent the chemistry of different depths and volumes of the aquifer: (1) water-table wells were screened between 8.5 and 11.7 m (meter) (28 and 38.5 ft [foot]) below land surface (bls) and were within 5 m (16 ft) of the water table; (2) shallow wells were screened between 29 and 35 m (95 and 115 ft) bls; (3) intermediate wells were screened between 50.6 and 65.5 m (166 and 215 ft) bls; and (4) deep wells are screened between 100 to 106 m (328 and 348 ft) bls. Inorganic, organic, isotope, and age-dating tracers were used to characterize the geochemical conditions in the aquifer and understand the mechanisms of mobilization and movement of selected constituents from source areas to a public-supply well. The ground-water system within the study area has been significantly altered by human activities. Water levels in monitoring wells indicated that horizontal movement of ground water was generally from the agricultural areas in the northeast towards a regional water-level depression within the city in the southwest. However, intensive pumping and irrigation recharge in the study area has caused large quantities of ground water to move vertically downward within the regional and local flow systems. Analysis of age tracers indicated that ground-water age varied from recent recharge at the water table to more than 1,000 years in the deep part of the aquifer. The mean age of shallow ground water was determined to be between 30 and 40 years. Intermediate ground water was determined to be a mixture of modern (Post-1950) and old (Pre-1950) ground water. As a result, concentrations of age tracers were detectable but diluted by older ground water. Deep ground water generally represented water that was recharged under natural conditions and therefore had much older ages. Ground water reaching the public-supply well was a mixture of older intermediate and deep ground water and young shallow ground water that has been anthropogenically-influenced to a greater extent than intermediate ground water. Uranium and nitrate pose the most significant threat to the quality of water discharged from the public-supply well. Although pesticides and VOCs were present in ground water from the public-supply well and monitoring wells, currently concentrations of these contaminants are generally less than one-hundredth the concentration of drinking water standards. In contrast, both uranium and nitrate were above half the concentration of drinking water standards for public-supply well samples, and were above drinking water standards for several water-table and shallow monitoring wells. Shallow ground water contributes roughly 20 percent of the total flow to the public-supply well and was the entry point of most contaminants reaching the public-supply well. Naturally-occurring uranium, which is commonly adsorbed to aquifer sediments, was mobilized by oxygen-rich, high-alkalinity water, causing concentrations in some monitoring wells to be above the drinking-water standard of 30 ug/L (microgram per liter). Adsorption experiments, sediment extractions, and uranium isotopes indicated uranium in water-table and shallow ground water was leached from aquifer sediments. Uranium is strongly correlated to bicarbonate concentrations (as measured by alkalinity) in ground water. Bicarbonate can effectively limit uranium adsorption to sediments. As a result, continued downward movement of high-alkalinity, oxygen-rich ground water will likely lead to larger portions of the aquifer having

Scientific Investigations Report↗

USGS2024

Methods of analysis—Determination of pesticides in filtered water and suspended sediment using liquid chromatography- and gas chromatography-tandem mass spectrometry

The widespread application of pesticides in agricultural and urban areas leads to their presence in surface waters. Presence of these biologically active chemicals in environmental waters potentially has adverse effects on nontarget organisms. To better understand the environmental fate of these contaminants, a robust method to capture chemicals with wide-ranging physicochemical properties has been developed. The method was developed by the U.S. Geological Survey’s Organic Chemistry Research Laboratory to monitor pesticides, pesticide degradates, and other agrochemicals in environmental surface waters throughout the country. The analysis involves a multiresidue method to determine 183 pesticides and pesticide degradates in filtered water samples and 178 pesticides and pesticide degradates in paired suspended sediment samples. After the filtration of whole water, contaminants are individually measured in the filtered water and the collected suspended sediment. Filtered water is extracted via solid-phase extraction, whereas suspended sediment is extracted using an ultrasonication, solid-liquid extraction. Samples are analyzed by liquid chromatography-tandem mass spectrometry using an electrospray ionization source in positive and negative modes and analyzed by gas chromatography-tandem mass spectrometry using an advanced electron ionization source in positive mode. Instrument parameters were optimized for the highest sensitivity, and at least two transitions (quantifier and qualifier) were monitored for each analyte. Recoveries in test filtered water ( n =9; 183 analytes) from the American River, California, and suspended sediment ( n =9; 178 analytes) samples fortified at 15 nanograms per liter (ng/L) ranged from 70.1 to 121.0 and 71.1 to 117.0 percent in water and suspended sediment filter samples, respectively. Method detection limits of pesticides and pesticide degradates ranged from 0.5 to 10.6 ng/L in water and 0.7 to 11.8 ng/L in suspended sediment filters. Reporting limits were 1.1–21.1 ng/L and 1.5–23.7 ng/L in water and filter samples, respectively. The developed method is applied to surface-water samples for the analysis of pesticides, pesticide degradates, and other agrochemicals.

Techniques and Methods↗