Search USGS⌕ Search

SEARCH · Search USGS

Results for “Microbiology”

Search indexed USGS publications on groundwater, aquifers, geologic maps, mineral resources and earthquakes. Explore source records by subject and place.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 217 records · Page 12Linked to original sources
USGS2011

Distribution of Fecal Indicator Bacteria along the Malibu, California, Coastline

Each year, over 550 million people visit California's public beaches. To protect beach-goers from exposure to waterborne disease, California state law requires water-quality monitoring for fecal indicator bacteria (FIB), such as enterococci and Escherichia coli (E. coli), at beaches having more than 50,000 yearly visitors. FIB are used to assess the microbiological quality of water because, although not typically disease causing, they are correlated with the occurrence of certain waterborne diseases. Tests show that FIB concentrations occasionally exceed U.S. Environmental Protection Agency (USEPA) public health standards for recreational water in Malibu Lagoon and at several Malibu beaches (Regional Water Quality Control Board, 2009). Scientists from the U.S. Geological Survey's (USGS) California Water Science Center are doing a study to identify the distribution and sources of FIB in coastal Malibu waters (fig. 1). The study methods were similar to those used in a study of FIB contamination on beaches in the Santa Barbara, California, area (Izbicki and others, 2009). This report describes the study approach and presents preliminary results used to evaluate the distribution and source of FIB in the Malibu area. Results of this study will help decision-makers address human health issues associated with FIB contamination in Malibu, and the methods used in this study can be used in other coastal areas affected by FIB contamination.

Open-File Report↗
USGS2014

Survival of bacterial indicators and the functional diversity of native microbial communities in the Floridan aquifer system, south Florida

The Upper Floridan aquifer in the southern region of Florida is a multi-use, regional scale aquifer that is used as a potable water source and as a repository for passively recharged untreated surface waters, and injected treated surface water and wastewater, industrial wastes, including those which contain greenhouse gases (for example, carbon dioxide). The presence of confined zones within the Floridan aquifer that range in salinity from fresh to brackish allow regulatory agencies to permit the injection of these different types of product waters into specific zones without detrimental effects to humans and terrestrial and aquatic ecosystems. The type of recharge that has received the most regulatory attention in south Florida is aquifer storage and recovery (ASR). The treated water, prior to injection and during recovery, must meet primary and secondary drinking water standards. The primary microbiology drinking water standard is total coliforms, which have been shown to be difficult to inactivate below the regulatory standard during the treatment process at some ASR facilities. The inefficient inactivation of this group of indicator bacteria permits their direct injection into the storage zones of the Floridan aquifer. Prior to this study, the inactivation rates for any member of the total coliform group during exposure to native geochemical conditions in groundwater from any zone of the Floridan aquifer had not been derived. Aboveground flow through mesocosms and diffusion chambers were used to quantify the inactivation rates of two bacterial indicators, Escherichia coli and Pseudomonas aeruginosa, during exposure to groundwater from six wells. These wells collect water from two ASR storage zones: the Upper Floridan aquifer (UFA) and Avon Park Permeable Zone (APPZ). Both bacterial strains followed a biphasic inactivation model. The E. coli populations had slower inactivation rates in the UFA (range: 0.217–0.628 per hour (h -1 )) during the first phase of the model than when exposed to groundwater from the APPZ (range: 0.540–0.684 h -1 ). The inactivation rates for the first phase of the models for P. aeruginosa were not significantly different between the UFA (range: 0.144–0.770 h -1 ) and APPZ (range: 0.159–0.772 h -1 ) aquifer zones. The inactivation rates for the second phase of the model for this P. aeruginosa were also similar between UFA (range: 0.003–0.008 h -1 ) and APPZ (0.004–0.005 h -1 ) zones, although significantly slower than the model’s first phase rates for this bacterial species. Geochemical data were used to determine which dissimilatory biogeochemical reactions were most likely to occur under the native conditions in the UFA and APPZ zones using thermodynamics principles to calculate free energy yields and other cell-related energetics data. The biogeochemical processes of acetotrophic and hydrogenotrophic sulfate reduction, methanogenesis and anaerobic oxidation of methane dominated in all six groundwater sites. A high throughput DNA microarray sequencing technology was used to characterize the diversity in the native aquifer bacterial communities (bacteria and archaea) and assign putative physiological capabilities to the members of those communities. The bacterial communities in both zones of the aquifer were shown to possess the capabilities for primary and secondary fermentation, acetogenesis, methanogenesis, anaerobic methane oxidation, syntrophy with methanogens, ammonification, and sulfate reduction. The data from this study provide the first determination of bacterial indicator survival during exposure to native geochemical conditions of the Floridan aquifer in south Florida. Additionally, the energetics and functional bacterial diversity characterizations are the first descriptions of native bacterial communities in this region of the Floridan aquifer and reveal how these communities persist under such extreme conditions. Collectively, these types of data can be used to develop and refine groundwater models.

Florida↗
USGS2014

Comparison of three DNA extraction kits to establish maximum yield and quality of coral-associated microbial DNA

Coral microbiology is an expanding field, yet there is no standard DNA extraction protocol. Although many researchers depend on commercial extraction kits, no specific kit has been optimized for use with coral samples. Both soil and plant DNA extraction kits from MO BIO Laboratories, Inc., have been used by many research groups for this purpose. MO BIO recently replaced their PowerPlant® kit with an improved PowerPlantPro kit, but it was unclear how these changes would affect the kit’s use with coral samples. In order to determine which kit produced the best results, we conducted a comparison between the original PowerPlant kit, the new PowerPlantPro kit, and an alternative kit, PowerSoil, using samples from several different coral genera. The PowerPlantPro kit had the highest DNA yields, but the lack of 16S rRNA gene amplification in many samples suggests that much of the yield may be coral DNA rather than microbial DNA. The most consistent positive amplifications came from the PowerSoil kit.

Open-File Report↗
USGS2014

Temporal changes in lithology and radiochemistry from the back-barrier environments along the Chandeleur Islands, Louisiana: March 2012-July 2013

Scientists from the U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center conducted a time-series collection of shallow sediment cores from the back-barrier environments along the Chandeleur Islands, Louisiana from March 2012 through July 2013. The sampling efforts were part of a larger USGS study to evaluate effects on the geomorphology of the Chandeleur Islands following the construction of an artificial sand berm to reduce oil transport onto federally managed lands. The objective of this study was to evaluate the response of the back-barrier tidal and wetland environments to the berm. This report serves as an archive for sedimentological, radiochemical, and microbiological data derived from the sediment cores. Data are available for a time-series of four sampling periods: March 2012; July 2012; September 2012; and July 2013. Downloadable data are available as Excel spreadsheets and as JPEG files. Additional files include: ArcGIS shapefiles of the sampling sites, detailed results of sediment grain size analyses, and formal Federal Geographic Data Committee metadata.

Louisiana↗
USGS2015

Biological and geochemical data along Indian Point, Vermilion Bay, Louisiana

Scientists from the U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center collected shallow sediment cores and surface samples from a coastal salt marsh environment next to Vermilion Bay in southwest Louisiana in January 2013. The sampling was part of a larger USGS study to gather data for assessing environmental changes over the past 150 years. The objective of the study was to expand upon the historical context of sea level and storms affecting coastal systems and how these systems might change under persistent or varying conditions. The data from this report add to a regional environmental change database that aids with the continuing effort to understand the evolution of coastal systems. This report serves as an archive for sedimentological, radiochemical, and microbiological data derived from the sediment cores. Data are available for January 2013. Downloadable data are available as Excel spreadsheets and as JPEG files. Additional files include ArcGIS shapefiles of the sampling sites, detailed results of sediment analyses, and formal Federal Geographic Data Committee metadata. Acknowledgments The authors thank Nancy DeWitt, B.J. Reynolds, Christopher Reich (USGS, St. Petersburg Coastal and Marine Science Center), for help with sample collection and processing; Michael Ball, Sarai Piazza, and Gregory Steyer (USGS, Coastal Restoration Assessment Branch) for assistance accessing CRMS Site 541; and Darrell Anders and Phillip Turnipseed (USGS National Wetlands Research Center) for technical support while in the field. We would also like to thank Caitlyn Reynolds and Nicholas Zaremba for their pre-release commentary and peer review. Information Statement This publication was prepared by an agency of the United States Government. Although these data were processed successfully on a computer system at the U.S. Geological Survey, no warranty expressed or implied is made regarding the display or utility of the data on any other system, or for general or scientific purposes, nor shall the act of distribution imply any such warranty. The U.S. Geological Survey shall not be held liable for improper or incorrect use of the data described and (or) contained herein. Reference herein to any specific commercial product, process, or service by trade name, trademark, manufacturer, or otherwise does not constitute or imply its endorsement, recommendation, or favoring by the United States Government or any agency

Louisiana↗
USGS2005

Ground-water quality in the carbonate-rock aquifer of the Great Basin, Nevada and Utah, 2003

The carbonate-rock aquifer of the Great Basin is named for the thick sequence of Paleozoic limestone and dolomite with lesser amounts of shale, sandstone, and quartzite. It lies primarily in the eastern half of the Great Basin and includes areas of eastern Nevada and western Utah as well as the Death Valley area of California and small parts of Arizona and Idaho. The carbonate-rock aquifer is contained within the Basin and Range Principal Aquifer, one of 16 principal aquifers selected for study by the U.S. Geological Survey’s National Water- Quality Assessment Program. Water samples from 30 ground-water sites (20 in Nevada and 10 in Utah) were collected in the summer of 2003 and analyzed for major anions and cations, nutrients, trace elements, dissolved organic carbon, volatile organic compounds (VOCs), pesticides, radon, and microbiology. Water samples from selected sites also were analyzed for the isotopes oxygen-18, deuterium, and tritium to determine recharge sources and the occurrence of water recharged since the early 1950s. Primary drinking-water standards were exceeded for several inorganic constituents in 30 water samples from the carbonate-rock aquifer. The maximum contaminant level was exceeded for concentrations of dissolved antimony (6 μg/L) in one sample, arsenic (10 μg/L) in eleven samples, and thallium (2 μg/L) in one sample. Secondary drinking-water regulations were exceeded for several inorganic constituents in water samples: chloride (250 mg/L) in five samples, fluoride (2 mg/L) in two samples, iron (0.3 mg/L) in four samples, manganese (0.05 mg/L) in one sample, sulfate (250 mg/L) in three samples, and total dissolved solids (500 mg/L) in seven samples. Six different pesticides or metabolites were detected at very low concentrations in the 30 water samples. The lack of VOC detections in water sampled from most of the sites is evidence thatVOCs are not common in the carbonate-rock aquifer. Arsenic values for water range from 0.7 to 45.7 μg/L, with a median value of 9.6 μg/L. Factors affecting arsenic concentration in the carbonate-rock aquifer in addition to geothermal heating are its natural occurrence in the aquifer material and time of travel along the flow path. Most of the chemical analyses, especially for VOCs and nutrients, indicate little, if any, effect of overlying land-use patterns on ground-water quality. The water quality in recharge areas for the aquifer where human activities are more intense may be affected by urban and/or agricultural land uses as evidenced by pesticide detections. The proximity of the carbonate-rock aquifer at these sites to the land surface and the potential for local recharge to occur through the fractured rock likely results in the occurrence of these and other land-surface related contaminants in the ground water. Water from sites sampled near outcrops of carbonate-rock aquifer likely has a much shorter residence time resulting in a potential for detection of anthropogenic or land-surface related compounds. Sites located in discharge areas of the flow systems or wells that are completed at a great depth below the land surface generally show no effects of land-use activities on water quality. Flow times within the carbonate-rock aquifer, away from recharge areas, are on the order of thousands of years, so any contaminants introduced at the land surface that will not degrade along the flow path have not reached the sampled sites in these areas.

Nevada, Utah↗
USGS2007

Ground-Water Quality of the Northern High Plains Aquifer, 1997, 2002-04

An assessment of ground-water quality in the northern High Plains aquifer was completed during 1997 and 2002-04. Ground-water samples were collected at 192 low-capacity, primarily domestic wells in four major hydrogeologic units of the northern High Plains aquifer-Ogallala Formation, Eastern Nebraska, Sand Hills, and Platte River Valley. Each well was sampled once, and water samples were analyzed for physical properties and concentrations of nitrogen and phosphorus compounds, pesticides and pesticide degradates, dissolved solids, major ions, trace elements, dissolved organic carbon (DOC), radon, and volatile organic compounds (VOCs). Tritium and microbiology were analyzed at selected sites. The results of this assessment were used to determine the current water-quality conditions in this subregion of the High Plains aquifer and to relate ground-water quality to natural and human factors affecting water quality. Water-quality analyses indicated that water samples rarely exceeded established U.S. Environmental Protection Agency public drinking-water standards for those constituents sampled; 13 of the constituents measured or analyzed exceeded their respective standards in at least one sample. The constituents that most often failed to meet drinking-water standards were dissolved solids (13 percent of samples exceeded the U.S. Environmental Protection Agency Secondary Drinking-Water Regulation) and arsenic (8 percent of samples exceeded the U.S. Environmental Protection Agency Maximum Contaminant Level). Nitrate, uranium, iron, and manganese concentrations were larger than drinking-water standards in 6 percent of the samples. Ground-water chemistry varied among hydrogeologic units. Wells sampled in the Platte River Valley and Eastern Nebraska units exceeded water-quality standards more often than the Ogallala Formation and Sand Hills units. Thirty-one percent of the samples collected in the Platte River Valley unit had nitrate concentrations greater than the standard, 22 percent exceeded the manganese standard, 19 percent exceeded the sulfate standard, 26 percent exceeded the uranium standard, and 38 percent exceeded the dissolved-solids standard. In addition, 78 percent of samples had at least one detectable pesticide and 22 percent of samples had at least one detectable VOC. In the Eastern Nebraska unit, 30 percent of the samples collected had dissolved-solids concentrations larger than the standard, 23 percent exceeded the iron standard, 13 percent exceeded the manganese standard, 10 percent exceeded the arsenic standard, 7 percent exceeded the sulfate standard, 7 percent exceeded the uranium standard, and 7 percent exceeded the selenium standard. No samples exceeded the nitrate standard. Thirty percent of samples had at least one detectable pesticide compound and 10 percent of samples had at least one detectable VOC. In contrast, the Sand Hills and Ogallala Formation units had fewer detections of anthropogenic compounds and drinking-water exceedances. In the Sand Hills unit, 15 percent of the samples exceeded the arsenic standard, 4 percent exceeded the nitrate standard, 4 percent exceeded the uranium standard, 4 percent exceeded the iron standard, and 4 percent exceeded the dissolved-solids standard. Fifteen percent of samples had at least one pesticide compound detected and 4 percent had at least one VOC detected. In the Ogallala Formation unit, 6 percent of water samples exceeded the arsenic standard, 4 percent exceeded the dissolved-solids standard, 3 percent exceeded the nitrate standard, 2 percent exceeded the manganese standard, 1 percent exceeded the iron standard, 1 percent exceeded the sulfate standard, and 1 percent exceeded the uranium standard. Eight percent of samples collected in the Ogallala Formation unit had at least one pesticide detected and 6 percent had at least one VOC detected. Differences in ground-water chemistry among the hydrogeologic units were attributed to variable depth to water, depth of the well screen below the water table, reduction-oxidation conditions, ground-water residence time, interactions with surface water, composition of aquifer sediments, extent of cropland, extent of irrigated land, and fertilizer application rates.

Scientific Investigations Report↗
USGS2006

Microbial Quality of the Nation's Ground-Water Resources, 1993-2004

As part of the National Water-Quality Assessment (NAWQA) program, microbiological data were collected from wells in 22 NAWQA study units during 1993-2004. The wells constituted the sampling networks for three major NAWQA efforts--the major aquifer study, the land-use study, and source-water quality assessments of ground water used for public supplies. Sixteen principal aquifers were represented by these well networks. Samples of untreated ground water were analyzed for concentrations of fecal-indicator bacteria, which included the total-coliform bacteria, fecal-coliform bacteria, and Escherichia coli, and for the presence of somatic and male-specific coliphage viruses. Analyses of the samples showed that coliform bacteria occur relatively frequently-nearly 30 percent of all wells tested positive-and that domestic wells commonly are contaminated by total coliform bacteria, with 33 percent of these wells testing positive. Coliphage viruses were present in 10 percent or fewer of the wells sampled in the Central Columbia Plateau-Yakima, Georgia-Florida, San Joaquin, and Trinity study units, which represent the Columbia Plateau, Floridan, Central Valley, and Coastal Lowlands principal aquifers, respectively. The frequency of detections and concentrations of total coliform bacteria generally were higher in samples from domestic wells than in samples from public-supply wells; in fractured or porous rock materials (carbonate rocks) than in unconsolidated materials (mixtures of sand, gravel, clay); and in principal aquifers with median depths of sampled wells ranging from 100 to 200 feet than in principal aquifers with median depths of sampled wells less than 100 feet or greater than 200 feet. The waters most affected by the presence of coliform bacteria were those in the Valley and Ridge, the Floridan, and the Piedmont and Blue Ridge aquifers, where more than 50 percent of the study wells tested positive for these bacteria. The numbers of wells with detections of coliform bacteria were significantly lower for the Glacial Deposits, Stream and River Valley, Columbia Plateau, Basin and Range, High Plains, Southeastern Coastal Plain, and Coastal Lowlands aquifers. Of the 16 principal aquifers sampled, wells in the Valley and Ridge had the highest overall concentrations of total coliforms, with a median of 2 colony-forming units per 100 milliliters. Elevated concentrations of coliform bacteria (greater than 300 colony-forming units per 100 milliliters) also were reported for wells completed in the Mississippian-Pennsylvanian aquifer and the Ordovician aquifer in lower Tennessee. More than 50 percent of wells completed in carbonate or crystalline rocks tested positive for coliform bacteria. The Floridan, Piedmont and Blue Ridge, Ordovician (lower Tennessee), and Valley and Ridge aquifers are composed of these types of rocks. The lowest detection frequencies (less than 5 percent) were for wells in the Basin and Range and the Snake River aquifers. The materials that constitute these aquifers primarily are unconsolidated sand, gravel, and clay, or basalt with interbeds of sand, gravel, or clay. No strong correlations between concentrations of total coliforms and well depths were identified, nor were there any correlations between total coliform concentrations and selected chemical constituents in the waters. Other factors, such as geohydrologic characteristics, proximity of contaminating sources, interactions with surface water, or well-construction features (including the age of the well), likely control the presence and transport of coliform bacteria in the ground water.

Scientific Investigations Report↗
USGS2007

Ground water redox zonation near La Pine, Oregon: Relation to river position within the aquifer–riparian zone continuum

Increasing residential development since in the 1960s has lead to increases in nitrate concentrations in shallow ground water in parts of the 247 square mile study area near La Pine, Oregon. Denitrification is the dominant nitrate-removal process that occurs in suboxic ground water, and suboxic ground water serves as a barrier to transport of most nitrate in the aquifer. Oxic ground water, on the other hand, represents a potential pathway for nitrate transport from terrestrial recharge areas to the Deschutes and Little Deschutes Rivers. The effects of present and potential future discharge of ground-water nitrate into the nitrogen-limited Deschutes and Little Deschutes Rivers are not known. However, additions of nitrogen to nitrogen-limited rivers can lead to increases in primary productivity which, in turn, can increase the magnitudes of dissolved oxygen and pH swings in river water. An understanding of the distribution of oxic ground water in the near-river environment could facilitate understanding the vulnerability of these rivers and could be a useful tool for management of these rivers. In this study, transects of temporary wells were installed in sub-river sediments beneath the Deschutes and Little Deschutes Rivers near La Pine to characterize near-river reduction/oxidation (redox) conditions near the ends of ground-water flow paths. Samples from transects installed near the center of the riparian zone or flood plain were consistently suboxic. Where transects were near edges of riparian zones, most ground-water samples also were suboxic. Oxic ground water (other than hyporheic water) was uncommon, and was only detected near the outside edge of some meander bends. This pattern of occurrence likely reflects geochemical controls throughout the aquifer as well as geochemical processes in the microbiologically active riparian zone near the end of ground-water flow paths. Younger, typically less reduced ground water generally enters near-river environments through peripheral zones, whereas older, typically more reduced ground water tends to discharge closer to the center of the river corridor. Such distributions of redox state reflect ground-water movement and geochemical evolution at the aquifer-scale. Redox state of ground water undergoes additional modification as ground water nears discharge points in or adjacent to rivers, where riparian zone processes can be important. Lateral erosion of river systems away from the center of the flood plain can decrease or even eliminate interactions between ground water and reducing riparian zone sediments. Thus, ground water redox patterns in near-river sediments appear to reflect the position of a river within the riparian zone/aquifer continuum. Spatial heterogeneity of redox conditions near the river/aquifer boundary (that is, near the riverbed) makes it difficult to extrapolate transect-scale findings to a precise delineation of the oxic-suboxic boundary in the near-river environment of the entire study area. However, the understanding of relations between near-river redox state and proximity to riparian zone edges provides a basis for applying these results to the study-area scale, and could help guide management efforts such as nitrogen-reduction actions or establishment of Total Maximum Daily Load criteria. Coupling the ground-water redox-based understanding of river vulnerability with ground-water particle-tracking-based characterization of connections between upgradient recharge areas and receiving rivers demonstrates one means of linking effects of potential nitrate loads at the beginning of ground-water flow paths with river vulnerability.

Oregon↗
USGS2011

Factors affecting groundwater quality in the Valley and Ridge aquifers, eastern United States, 1993-2002

Chemical and microbiological analyses of water from 230 wells and 35 springs in the Valley and Ridge Physiographic Province, sampled between 1993 and 2002, indicated that bedrock type (carbonate or siliciclastic rock) and land use were dominant factors influencing groundwater quality across a region extending from northwestern Georgia to New Jersey. The analyses included naturally occurring compounds (major mineral ions and radon) and anthropogenic contaminants [pesticides and volatile organic compounds (VOCs)], and contaminants, such as nitrate and bacteria, which commonly increase as a result of human activities. Natural factors, such as topographic position and the mineral composition of underlying geology, act to produce basic physical and geochemical conditions in groundwater that are reflected in physical properties, such as pH, temperature, specific conductance, and alkalinity, and in chemical concentrations of dissolved oxygen, radon, and major mineral ions. Anthropogenic contaminants were most commonly found in water from wells and springs in carbonate-rock aquifers. Nitrate concentrations exceeded U.S. Environmental Protection Agency maximum contaminant levels in 12 percent of samples, most of which were from carbonate-rock aquifers. Escherichia coli (E. coli), pesticide, and VOC detection frequencies were significantly higher in samples from sites in carbonate-rock aquifers. Naturally occurring elements, such as radon, iron, and manganese, were found in higher concentrations in siliciclastic-rock aquifers. Radon levels exceeded the proposed maximum contaminant level of 300 picocuries per liter in 74 percent of the samples, which were evenly distributed between carbonate- and siliciclastic-rock aquifers. The land use in areas surrounding wells and springs was another significant explanatory variable for the occurrence of anthropogenic compounds. Nitrate and pesticide concentrations were highest in samples collected from sites in agricultural areas and lowest in samples collected from sites in undeveloped areas. Volatile organic compounds were detected most frequently and in highest concentrations in samples from sites in urban areas, and least frequently in agricultural and undeveloped areas. No volatile organic compound concentrations and concentrations from only one pesticide, dieldrin, exceeded human-health benchmarks.

Alabama;Georgia;Tennessee;North Carolina;Virginia;↗
USGS2016

Effects of aquifer storage and recovery activities on water quality in the Little Arkansas River and Equus Beds Aquifer, south-central Kansas, 2011–14

The Equus Beds aquifer in south-central Kansas is aprimary water source for the city of Wichita. The Equus Beds aquifer storage and recovery (ASR) project was developed to help the city of Wichita meet increasing current (2016) and future water demands. The Equus Beds ASR project pumps water out of the Little Arkansas River during above-base flow conditions, treats it using drinking-water quality standards as a guideline, and recharges it into the Equus Beds aquifer for later use. Phase II of the Equus Beds ASR project currently (2016) includes a river intake facility and a surface-water treatment facility with a 30 million gallon per day capacity. Water diverted from the Little Arkansas River is delivered to an adjacent presedimentation basin for solids removal. Subsequently, waste from the surface-water treatment facility and the presedimentation basin is returned to the Little Arkansas River through a residuals return line. The U.S. Geological Survey, in cooperation with the city of Wichita, developed and implemented a hydrobiological monitoring program as part of the ASR project to characterize and quantify the effects of aquifer storage and recovery activities on the Little Arkansas River and Equus Beds aquifer water quality. Data were collected from 2 surface-water sites (one upstream and one downstream from the residuals return line), 1 residuals return line site, and 2 groundwater well sites (each having a shallow and deep part): the Little Arkansas River upstream from the ASR facility near Sedgwick, Kansas (upstream surface-water site 375350097262800), about 0.03 mile (mi) upstream from the residuals return line site; the Little Arkansas River near Sedgwick, Kans. (downstream surface-water site 07144100), about 1.68 mi downstream from the residuals return line site; discharge from the Little Arkansas River ASR facility near Sedgwick, Kansas (residuals return line site 375348097262800); 25S 01 W 07BCCC01 SMW–S11 near CW36 (MW–7 shallow groundwater well site 375327097285401); 25S01 W 07BCCC02 DMW–S10 near CW36 (MW–7 deep groundwater well site 375327097285402); 25S 01W 07BCCA01 SMW–S13 near CW36 (MW–8 shallow groundwater well site 375332097284801); and 25S 01W 07BCCA02 DMW–S14 near CW36 (MW–8 deep groundwater well site 375332097284802). The U.S. Geological Survey, in cooperation with the city of Wichita, assessed the effects of the ASR Phase II facility residuals return line discharges on stream quality of the Little Arkansas River by measuring continuous physicochemical properties and collecting discrete water-quality and sediment samples for about 2 years pre- (January 2011 through April 2013) and post-ASR (May 2013 through December 2014) Phase II facility operation upstream and downstream from the ASR Phase II facility. Additionally, habitat variables were quantified and macroinvertebrate and fish communities were sampled upstream and downstream from the ASR Phase II facility during the study period. To assess the effects of aquifer recharge on Equus Beds groundwater quality, continuous physicochemical properties were measured and discrete water-quality samples were collected before and during the onset of Phase II aquifer recharge in two (shallow and deep) groundwater wells. Little Arkansas River streamflow was about 10 times larger after the facility began operating because of greater rainfall. Residuals return line release volumes were a very minimal proportion (0.06 percent) of downstream streamflow volume during the months the ASR facility was operating. Upstream and downstream continuously measured water temperature and dissolved oxygen median differences were smaller post-ASR than pre-ASR. Turbidity generally was smaller at the downstream site throughout the study period and decreased at both sites after the ASR Phase II facility began discharging despite a median residuals return line turbidity that was about an order of magnitude larger than the median turbidity at the downstream site. Upstream and downstream continuously measured turbidity median differences were larger post-ASR than pre-ASR. Median post-ASR continuously measured nitrite plus nitrate and continuously computed total suspended solids and suspended-sediment concentrations were smaller than pre-ASR likely because of higher streamflows and dilution; whereas, median continuously computed dissolved and total organic carbon concentrations were larger likely because of higher streamflows and runoff conditions. None of the discretely measured water-quality constituents (dissolved and suspended solids, primary ions, suspended sediment, nutrients, carbon, trace elements, viral and bacterial indicators, and pesticides) in surface water were significantly different between the upstream and downstream sites after the ASR Phase II facility began discharging; however, pre-ASR calcium, sodium, hardness, manganese, and arsenate concentrations were significantly larger at the upstream site, which indicates that some water-quality conditions at the upstream and downstream sites were more similar post-ASR. Most of the primary constituents that make up dissolved solids decreased at both sites after the ASR Phase II facility began operation. Discretely collected total suspended solids concentrations were similar between the upstream and downstream sites before the facility began operating but were about 27 percent smaller at the downstream site after the facility began operating, despite the total suspended solids concentrations in the residuals return line being 15 times larger than the downstream site. Overall habitat scores were indicative of suboptimal conditions upstream and downstream from the ASR Phase II facility throughout the study period. Substrate fouling and sediment deposition mean scores indicated marginal conditions at the upstream and downstream sites during the study period, demonstrating that sediment deposition was evident pre- and post-ASR and no substantial changes in these habitat characteristics were noted after the ASR Phase II facility began discharging. Macroinvertebrate community composition (evaluated using functional feeding, behavioral, and tolerance metrics) generally was similar between sites during the study period. Fewer macroinvertebrate metrics were significant between the upstream and downstream sites post-ASR (6) than pre-ASR (14), which suggests that macroinvertebate communities were more similar after the ASR facility began discharging. Upstream-downstream comparisons in macroinvertebrate aquatic-life-support metrics had no significant differences for the post-ASR time period and neither site was fully supporting for any of the Kansas Department of Health and Environment aquatic-life-support metrics (Macroinvertebrate Biotic Index; Kansas Biotic Index with tolerances for nutrients and oxygen-demanding substances; Ephemeroptera, Plecoptera, and Trichoptera [EPT] richness; and percentage of EPT species). Overall, using macroinvertebrate aquatic life-support criteria from the Kansas Department of Health and Environment, upstream and downstream sites were classified as partially supporting before and after the onset of ASR facility operations. Fish community trophic status and tolerance groups generally were similar among sites during the study period. Fish community Little Arkansas River Basin Index of Biotic Integrity scores at the upstream and downstream sites were indicative of fair-to-good conditions before the facility began operating and decreased to fair conditions after the facility began operating. Groundwater physicochemical changes concurrent with the beginning of recharge operations at the Sedgwick basin were more pronounced in shallow groundwater. No constituent concentrations in the pre-recharge period in comparison to the post-recharge period increased to concentrations exceeding drinking water regulations; however, nitrate decreased significantly from a pre-recharge exceedance of the U.S. Environmental Protection Agency maximum contaminant level to a post recharge nonexceedance. Shallow groundwater chemical concentrations or rates of detection increased after artificial recharge began for the ions potassium, chloride, and fluoride; phosphorus and organic carbon species; trace elements barium, manganese, nickel, arsenate, arsenic, and boron; agricultural pesticides atrazine, metolachlor, metribuzin, and simazine; organic disinfection byproducts bromodichloromethane and trichloromethane; and gross beta levels. Additionally, water temperature, and pH were larger after recharge began; and total solids and slime-forming bacteria concentrations and densities were smaller. Total solids, nitrate, and selenium significantly decreased; and potassium, chloride, nickel, arsenic, fluoride, phosphorus and carbon species, and gross beta levels significantly increased in shallow groundwater after artificial recharge. Results of biological activity reaction tests indicated that water quality microbiology was different before and after artificial recharge began; at times, these differences may lead to changes in dominant bacterial populations that, in turn, may lead to formation and expansion in populations that may cause bioplugging and other unwanted effects. Calcite, iron (II) hydroxide, hydroxyapatite, and similar minerals, had shifts in saturation indices that generally were from undersaturation toward equilibrium and, in some cases, toward oversaturation. These shifts toward neutral saturation indices might suggest reduced weathering of the minerals present in the Equus Beds aquifer. Chemical weathering in the shallow parts of the aquifer may be accelerated because of the increased water temperatures and the system is more vulnerable to clogged pores and mineral dissolution as the equilibrium state is affected by recharge and withdrawal. When oversaturation is indicated for iron minerals, plugging of aquifer materials may happen.

Kansas↗
USGS2018

Collection methods and quality assessment for Escherichia coli, water quality, and microbial source tracking data within Tumacácori National Historical Park and the upper Santa Cruz River, Arizona, 2015-16

Tumacácori National Historical Park protects the culturally important Mission, San José de Tumacácori, while also managing a portion of the ecologically diverse riparian corridor of the Santa Cruz River. This report describes the methods and quality assurance procedures used in the collection of water samples for the analysis of Escherichia coli ( E. coli ), microbial source tracking markers, suspended sediment, water-quality parameters, turbidity, and the data collection for discharge and stage; the process for data review and approval is also described. Finally, this report provides a quantitative assessment of the quality of the E. coli , microbial source tracking, and suspended sediment data. The data-quality assessment revealed that bias attributed to field and laboratory contamination was minimal, with E. coli detections in only 3 out of 33 field blank samples analyzed. Concentrations in the field blanks were several orders of magnitude lower than environmental concentrations. The microbial source tracking (MST) field blank was below the detection limit for all MST markers analyzed. Laboratory blanks for E. coli at the USGS Arizona Water Science Center and laboratory blanks for MST markers at the USGS Ohio Water Microbiology Laboratory were all below the detection limit. Irreplicate data for E. coli and suspended sediment indicated that bias was not introduced to the data by combining samples collected using discrete sampling methods with samples collected using automatic sampling methods. The split and sequential E. coli replicate data showed consistent analytical variability and a single equation was developed to explain the variability of E. coli concentrations. An additional analysis of analytical variability for E. coli indicated analytical variability around 18 percent relative standard deviation and no trend was observed in the concentration during the processing and analysis of multiple split-replicates. Two replicate samples were collected for MST and individual markers were compared for a base flow and flood sample. For the markers found in common between the two types of samples, the relative standard deviation for the base flow sample was more than 3 times greater than the markers in the flood sample. Sequential suspended sediment replicates had a relative standard deviation of about 1.3 percent, indicating that environmental and analytical variability was minimal. A holding time review and laboratory study analysis supported the extended holding times required for this investigation. Most concentrations for flood and base-flow samples were within the theoretical variability specified in the most probable number approach suggesting that extended hold times did not overly influence the final concentrations reported.

Arizona↗
USGS2019

Spatial and temporal distribution of bacterial indicators and microbial-source tracking within Tumacácori National Historical Park and the upper Santa Cruz River, southern Arizona and northern Mexico, 2015–2016

Tumacácori National Historical Park (TUMA) in southern Arizona protects the culturally important Mission San José de Tumacácori, while also managing a part of the ecologically diverse riparian corridor of the Santa Cruz River. The quality of the water flowing through depends solely on upstream watershed activities, and among the water-quality issues concerning TUMA is the microbiological pathogens in the river introduced by human and animal sources that pose a significant human health risk to employees and visitors. The U.S. Geological Survey (USGS) conducted a 3-year study to understand the sources, timing, and distribution of the fecal-indicator bacteria Escherichia coli ( E. coli ) within TUMA and the upstream watershed. The information provided in this investigation is a result of a comprehensive approach to quantify the spatial and temporal variability of E. coli and suspended sediment in the Upper Santa Cruz River Watershed. Several types of flow were sampled from base flow to flood flow and at high frequency intervals (rise, peak, and recession) to determine daily variability, as well as seasonal variability. Hydrologic data collection and estimation techniques were used to establish a hydrologic relation with E. coli and suspended sediment. Furthermore, source tracking was used to describe the potential sources of E. coli . Models were developed that are expected to be useful for predicting E. coli concentrations to help TUMA managers understand instantaneous conditions to keep the public and staff informed about potentially harmful water-quality conditions. In addition, the concentration, flux, and source information will provide more accurate data for other surface-water modeling and can be useful in the development of total maximum daily load standards. This will help TUMA describe the water-quality conditions at the park and waters flowing through the park, as well as prioritize and help carry out future best-management actions to address these issues.

Tumacácori National Historical Park, Upper Santa C↗
USGS2021

Overview and methodology for a study to identify fecal contamination sources using microbial source tracking in seven embayments on Long Island, New York

Between June 2018 and July 2019, the U.S. Geological Survey collaborated with the New York State Department of Environmental Conservation to analyze water quality in seven embayments on Long Island, New York, for a study to examine fecal contamination using microbial source tracking. This report documents the approach, methodology, and quality-assurance data used in the study. All samples and field data were collected in accordance with U.S. Geological Survey National Field Manual procedures. Samples were analyzed for host-specific deoxyribonucleic acid (DNA) markers, fecal coliform bacteria, inorganic and total organic nitrogen, and stable isotopes of nitrate and ammonium. Samples for quality control were collected for microbiological analyses at a rate of 1 per 20 environmental samples. A total of 14 blank and 15 replicate samples were collected for DNA markers, 52 sequential field replicates were analyzed by the Public Environmental Health Laboratory of the Suffolk County Department of Health Services and the New York State Department of Conservation Marine Laboratory for fecal coliform, and 7 blank and 7 replicate samples were collected to be analyzed for nutrients. Results from quality-control samples collected throughout the course of the study confirmed that sampling procedures were adequate and did not disqualify any data from analysis.

New York↗
USGS2025

Potential water-quality and hydrology stressors on freshwater mussels with development of environmental DNA assays for selected mussels and macroinvertebrates in Big Darby Creek Basin, Ohio, 2020–22

The richness and abundance of freshwater mussels in the Big Darby Creek Basin has declined in recent decades, according to survey results published by the Ohio Biological Survey. In October 2016, a major mussel die-off of undetermined cause reportedly affected over 50 miles of Big Darby Creek; however, fishes and other wildlife were not noticeably impacted. Pollution, habitat destruction, climate change, and hydrologic modification have all been theorized as potential reasons for the widespread declines in freshwater mussel populations in North America. To better understand potential stressors to mussels and other aquatic organisms in the Big Darby Creek Basin, the U.S. Geological Survey, in cooperation with the Ohio Water Development Authority, evaluated water quality and temporal changes in hydrology at selected locations. In addition, environmental deoxyribonucleic acid (eDNA) quantitative polymerase chain reaction (qPCR) assays were developed to detect the presence of selected mussels and macroinvertebrates using stream water. Time-weighted average concentrations of pesticides, organic wastewater compounds (OWCs), and polycyclic aromatic hydrocarbons (PAHs) were determined for selected locations within the Big Darby Creek Basin. Passive samplers designed to mimic the respiratory exposure of aquatic organisms and the bioconcentration of organic contaminants into their fatty tissues were deployed three times annually at three sites within the Big Darby Creek Basin in 2020 and 2021. Analyses were done for 204 pesticide compounds, 38 OWCs, and 33 PAHs. Of the 204 pesticide compounds, 70 were detected in at least one sample; 30 were detected in all samples. Herbicides and herbicide degradates were the pesticides most frequently detected and also had some of the highest concentrations of the pesticides detected in this study. Three herbicides (atrazine, ametryn, and metribuzin) were detected in at least 88 percent of samples and two fungicides (azoxystrobin and propiconazole) were detected in all samples. Of the 38 OWCs, 24 were detected in at least one sample; however, only one ( N , N -diethyltoluamide [DEET]) was detected in all samples. Of the 33 PAHs, 29 were detected in at least one sample; 12 were detected in all samples. A continuous water-quality monitor was operated seasonally on Big Darby Creek above Georgesville, Ohio, from 2020 to 2022. Dissolved oxygen concentrations generally followed a daily cycle, peaking in early evening and troughing around sunrise. There were occasional 24-hour swings in dissolved oxygen concentration that had a range exceeding 10 milligrams per liter. However, dissolved oxygen concentrations never fell below Ohio’s aquatic life criteria for warmwater habitats (outside of mixing zones) of 4.0 milligrams per liter as an instantaneous minimum and 5.0 milligrams per liter as a minimum 24-hour average. The Ohio water-quality criteria for temperatures are 29.4 degrees Celsius as an instantaneous maximum and 27.8 degrees Celsius as a 24-hour average maximum. In 2020, there were 10 days when the maximum instantaneous value for temperature was exceeded and 3 consecutive days when the maximum 24-hour average temperature was exceeded. Streamflow time-series data from three gaging stations within the Big Darby Creek Basin were evaluated for trends in annual flow statistics and daily nonexceedance probabilities over time. In general, the evaluation of streamflow conditions at the Big Darby Creek gage (with 97 years of record) indicated that streamflow changed between water years 1922 and 2021. During that time span, flows in general increased, the number of high-flow pulses became more frequent, and low-flow pulses and extreme low-flow periods became less frequent. The only strong indication of trends over time in annual flow statistics for the relatively short records for the other two gages (on Little Darby Creek, with 25 years of record, and Hellbranch Run, with 29 years of record) was that as time went on, reversals between rising and falling periods became more frequent. The U.S. Geological Survey Ohio Water Microbiology Laboratory developed eDNA qPCR assays to detect Epioblasma rangiana (northern riffleshell mussels), Chimarra obscura (a species of caddisfly), Maccaffertium pulchellum (a species of mayfly), and optimized a preexisting eDNA qPCR assay to detect for Ptychobranchus fasciolaris (kidneyshell mussels). The assays were validated by using environmental sampling methods. Assay sensitivity was established by determining the limits of detection and quantification. Water samples were collected at 12 sites in the Big Darby Creek Basin between 2020 and 2022 and analyzed for eDNA with the qPCR assays developed for this study.

Ohio↗
USGS2014

Chapter A7. Section 7.1. Fecal indicator bacteria

Fecal indicator bacteria are used to assess the microbiological quality of water because, although not typically disease causing, they are correlated with the presence of several waterborne disease-causing organisms. The concentration of indicator bacteria is a measure of water safety for body-contact recreation or for consumption. This report provides information on the equipment, sampling protocols, and identification, enumeration, and calculation procedures that are in standard use by U.S. Geological Survey (USGS) personnel for the collection of data on fecal indicator bacteria. Each chapter of the National Field Manual is published separately and revised periodically. Newly published and revised chapters will be announced on the USGS Home Page on the World Wide Web under 'New Publications of the U.S. Geological Survey.'

Techniques of Water-Resources Investigations↗
USGS2003

Chapter A7. Section 7.2. Fecal Indicator Viruses

More than 100 types of human pathogenic viruses may be present in fecal-contaminated waters. Coliphages are used as indicators of virus-related fecal contamination and of the microbiological quality of waters. This report provides information on the equipment, sampling protocols, and laboratory methods that are in standard use by U.S. Geological Survey (USGS) personnel for the collection of data on fecal indicator viruses. Each chapter of the National Field Manual is published separately and revised periodically. Newly published and revised chapters will be announced on the USGS Home Page on the World Wide Web under 'New Publications of the U.S. Geological Survey.'

Techniques of Water-Resources Investigations↗
USGS1972

Water resources data for Kansas, water year 1971; Part 2, Water quality records

Water-resources data for the 1971 water year for Kansas include records of data for the chemical and physical characteristics of surface and ground water. Data on the quality of surface water (chemical, microbiological, temperature, and sediment) were collected from designated sampling sites at predetermined intervals such as once daily, weekly, monthly, or less frequently. Records are given for 66 sampling stations of which 9 are partial-record stations, and 52 are miscellaneous sites. Records of chemical analyses are given for 46 ground-water sites. Locations of surface water-quality stations are shown in Figure 1, page 2. Records for pertinent water-quality stations in bordering States are also included. The records were collected by the Water Resources Division of the U.S. Geological Survey under the direction of C. W. Lane, district chief. These data represent that portion of the National Water Data System collected by the U.S. Geological Survey and cooperating State and Federal agencies in Kansas. The Geological Survey has published records of chemical quality, suspended sediment, and water temperatures since 1941 in annual series of water-supply papers entitled, "Quality of Surface Waters of the United States." Beginning with the 1964 water year, water-quality records also have been released by the Geological Survey in annual reports on a State-boundary basis. Distribution of these reports is limited; they are designed primarily for rapid release of data shortly after the end of the water year to meet local needs. These records will be published later in Geological Survey water-supply papers.

Kansas↗