Instream Bacteria Influences from Bird Habitation of Bridges

The representativeness of ambient water samples collected from bridge crossings has occasionally been challenged because critics contend birds nesting on bridges elevate fecal indicator bacteria concentrations over samples collected from river reaches not spanned by bridges. This study was designed to evaluate the influence, if any, of bridge‐dwelling bird colonies on instream bacteria concentrations. Three bridges in central Texas were sampled under dry‐weather conditions for instream Escherichia coli. Two bridges were inhabited by migratory cliff swallows and one was devoid of birds. Numerous samples were collected from locations upstream, at the upstream bridgeface, and downstream of each bridge to determine whether significant increases in E. coli occurred in a downstream direction when birds were present. E. coli values increased significantly at bridgeface and downstream locations compared to upstream locations throughout the nesting season. During peak bird activity in May, bacteria geometric mean concentrations at bridgeface and downstream locations jumped from background levels <50 to >190 colony forming units (CFU)/100 mL, well above the state geometric mean criterion of 126 CFU/100 mL for primary contact recreation use. Results confirmed that under dry‐weather conditions bird colonies can have a significant impact on bacteria concentrations in the vicinity of the bridges they inhabit and therefore, to avoid this impact, monitoring should occur upstream of bridges.     

Fate and Transport Modeling of Potential Pathogens: The Contribution From Sediments1

Abstract: Escherichia coli was used as a bacterial tracer for the development, calibration, and validation of a watershed scale fate and transport model to be extended to a suite of reference pathogens (Cryptosporidium, Giardia, Campylobacter, E. coli O157:H7). E. coli densities in water and sediments from the Blackstone River Watershed, Massachusetts, were measured at three sites for a total of five wet weather events and three dry weather events covering three seasons. The confirmed E. coli strains were identified by ribotyping for tracking the sources of E. coli and for determining the association of downstream E. coli isolates with isolates from upstream sediments. A large number of downstream samples were associated with upstream sediment sources of E. coli. E. coli densities ranged from 71 to 6,401 MPN/100 ml in water samples and from 2 to 335 MPN/g in sediments. Pearson correlation analysis revealed significant correlations between E. coli and total coliforms in water (r = 0.777, p < 0.01) and sediments (r = 0.728, p < 0.01). In addition, E. coli concentrations in water were weakly correlated with sediment particle size and sediment concentrations (r = 0.298, p < 0.01). A hydrologic model, WATFLOOD/SPL9, was used to predict the temporal and spatial variation of E. coli in the Blackstone River. The rapid rise of stream E. coli densities was more accurately predicted by the model with the inclusion of sediment resuspension, thus demonstrating the importance of the process.     

ESCHERICHIA COLI SURVIVAL IN MANTLED KARST SPRINGS AND STREAMS,NORTHWEST ARKANSAS OZARKS,USA1

Recent studies indicate fecal coliform bacterial concentrations, including Escherichia coli (E. coli), characteristically vary by several orders of magnitude, depending on the hydrology of storm recharge and discharge. E. coli concentrations in spring water increase rapidly during the rising limb of a storm hydrograph, peak prior to or coincident with the peak of the storm pulse, and decline rapidly, well before the recession of the storm hydrograph. This suggests E. coli are associated with resuspension of sediment during the onset of turbulent flow, and indicates viable bacteria reside within the spring and stream sediments. E. coli inoculated chambers were placed in spring and stream environments within the mantled karst of northwest Arkansas to assess long term (> 75 days) E. coli viability. During the 75‐day study, a 4‐log die‐off of E. coli was observed for chambers placed in the Illinois River, and a 5‐log die‐off for chambers placed in Copperhead Spring. Extrapolation of the regression line for each environment indicates E. coli concentration would reach 1 most probable number (MPN)/100 g sediment at Copperhead Spring in about 105 days, and about 135 days in the Illinois River, based on a starting inoculation of 2.5 × 107 MPN E. coli/100 g of sediment. These in situ observations indicate it is possible for E. coli to survive in these environments for at least four months with no fresh external inputs.     

MICROBIOLOGICAL QUALITY OF PUGET SOUND BASIN STREAMS AND IDENTIFICATION OF CONTAMINANT SOURCES1

ABSTRACT: Fecal coliforms, Escherichia coli, enterococci, and somatic coliphages were detected in samples from 31 sites on streams draining urban and agricultural regions of the Puget Sound Basin Lowlands. Densities of bacteria in 48 and 71 percent of the samples exceeded U.S. Environmental Protection Agency's freshwater recreation criteria for Escherichia coli and enterococci, respectively, and 81 percent exceeded Washington State fecal coliform standards. Male‐specific coliphages were detected in samples from 15 sites. Male‐specific F⁺RNA coliphages isolated from samples taken at South Fork Thornton and Longfellow Creeks were serotyped as Group II, implicating humans as potential contaminant sources. These two sites are located in residential, urban areas. F⁺RNA coliphages in samples from 10 other sites, mostly in agricultural or rural areas, were serotyped as Group I, implicating non‐human animals as likely sources. Chemicals common to wastewater, including fecal sterols, were detected in samples from several urban streams, and also implicate humans, at least in part, as possible sources of fecal bacteria and viruses to the streams.     

Escherichia coli Concentrations in Urban Watersheds Exhibit Diurnal Sag: Implications for Water‐Quality Monitoring and Assessment

The variability of indicator bacteria over a fine resolution time scale on the order of minutes has yet to be fully understood. In this study, we collected more than 700 Escherichia coli samples at a 10‐ and 30‐min resolution in an urban watershed in Houston. A Bacteria Diurnal Sag (BDS) marked with daytime exponential decay followed by an exponential nighttime regeneration was observed. This pattern was observed during all sampled events but varied depending on other variables. The concentrations during a 24‐h period varied 1 to 5 orders of magnitude and the fecal load was at least 10 times lower than what would be obtained using a single morning E. coli measurement, the typical sampling scheme in most monitoring programs. Decay rates, ranging from 3.67 to 24.7/day, decreased E. coli concentrations to below the water‐quality standards from 14:00 to 18:00 h and were strongly influenced by water temperatures and solar radiation intensities. Rapid regeneration occurred on the order of 9.41 to 64.1/day allowing E. coli concentrations to return to their pre‐decay levels. The data indicated that four to six samples taken between 06:00 and 18:00 h may be sufficient to define the BDS depending on stream conditions, and that a threshold concentration of approximately 100 MPN/dl (most probable number in a deciliter) existed for the studied urban watershed. These findings have significant implications for water‐quality monitoring, regulation, and compliance.     

DIE‐OFF OF PATHOGENIC E. COLI O157:H7 IN SEWAGE CONTAMINATED WATERS1

E. coli O157:H7 is a pathogen that can be present in sewage contaminated waters. This organism poses a health risk for humans who come in contact with these waters via drinking, swimming, or shellfish consumption. A risk assessment model is needed to evaluate or quantify this risk. One possibility is the use of a computer model to simulate the fate and transport of E. coli O157:H7 downstream from a discharge point [e.g., a separate sanitary sewer overflow (SSO)]. However, this computer model would require input data regarding characteristics of this organism, which have not been previously available. One necessary input parameter is the rate at which die off of this organism occurs in a stream or river environment. Several studies were conducted to evaluate the die‐off rate of E. coli O157:H7 in an SSO impacted stream. Indicator bacteria (total coliforms, E. coli, and enterococci) were evaluated simultaneously. The results suggest that E. coli O157:H7 is not persistent — decay rates are high relative to the indicator bacteria. However, the decay plots suggest a biphasic response: initial decay is rapid, followed by an attenuated, slower decay. Hence traditional simulation methods using a single, first‐order decay rate may be inaccurate.     

Predicting the Fate and Transport of E. coli in Two Texas River Basins Using a Spatially Referenced Regression Model1

Abstract: The two main rivers of southeast Texas: Guadalupe and San Antonio have shown high temporal increase in bacteria concentration during the last decade. The SPAtially Referenced Regression On Watershed (SPARROW) attributes model, developed by the U.S. Geological Survey (USGS), has been applied to predict the fluxes and concentrations of contaminants in unmonitored streams and to identify the sources of these contaminants. This model identifies every reach as a basic network unit to distribute the sources, delivery, and attenuation factors. The model is data intensive and implements nonlinear regression to solve the parsimonious relations for describing various watershed processes. This study explored watershed and hydrological characteristics (land uses, precipitation, human and animal population, point sources, areal hydraulic load and drainage density, etc.) as the probable sources and delivery mechanisms of waterborne pathogens and their indicator (Escherichia coli [E. coli]) in the Guadalupe and San Antonio River basins. The effect of using various statistical indices for model selection on the final model’s ability to explain the various E. coli sources and transport processes was also analyzed.     

Release,Dispersion, and Resuspension of Escherichia coli From Direct Fecal Deposits Under Controlled Flows1

Abstract: Water‐quality standards have been placed on fecal indicator organisms such as Escherichia coli in an attempt to limit the concentrations in water bodies. Cattle can be a significant source of bacteria to water systems, particularly when they are allowed direct access to streams. A flume study was conducted to quantify the effect and understand the transport of E. coli from directly deposited cattle manure. Five steady‐state flows, ranging from 0.00683 to 0.0176 m³/s, were studied and loads from a single cowpie exceeded the U.S. Environmental Protection Agency’s recommended water‐quality standards (235 CFU/100 ml) at each flow over the hour study period. Average E. coli concentrations ranged from 10² to 10⁵ CFU/100 ml over the hour sampling period for all flows. High spatial variations in E. coli concentrations were often seen at each sampling time, with higher concentrations typically at the bottom of the flume. E. coli resuspension was initially greater at 0.5 min after deposition, for the lowest flow (10⁵ CFU/m²/s); however, resuspension rates became similar over time, on the order of 10³ CFU/m²/s. This study demonstrates that the concentrations of E. coli can vary over the water column, and therefore grab samples may inaccurately measure bacteria concentrations and loads in streams. In addition, resuspension rates were often high, so the incorporation of this process into water‐quality models is important for bacteria prediction.     

Effects of Stock Use and Backpackers on Water Quality in Wilderness in Sequoia and Kings Canyon National Parks, USA

During 2010–2011, a study was conducted in Sequoia and Kings Canyon National Parks (SEKI) to evaluate the influence of pack animals (stock) and backpackers on water quality in wilderness lakes and streams. The study had three main components: (1) a synoptic survey of water quality in wilderness areas of the parks, (2) paired water quality sampling above and below several areas with differing types and amounts of visitor use, and (3) intensive monitoring at six sites to document temporal variations in water quality. Data from the synoptic water quality survey indicated that wilderness lakes and streams are dilute and have low nutrient and Escherichia coli concentrations. The synoptic survey sites were categorized as minimal use, backpacker-use, or mixed use (stock and backpackers), depending on the most prevalent type of use upstream from the sampling locations. Sites with mixed use tended to have higher concentrations of most constituents (including E. coli) than those categorized as minimal-use (P ≤ 0.05); concentrations at backpacker-use sites were intermediate. Data from paired-site sampling indicated that E. coli, total coliform, and particulate phosphorus concentrations were greater in streams downstream from mixed-use areas than upstream from those areas (P ≤ 0.05). Paired-site data also indicated few statistically significant differences in nutrient, E. coli, or total coliform concentrations in streams upstream and downstream from backpacker-use areas. The intensive-monitoring data indicated that nutrient and E. coli concentrations normally were low, except during storms, when notable increases in concentrations of E. coli, nutrients, dissolved organic carbon, and turbidity occurred. In summary, results from this study indicate that water quality in SEKI wilderness generally is good, except during storms; and visitor use appears to have a small, but statistically significant influence on stream water quality.     

FECAL‐INDICATOR BACTERIA IN STREAMS ALONG A GRADIENT OF RESIDENTIAL DEVELOPMENT1

ABSTRACT: Fecal‐indicator bacteria were sampled at 14 stream sites in Anchorage, Alaska, USA, as part of a study to determine the effects of urbanization on water quality. Population density in the subbasins sampled ranged from zero to 1,750 persons per square kilometer. Higher concentrations of fecal‐coliform, E. coli, and enterococci bacteria were measured at the most urbanized sites. Although fecal‐indicator bacteria concentrations were higher in summer than in winter, seasonal differences in bacteria concentrations generally were not significant. Areas served by sewer systems had significantly higher fecal‐indicator bacteria concentrations than did areas served by septic systems. The areas served by sewer systems also had storm drains that discharged directly to the streams, whereas storm sewers were not present in the areas served by septic systems. Fecal‐indicator bacteria concentrations were highly variable over a two‐day period of stable streamflow, which may have implications for testing of compliance to water‐quality standards.     

Persistence and Microbial Source Tracking of Escherichia coli at a Swimming Beach at Lake of the Ozarks State Park,Missouri

The Missouri Department of Natural Resources (MDNR) has closed or posted advisories at public beaches at Lake of the Ozarks State Park in Missouri because of Escherichia coli (E. coli) concentration exceedances in recent years. Spatial and temporal patterns of E. coli concentrations, microbial source tracking, novel sampling techniques, and beach‐use patterns were studied during the 2012 recreational season to identify possible sources, origins, and occurrence of E. coli contamination at Grand Glaize Beach (GGB). Results indicate an important source of E. coli contamination at GGB was E. coli released into the water column by bathers resuspending avian‐contaminated sediments, especially during high‐use days early in the recreational season. Escherichia coli concentrations in water, sediment, and resuspended sediment samples all decreased throughout the recreational season likely because of decreasing lake levels resulting in sampling locations receding away from the initial spring shoreline as well as natural decay and physical transport out of the cove. Weekly MDNR beach monitoring, based solely on E. coli concentrations, at GGB during this study inaccurately predicted E. coli exceedances, especially on weekends and holidays. Interestingly, E. coli of human origin were measured at concentrations indicative of raw sewage in runoff from an excavation of a nearby abandoned septic tank that had not been used for nearly two years.     

Assessing the Impacts of E. coli Laden Streambed Sediment on E. coli Loads over a Range of Flows and Sediment Characteristics

Understanding sediment Escherichia coli levels (i.e., pathogen indicators) and their contribution to the water column during resuspension is critical for predicting in‐stream E. coli levels and the potential risk to human health. The U.S. Environmental Protection Agency's current water quality testing strategies, however, rely on water borne E. coli concentrations to assess stream E. coli levels and identify impaired waters. In this work, we conducted a scenario analysis using a range of flows, sediment/water bacteria fractions, and particle sizes to which E. coli attach to assess the impact of E. coli in streambed sediments on water column E. coli levels. We used simple sediment transport theory to calculate the potential total E. coli concentrations in a stream with and without the resuspension process. Results clearly indicate that inclusion of resuspending sediment attached E. coli is necessary for watershed assessments and data on sediment attached E. coli concentrations is much needed. When neglecting the streambed sediment E. coli concentrations, the model predicted average E. coli loads of 10⁷ Colony Forming Units (CFU)/s; however, when streambed sediment E. coli concentrations were included in the model, the predictions ranged from 10¹⁰ to 10¹⁴ CFU/s. To evaluate the predictions, E. coli data in the streambed sediment and the water column were monitored in Squaw Creek, Iowa. Comparisons between measured and predicted E. coli loads yielded an R²‐value of 0.85.     

Investigating the Fate and Transport of Escherichia coli in the Charles River,Boston, Using High‐Resolution Observation and Modeling1

Abstract: The processes affecting the fate and transport of Escherichia coli in surface waters were investigated using high‐resolution observation and modeling. The concentration patterns in Boston’s Charles River were observed during four sampling events with a total of 757 samples, including two spatial surveys with two along‐river (1,500 m length) and three across‐river (600 m length) transects at approximately 25‐m intervals, and two temporal surveys at a fixed location (Community Boating) over seven days at hourly intervals. The data reveal significant spatial and temporal structure at scales not resolved by typical monitoring programs. A mechanistic, time‐variable, three‐dimensional coupled hydrodynamic and water quality model was developed using the ECOMSED and RCA modeling frameworks. The computational grid consists of 3,066 grid cells with average length dimension of 25 m. Forcing functions include upstream and downstream boundary conditions, Stony Brook, and Muddy River (major tributaries) combined sewer overflow (CSO) and non‐CSO discharge and wind. The model generally reproduces the observed spatial and temporal patterns. This includes the presence and absence of a plume in the study area under similar loading, but different hydrodynamic conditions caused by operation of the New Charles River Dam (downstream) and wind. The model also correctly predicts an episode of high concentrations at the time‐series station following seven days of no rainfall. The model has an overall root mean square error (RMSE) of 250 CFU/100 ml and an error rate (above or below the USEPA‐recommended single sample criteria value of 235 CFU/100 ml) of 9.4%. At the time series station, the model has an RMSE of 370 CFU/100 ml and an error rate of 15%.     

ACCOMMODATING CHANGE OF BACTERIAL INDICATORS IN LONG TERM WATER QUALITY DATASETS1

ABSTRACT: In 1996, the State of Oregon adopted a water quality standard based on Escherichia coli (E. coli), recognizing E. coli as an indicator of pathogenic potential. The Oregon Department of Environmental Quality (DEQ) began analysis for E. coli that same year. The Oregon DEQ continued collection and analysis of fecal coliform (a prior indicator organism) for data input to bacterial loading models and the Oregon Water Quality Index (OWQI). The OWQI is a primary indicator of general water quality for the Oregon DEQ and the Oregon Progress Board. The objective of this study was to develop a regression relationship between fecal coliform and E. coli. This relationship would fill data gaps and extend water quality models and indicators. Water quality policy is better informed by the ability of these extended water quality models to determine whether water quality meets present or would have met past bacterial standards. Monitoring resources spent on dual bacterial analyses could be conserved. This study also showed that changes to OWQI values (as a result of changing bacterial indicators) were minimal, and corresponded to improved characterization of water quality with respect to pathogenic potential.     

Assessment of Endocrine‐Disrupting Chemicals Attenuation in a Coastal Plain Stream Prior to Wastewater Treatment Plant Closure

The U.S. Geological Survey is conducting a combined pre/post‐closure assessment at a long‐term wastewater treatment plant (WWTP) site at Fort Gordon near Augusta, Georgia. Here, we assess select endocrine‐active chemicals and benthic macroinvertebrate community structure prior to closure of the WWTP. Substantial downstream transport and limited instream attenuation of endocrine‐disrupting chemicals (EDCs) was observed in Spirit Creek over a 2.2‐km stream segment downstream of the WWTP outfall. A modest decline (less than 20% in all cases) in surface water detections was observed with increasing distance downstream of the WWTP and attributed to partitioning to the sediment. Estrogens detected in surface water in this study included estrone (E1), 17β‐estradiol (E2), and estriol (E3). The 5 ng/l and higher mean estrogen concentrations observed in downstream locations indicated that the potential for endocrine disruption was substantial. Concentrations of alkylphenol ethoxylate (APE) metabolite EDCs also remained statistically elevated above levels observed at the upstream control site. Wastewater‐derived pharmaceutical and APE metabolites were detected in the outflow of Spirit Lake, indicating the potential for EDC transport to aquatic ecosystems downstream of Fort Gordon. The results indicate substantial EDC occurrence, downstream transport, and persistence under continuous supply conditions and provide a baseline for a rare evaluation of ecosystem response to WWTP closure.     

Population Dynamics of Escherichia coli in Surface Water1

Bucci, Vanni, Marin Vuli?, Xiaodan Ruan, and Ferdi L. Hellweger, 2011. Population Dynamics of Escherichia coli in Surface Water. Journal of the American Water Resources Association (JAWRA) 47(3):611‐619. DOI: 10.1111/j.1752‐1688.2011.00528.x Abstract: Present models of the fate of enteric bacteria in surface water usually assume simple first‐order decay. However, observed decay kinetics are typically biphasic and there is increasing evidence for growth in the ambient environment. These features are similar to the stationary phase of long‐term batch cultures, where the dynamics are the result of repeated cycles of population takeovers by Growth Advantage in Stationary Phase (GASP) mutants able to scavenge nutrients released from dead cells. We investigated the possible role of this mechanism (i.e., growth of an adapted subpopulation) in surface water using laboratory experiments with various strains of Escherichia coli in different types of water. Addition of ampicillin (which only kills dividing cells) to these cultures caused a decrease in the total cell density, demonstrating the presence of a growing subpopulation. Furthermore, long‐term survivors from surface water cultures outcompete naïve cells and take over the population in surface water. This growth advantage is heritable (i.e., aged strains were isolated from a single cell) and consistent with the GASP mechanism, although the responsible loci were not identified. Our results show that E. coli populations in surface water are dynamic and consist of dying naïve cells and growing surface water adapted cells. These results can explain the apparent biphasic decay pattern observed in laboratory experiments. This mechanism may also be important in the ambient environment.     

Tributary Plunging in an Urban Lake (Onondaga Lake): Drivers,Signatures, and Implications1

Abstract: A combination of long‐term fixed‐frequency and robotic monitoring information for a polluted urban lake, Onondaga Lake, New York, and two of its tributaries is used to resolve the propensity for, and occurrences of, tributary plunging. Cooler temperatures (T) and higher salinity (S) are primarily responsible for the elevated density and plunging of one of these polluted streams for the summer through early fall interval. In‐lake transport of this plunging tributary, which receives inputs from combined sewer overflows (CSOs), is tracked by its high S during dry weather, its high turbidity (T_n) with associated lower S (dilution with rainwater) following runoff events, and by its characteristic ionic composition. These signatures are documented extending from the creek mouth, through a connecting navigation channel, through the inflow zone of the lake, and into metalimnetic depths of pelagic portions of the lake. The entry of this polluted tributary below the depth interval(s) of primary production and contact recreation has important implications for the ongoing major rehabilitation program for this lake. The plunging phenomenon diminishes the benefits previously expected for related features of the lake’s water quality from ongoing management efforts to abate CSO inputs and reduce nonpoint nutrient loading from the tributary. Previously this tributary tended to instead enter the upper layers of the lake during the operation of an adjoining soda ash manufacturing facility (closure in 1986), as a result of high lake S caused by the industry’s ionic waste discharge.     

Estimating Potential E. coli Sources in a Watershed Using Spatially Explicit Modeling Techniques1

Riebschleager, K.J., R. Karthikeyan, R. Srinivasan, and K. McKee, 2012. Estimating Potential E. coli Sources in a Watershed Using Spatially Explicit Modeling Techniques. Journal of the American Water Resources Association (JAWRA) 48(4): 745‐761. DOI: 10.1111/j.1752‐1688.2012.00649.x Abstract: The Spatially Explicit Load Enrichment Calculation Tool (SELECT) was automated to characterize waste and the associated pathogens from various sources within a mixed land use watershed. Potential Escherichia coli loads in Lake Granbury watershed were estimated using spatially variable governing factors, such as land use, soil condition, and distance to streams. A new approach for characterizing E. coli loads resulting from malfunctioning on‐site wastewater treatment systems (OWTSs) was incorporated into SELECT along with the Pollutant Connectivity Factor (PCF) module. The PCF component was applied to identify areas contributing E. coli loads during runoff events by incorporating the influence of potential E. coli loading, runoff potential, and travel distance to waterbodies. Simulation results indicated livestock and wildlife are potential E. coli contributing sources in the watershed. The areas in which these sources are potentially contributing are not currently monitored for E. coli. The bacterial water quality violations seen around Lake Granbury are most likely the result of malfunctioning OWTSs and pet wastes. SELECT results demonstrate the need to evaluate each contributing source separately to effectively allocate site specific best management practices (BMPs) utilizing stakeholder inputs. It also serves as a powerful screening tool for determining areas where detailed investigation is merited.     

Prairie strips reduce fecal indicator bacteria concentrations in simulated runoff

Vegetative filter strips (VFS) have shown promising results in reducing the downstream transport of many agroecosystem contaminants. A recently developed type of VFS, prairie strips, has been shown to significantly reduce the impact of corn and soybean production systems on water quality in terms of sediment, nitrogen, and phosphorus losses. This study assessed potential additional benefits of prairie strips to include the reduction of pathogens. To assess the impact of prairie strips on manure-laden agricultural runoff, we utilized a physical model of prairie strips in a laboratory flume to conduct highly controlled overland flow experiments. Escherichia coli and Enterococcus concentration reductions of up to 45% and 65% were observed for runoff and infiltration flows, respectively, while mass load reductions of up to 65% were observed for surficial runoff flows. The degree of concentration or mass load reductions was dependent on the residence time of the flow within the strip and the partitioning of overland flow running onto the strip to infiltration and runoff flows. Based on our results and a review of the literature, we developed a design method to provide guidance on the width of prairie strip buffer needed to achieve a user-defined reduction of fecal bacteria concentration.     

Predicting Streambed Sediment and Water Column Escherichia coli Levels at Watershed Scale

A sub‐model for the Soil and Water Assessment Tool (SWAT) is developed to predict Escherichia coli levels in the streambed sediment as well as in the water column. New formulations to estimate the levels of E. coli in streambed sediment and the water column are derived. These equations include calculations of E. coli resuspension from the streambed sediment to the water column, E. coli deposition from the water column to the streambed sediment, E. coli growth in the streambed sediment and the water column, and instream E. coli routing. These formulations were programmed in FORTRAN and integrated into SWAT. The modified SWAT model was applied to Squaw Creek Watershed, Iowa, to predict E. coli levels in the stream. Escherichia coli concentrations in the streambed sediment and the water column were monitored extensively in this watershed, and observations were used to verify the model predictions. The model proposed here can predict E. coli concentrations in streambed sediment as well as in the water column. Approximately 58% of the predictions of E. coli levels in the bed sediment were within 1 order of magnitude from the observed value, and in the water column 83% of the predictions of E. coli levels were within 1 order of magnitude. Results suggest that the proposed model will help predictions of instream bacterial contamination.