Source tracking using microbial community fingerprints: Method comparison with hydrodynamic modelling

McCarthy, David Thomas; Jovanović, Dušan; Lintern, Anna; Teakle, Ian; Barnes, Matthew; Deletić, Ana; Coleman, Rhys A.; Rooney, Graham; Prosser, Toby; Coutts, Scott; Hipsey, Matthew R.; Bruce, Louise; Henry, Rebekah

doi:10.1016/j.watres.2016.11.043

Cited by 57 publications

(31 citation statements)

References 66 publications

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“…Both computational and in vitro experiments were performed to test the accuracy of the qualitative and quantitative predictions generated by SourceTracker, and a previous study found that source predictions for fecal pollution from sources present at high abundance were relatively accurate (Henry et al, 2016). The calculation of the relative standard deviation (RSD) among several runs has been used as a gauge by which to measure confidence (Brown et al, 2017;Henry et al, 2016;McCarthy et al, 2017).…”

Section: Sourcetrackermentioning

confidence: 99%

Fecal pollution: new trends and challenges in microbial source tracking using next‐generation sequencing

Unno

Staley

Brown

et al. 2018

Environmental Microbiology

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In this minireview, we expand upon traditional microbial source tracking (MST) methods by discussing two recently developed, next-generation-sequencing (NGS)-based MST approaches to identify sources of fecal pollution in recreational waters. One method defines operational taxonomic units (OTUs) that are specific to a fecal source, e.g., humans and animals or shared among multiple fecal sources to determine the magnitude and likely source association of fecal pollution. The other method uses SourceTracker, a program using a Bayesian algorithm, to determine which OTUs have contributed to an environmental community based on the composition of microbial communities in multiple fecal sources. Contemporary NGS-based MST tools offer a promising avenue to rapidly characterize fecal source contributions for water monitoring and remediation efforts at a broader and more efficient scale than previous molecular MST methods. However, both NGS methods require optimized sequence processing methodologies (e.g. quality filtering and clustering algorithms) and are influenced by primer selection for amplicon sequencing. Therefore, care must be taken when extrapolating data or combining datasets. Furthermore, traditional limitations of library-dependent MST methods, including differential decay of source material in environmental waters and spatiotemporal variation in source communities, remain to be fully understood. Nevertheless, increasing use of these methods, as well as expanding fecal taxon libraries representative of source communities, will help improve the accuracy of these methods and provide promising tools for future MST investigations.

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Section: Sourcetrackermentioning

confidence: 99%

Fecal pollution: new trends and challenges in microbial source tracking using next‐generation sequencing

Unno

Staley

Brown

et al. 2018

Environmental Microbiology

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“…The SourceTracker algorithm has been shown to be more accurate than random forest analysis, or naive Bayesian classification (Knights et al, 2011). SourceTracker has been used to determine contamination sources in the Russian River (Dubinsky et al, 2016), ATM keypads (Bik et al, 2016), recreational beaches in Australia (Ahmed et al, 2015; Brown et al, 2017; Henry et al, 2016; McCarthy et al, 2017), lakes in St. Paul, Minnesota (Brown et al, 2019), and the upper Mississippi River (Staley et al, 2015, 2014).…”

Section: Introductionmentioning

confidence: 99%

Microbial Source Tracking in the Love Creek Watershed, Delaware (USA)

Main

Tyler

Lopez³

et al. 2020

Preprint

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Fecal contamination of waterways in Delaware pose an ongoing problem for environmental and public health. For monitoring efforts, Enterococcus has been widely adopted by the state to indicate the presence of fecal matter from warm-blooded animals and to establish Primary and Secondary Contact Recreation criteria. In this study, we examined sites within the Love Creek watershed, a tributary of the Rehoboth bay, using next-generation sequencing and SourceTracker to determine sources of potential fecal contamination and compared to bacterial communities to chemical and nutrient concentrations. Microbial community from fecal samples of 10 different types of animals and 1 human sample were used to generate a fecal library for community-based microbial source tracking. Orthophosphate and total dissolved solids were among the major factors associated with community composition. SourceTracker analysis of the monthly samples from the Love Creek watershed indicated the majority of the microbial community were attributed to “unknown” sources, i.e. wildlife. Those that attribute to known sources were primarily domestic animals, i.e. cat and dog. These results suggest that at the state level these methods are capable of giving the start for source tracking as a means to understanding bacterial contamination.

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“…There is increasing reliance on models and forecasts for planning and decision-making for effective management of drinking water facilities [38][39][40]. Among the variety of models, properly calibrated hydrodynamic and water quality models provide reliable means of tracking primary sources of microbial contamination in drinking water sources [41][42][43]. In addition, these models can describe the transport of contaminants within watershed and their fate once in the waterbody [44][45][46][47].…”

Section: Introductionmentioning

confidence: 99%

Impact of Climate Forecasts on the Microbial Quality of a Drinking Water Source in Norway Using Hydrodynamic Modeling

Hadi

Longva

Seidu

2019

Water

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This study applies hydrodynamic and water quality modeling to evaluate the potential effects of local climate projections on the mixing conditions in Lake Brusdalsvatnet in Norway and the implications on the occurrence of Escherichia coli (E. coli) at the raw water intake point of the Ålesund water treatment plant in the future. The study is mainly based on observed and projected temperature, the number of E. coli in the tributaries of the lake and projected flow. The results indicate a gradual rise in the temperature of water at the intake point from the base year 2017 to year 2075. In the future, vertical circulations in spring may occur earlier while autumn circulation may start later than currently observed in the lake. The number of E. coli at the intake point of the lake is expected to marginally increase in future. By the year 2075, the models predict an approximately three-fold increase in average E. coli numbers for the spring and autumn seasons compared to current levels. The results are expected to provide the water supply system managers of Ålesund with the information necessary for long-term planning and decisions in the protection of the drinking water source. The method used here can also be applied to similar drinking water sources in Norway for developing effective risk management strategies within their catchments.

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Source tracking using microbial community fingerprints: Method comparison with hydrodynamic modelling

Cited by 57 publications

References 66 publications

Fecal pollution: new trends and challenges in microbial source tracking using next‐generation sequencing

Fecal pollution: new trends and challenges in microbial source tracking using next‐generation sequencing

Microbial Source Tracking in the Love Creek Watershed, Delaware (USA)

Impact of Climate Forecasts on the Microbial Quality of a Drinking Water Source in Norway Using Hydrodynamic Modeling

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