High-throughput wastewater analysis for substance use assessment in central New York during the COVID-19 pandemic

Wang, Shiru; Green, Hyatt; Wilder, Maxwell L.; Du, Qian; Kmush, Brittany L.; Collins, Mary B.; Larsen, David A.; Zeng, Teng

doi:10.1039/d0em00377h

Cited by 34 publications

(34 citation statements)

References 115 publications

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“…Twenty-four-hour composite influent wastewater samples (110 mL – 1.9 L) were collected from 28 different access points in combined sewage networks across Upstate New York in Onondaga, Cayuga, Cortland, Tompkins, Oswego, and Warren Counties ( Table 1 , Figure S1). Information on the age of wastewater in these systems was only available for six Onondaga County access points (Table S1), where mean transit time ranged from 1.2 to 4.4 hours ( Wang et al. 2020 ).…”

Section: Methodsmentioning

confidence: 99%

“…Conditional inference trees (CTrees) were developed using the partykit (version 1.2-10) package in R (version 1.2.5019) as done previously ( Weller et al., 2020 , WHO Coronavirus Disease (COVID-19) Dashboard [WWW Document] n.d , Wölfel et al., 2020 ) to assess the effects of service area size, average influent temperature, and pH on crAssphage DNA and RNA concentrations (R code available at https://github.com/Maxwell-Wilder/Co-quantification-of-crAssphage-increases-confidence-in-wastewater-based-epidemiology-for-SARS-CoV-2 ). Transit times were also used a predictor variable, but only for sites 601, 604, 605, 606, 617, and 619 as available ( Wang et al., 2020 ).…”

Section: Methodsmentioning

confidence: 99%

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Co-quantification of crAssphage increases confidence in wastewater-based epidemiology for SARS-CoV-2 in low prevalence areas

et al. 2021

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Wastewater surveillance of SARS-CoV-2 RNA is increasingly being incorporated into public health efforts to respond to the COVID-19 pandemic. In order to obtain the maximum benefit from these efforts, approaches to wastewater monitoring need to be rapid, sensitive, and relatable to relevant epidemiological parameters. In this study, we present an ultracentrifugation-based method for the concentration of SARS-CoV-2 wastewater RNA and use crAssphage, a bacteriophage specific to the human gut, to help account for RNA loss during transit in the wastewater system and sample processing. With these methods, we were able to detect, and sometimes quantify, SARS-CoV-2 RNA from 20 mL wastewater samples within as little as 4.5 hours. Using known concentrations of bovine coronavirus RNA and deactivated SARS-CoV-2, we estimate recovery rates of approximately 7-12% of viral RNA using our method. Results from 24 sewersheds across Upstate New York during the spring and summer of 2020 suggested that stronger signals of SARS-CoV-2 RNA from wastewater may be indicative of greater COVID-19 incidence in the represented service area approximately one week in advance. SARS-CoV-2 wastewater RNA was quantifiable in some service areas with daily positives tests of less than 1 per 10,000 people or when weekly positive test rates within a sewershed were as low as 1.7%. crAssphage DNA concentrations were significantly lower during periods of high flow in almost all areas studied. After accounting for flow rate and population served, crAssphage levels per capita were estimated to be about 1.35 × 10 11 and 2.42 × 10 8 genome copies per day for DNA and RNA, respectively. A negative relationship between per capita crAssphage RNA and service area size was also observed likely reflecting degradation of RNA over long transit times. Our results reinforce the potential for wastewater surveillance to be used as a tool to supplement understanding of infectious disease transmission obtained by traditional testing and highlight the potential for crAssphage co-detection to improve interpretations of wastewater surveillance data.

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Section: Methodsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

Co-quantification of crAssphage increases confidence in wastewater-based epidemiology for SARS-CoV-2 in low prevalence areas

et al. 2021

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“…human excretion), and catchment population, the catchment-level prevalence can be estimated. To date, the existence of SARS-CoV-2 virus RNA in wastewater have been confirmed in many countries, including, Australia [8] , [9] , Brazil [10] , China [11] , [12] , Czech Republic [13] , Ecuador [14] , France [15] , [16] , India [17] , [18] , Italy [19] , [20] , [21] , [22] , Japan [23] , Spain [24] , [25] , the Netherlands [7] , United Kingdom (UK) [26] , Slovenia [27] , Sweden [28] , United Arab Emirates (UAE) [29] , [30] and United States (USA) [31] , [32] , [33] , [34] , [35] . The successful detection of SARS-CoV-2 virus RNA through reverse transcription-quantitative polymerase chain reaction (RT-qPCR) and sequencing approaches in wastewater demonstrated the high potential of applying WBE as a tool to estimate the COVID-19 prevalence in their communities.…”

Section: Introductionmentioning

confidence: 99%

Uncertainties in estimating SARS-CoV-2 prevalence by wastewater-based epidemiology

Zhang

Shi

et al. 2021

Chemical Engineering Journal

173

139

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“…Indeed, wastewater-based epidemiology approach has already been used to follow disease outbreak, as previously demonstrated for enteric viruses, such as poliovirus or hepatitis virus (Asghar et al, 2014;Hellmér et al, 2014) and could also been used to monitor SARS-CoV-2 clusters (Carducci et al, 2020;Randazzo et al, 2020). Detection of SARS-CoV-2 RNA in wastewater samples has already been reported in many countries (Ahmed et al, 2020;Albastaki et al, 2020;Alpaslan Kocamemi et al, 2020;Bar Or et al, 2020;Haramoto et al, 2020;Hasan et al, 2020;La Rosa et al, 2020;Medema et al, 2020;Randazzo et al, 2020;Wang et al, 2020;Wu et al, 2020;Wurtzer et al, 2020).…”

Section: Introductionmentioning

confidence: 95%

Viral RNA in City Wastewater as a Key Indicator of COVID-19 Recrudescence and Containment Measures Effectiveness

Wurtz

Lacoste²,

Jardot

et al. 2021

Front. Microbiol.

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In recent years, and more specifically at the beginning of the COVID-19 crisis, wastewater surveillance has been proposed as a tool to monitor the epidemiology of human viral infections. In the present work, from July to December 2020, the number of copies of SARS-CoV-2 RNA in Marseille’s wastewater was correlated with the number of new positive cases diagnosed in our Institute of Infectious Disease, which tested about 20% of the city’s population. Number of positive cases and number of copies of SARS-CoV-2 RNA in wastewater were significantly correlated (p = 0.013). During the great epidemic peak, from October to December 2020, the curves of virus in the sewers and the curves of positive diagnoses were perfectly superposed. During the summer period, the superposition of curves was less evident as subject to many confounding factors that were discussed. We also tried to correlate the effect of viral circulation in wastewater with containment measures, probably the most unbiased correlation on their potential inflection effect of epidemic curves. Not only is this correlation not obvious, but it also clearly appears that the drop in cases as well as the drop in the viral load in the sewers occur before the containment measures. In fact, this suggests that there are factors that initiate the end of the epidemic peak independently of the containment measure. These factors will therefore need to be explored more deeply in the future.

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High-throughput wastewater analysis for substance use assessment in central New York during the COVID-19 pandemic

Abstract: Wastewater entering sewer networks represents a unique source of pooled epidemiological information. In this study, we coupled online solid-phase extraction with liquid chromatography-high resolution mass spectrometry to achieve high-throughput analysis...

Cited by 34 publications

References 115 publications

Co-quantification of crAssphage increases confidence in wastewater-based epidemiology for SARS-CoV-2 in low prevalence areas

Co-quantification of crAssphage increases confidence in wastewater-based epidemiology for SARS-CoV-2 in low prevalence areas

Uncertainties in estimating SARS-CoV-2 prevalence by wastewater-based epidemiology

Viral RNA in City Wastewater as a Key Indicator of COVID-19 Recrudescence and Containment Measures Effectiveness

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