Emergence of SARS-CoV-2 Alpha lineage and its correlation with quantitative wastewater-based epidemiology data

Radu, Elena; Masseron, Amandine; Amman, Fabian; Schedl, Anna; Agerer, Benedikt; Endler, Lukas; Penz, Thomas; Bock, Christoph; Bergthaler, Andréas; Vierheilig, Julia; Hufnagl, Peter; Korschineck, Irina; Krampe, Jörg; Kreuzinger, Norbert

doi:10.1016/j.watres.2022.118257

Cited by 18 publications

(12 citation statements)

References 48 publications

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“…Initially, PCR-based approaches were applied to detect viral RNA in the sewage [24][25][26][27][28][29] . Deduced virus titres were shown to robustly reflect prevalence rates in the catchments [30][31][32] and empower forecasts of infection dynamics for the near future 33 . The successful sequencing of SARS-CoV-2 genomes from WW was reported 34,35 and used to detect regional occurrence of selected virus variants based on the presence of characteristic mutations 25,26,29,[34][35][36][37][38][39][40][41][42][43][44][45][46] .…”

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confidence: 98%

Viral variant-resolved wastewater surveillance of SARS-CoV-2 at national scale

et al. 2022

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SARS-CoV-2 surveillance by wastewater-based epidemiology is poised to provide a complementary approach to sequencing individual cases. However, robust quantification of variants and de novo detection of emerging variants remains challenging for existing strategies. We deep sequenced 3,413 wastewater samples representing 94 municipal catchments, covering >59% of the population of Austria, from December 2020 to February 2022. Our system of variant quantification in sewage pipeline designed for robustness (termed VaQuERo) enabled us to deduce the spatiotemporal abundance of predefined variants from complex wastewater samples. These results were validated against epidemiological records of >311,000 individual cases. Furthermore, we describe elevated viral genetic diversity during the Delta variant period, provide a framework to predict emerging variants and measure the reproductive advantage of variants of concern by calculating variant-specific reproduction numbers from wastewater. Together, this study demonstrates the power of national-scale WBE to support public health and promises particular value for countries without extensive individual monitoring.

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confidence: 98%

Viral variant-resolved wastewater surveillance of SARS-CoV-2 at national scale

et al. 2022

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“…In recent publications, other normalization parameters than the ones considered here (PMMoV, CrAssphage, electrical conductivity, flow) were investigated. Informed by previous WBE studies, ammonia ,, and total nitrogen were applied for normalization but not compared to other parameters. Comparing the correlation between normalized SARS-CoV-2 wastewater data and clinical prevalence data, Xie et al found lower correlations for ammonia than for acesulfame K; however, Pearson’s r in this study was generally moderate (max.…”

Section: Resultsmentioning

confidence: 99%

“…However, in order to serve as a suitable method to inform public health authorities, the reliability of the SARS-CoV-2 biomarker concentrations from wastewater has to be assured as precipitation, industrial and household dischargers, as well as groundwater infiltration do affect wastewater composition and measured SARS-CoV-2 concentrations. − Besides data-smoothing algorithms, the main approach to address these dynamic dilution effects in urban wastewater is adjusting SARS-CoV-2 biomarker data with a normalization parameter. For instance, multiplying the gene concentrations with the wastewater flow in order to obtain gene loads has been frequently applied, leading to mixed results. ,,− Furthermore, common wastewater parameters such as ammonia, , total nitrogen, and orthophosphate have been used for normalization, although they are susceptible to industrial discharge . Further promising candidates for SARS-CoV-2 biomarker normalization are the pepper mild mottle virus (PMMoV), a plant virus that enters the human body through the diet, and the cross-assembly phage (CrAssphage), a bacteriophage found in the human gut, that are abundant in and closely linked to human feces. − Both surrogate viruses have been tested for normalization purposes. ,,,− ,,, Investigations on the application and comparison of normalization approaches so far focused mainly on flow data, fecal markers CrAssphage and PMMoV, and ammonia. ,,,, In a further step, several studies assessed the suitability of these parameters for normalization, investigating their temporal and spatial variation, , seasonal trends, or correlation with flow data ,, and precipitation data …”

Section: Introductionmentioning

confidence: 99%

“…For instance, multiplying the gene concentrations with the wastewater flow in order to obtain gene loads has been frequently applied, leading to mixed results. 11 , 18 , 24 − 26 Furthermore, common wastewater parameters such as ammonia, 14 , 23 total nitrogen, 27 and orthophosphate 28 have been used for normalization, although they are susceptible to industrial discharge. 29 Further promising candidates for SARS-CoV-2 biomarker normalization are the pepper mild mottle virus (PMMoV), a plant virus that enters the human body through the diet, and the cross-assembly phage (CrAssphage), a bacteriophage found in the human gut, that are abundant in and closely linked to human feces.…”

Section: Introductionmentioning

confidence: 99%

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Wastewater-Based Epidemiology for SARS-CoV-2 Biomarkers: Evaluation of Normalization Methods in Small and Large Communities in Southern Germany

et al. 2022

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In the context of the COVID-19 pandemic, wastewater-based epidemiology (WBE) emerged as a useful tool to account for the prevalence of SARS-CoV-2 infections on a population scale. In this study, we analyzed wastewater samples from three large (>300,000 people served) and four small (<25,000 people served) communities throughout southern Germany from August to December 2021, capturing the fourth infection wave in Germany dominated by the Delta variant (B.1.617.2). As dilution can skew the SARS-CoV-2 biomarker concentrations in wastewater, normalization to wastewater parameters can improve the relationship between SARS-CoV-2 biomarker data and clinical prevalence data. In this study, we investigated the suitability and performance of various normalization parameters. Influent flow data showed strong relationships to precipitation data; accordingly, flow-normalization reacted distinctly to precipitation events. Normalization by surrogate viruses CrAssphage and pepper mild mottle virus showed varying performance for different sampling sites. The best normalization performance was achieved with a mixed fecal indicator calculated from both surrogate viruses. Analyzing the temporal and spatial variation of normalization parameters proved to be useful to explain normalization performance. Overall, our findings indicate that the performance of surrogate viruses, flow, and hydro-chemical data is site-specific. We recommend testing the suitability of normalization parameters individually for specific sewage systems.

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“…For instance, multiplying the gene concentrations with the wastewater flow in order to obtain gene loads has been frequently applied, leading to mixed results 11,18,[24][25][26] . Furthermore, common wastewater parameters such as ammonia 14,23 , total nitrogen 27 , and orthophosphate 28 have been used for normalization although they are susceptible to industrial discharge 29 . Further promising candidates for SARS-CoV-2 biomarker normalization are the pepper mild mottle virus (PMMoV), a plant virus that enters the human body through the diet, and the cross-assembly phage (CrAssphage), a bacteriophage found in the human gut, that are abundant in and closely linked to human feces [30][31][32] .…”

Section: Introductionmentioning

confidence: 99%

Wastewater-Based Epidemiology for SARS-CoV-2 Biomarkers: Evaluation of Normalization Methods in Small and Large Communities in Southern Germany

Mitranescu

Uchaikina

Kau

et al. 2022

Preprint

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In the context of the COVID-19 pandemic, wastewater-based epidemiology (WBE) emerged as a useful tool to account for the prevalence of SARS-CoV-2 infections on a population scale. In this study we analyzed wastewater samples from three large (> 300,000 people served) and four small (< 25,000 people served) communities throughout southern Germany from August to December 2021, capturing the fourth infection wave in Germany dominated by the Delta variant (B.1.617.2). As dilution can skew the SARS-CoV-2 biomarker concentrations in wastewater, normalization to wastewater parameters can improve the relationship between SARS-CoV-2 biomarker data and clinical prevalence data. In this study, we investigated the suitability and performance of various normalization parameters. Influent flow data showed strong relationships to precipitation data; accordingly, flow-normalization reacted distinctly to precipitation events. Normalization by surrogate viruses CrAssphage and Pepper Mild Mottle Virus showed varying performance for different sampling sites. The best normalization performance was achieved with a mixed fecal indicator calculated from both surrogate viruses. Analyzing the temporal and spatial variation of normalization parameters proved to be useful to explain normalization performance. Overall, our findings indicate that the performance of surrogate viruses, flow and hydro-chemical data is site-specific. We recommend to test the suitability of normalization parameters individually for specific sewage systems.

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Emergence of SARS-CoV-2 Alpha lineage and its correlation with quantitative wastewater-based epidemiology data

Cited by 18 publications

References 48 publications

Viral variant-resolved wastewater surveillance of SARS-CoV-2 at national scale

Viral variant-resolved wastewater surveillance of SARS-CoV-2 at national scale

Wastewater-Based Epidemiology for SARS-CoV-2 Biomarkers: Evaluation of Normalization Methods in Small and Large Communities in Southern Germany

Wastewater-Based Epidemiology for SARS-CoV-2 Biomarkers: Evaluation of Normalization Methods in Small and Large Communities in Southern Germany

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