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17 results on '"Kohn, Tamar"'

1. Dependence of aerosol-borne influenza A virus infectivity on relative humidity and aerosol composition

Author

Motos, Ghislain, primary, Schaub, Aline, additional, David, Shannon C, additional, Costa, Laura, additional, Terrettaz, Celine C, additional, Kaltsonoudis, Christos, additional, Glas, Irina, additional, Klein, Liviana, additional, Bluvshtein, Nir, additional, Luo, Beiping, additional, Violaki, Kalliopi, additional, Pohl, Marie, additional, Hugentobler, Walter, additional, Krieger, Ulrich K, additional, Pandis, Spyros, additional, Stertz, Silke, additional, Peter, Thomas, additional, Kohn, Tamar, additional, and Nenes, Athanasios, additional

Published
2024
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2. Impact of Organic Compounds on the Stability of Influenza A Virus in deposited 1-ul droplets

Author

Schaub, Aline, primary, David, Shannon C., additional, Glas, Irina, additional, Klein, Liviana K, additional, Violaki, Kalliopi, additional, Terrettaz, Celine, additional, Motos, Ghislain, additional, Bluvshtein, Nir, additional, Luo, Beiping, additional, Pohl, Marie O, additional, Hugentobler, Walter, additional, Nenes, Athanasios, additional, Krieger, Ulrich K, additional, Peter, Thomas, additional, Stertz, Silke, additional, and Kohn, Tamar, additional

Published
2024
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3. Stability of influenza A virus in droplets and aerosols is heightened by the presence of commensal respiratory bacteria

Author

David, Shannon C., primary, Schaub, Aline, additional, Terrettaz, Céline, additional, Motos, Ghislain, additional, Costa, Laura J., additional, Nolan, Daniel S., additional, Augugliaro, Marta, additional, Glas, Irina, additional, Pohl, Marie O., additional, Klein, Liviana K., additional, Luo, Beiping, additional, Bluvshtein, Nir, additional, Violaki, Kalliopi, additional, Hugentobler, Walter, additional, Krieger, Ulrich K., additional, Peter, Thomas, additional, Stertz, Silke, additional, Nenes, Athanasios, additional, and Kohn, Tamar, additional

Published
2024
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4. Salt-mediated inactivation of influenza A virus in 1-ul droplets exhibits exponential dependence on NaCl molality

Author

Schaub, Aline, primary, Luo, Beiping, additional, David, Shannon C, additional, Glas, Irina, additional, Klein, Liviana K, additional, Costa, Laura, additional, Terrettaz, Celine, additional, Bluvshtein, Nir, additional, Motos, Ghislain, additional, Violaki, Kalliopi, additional, Pohl, Marie, additional, Hugentobler, Walter, additional, Nenes, Athanasios, additional, Stertz, Silke, additional, Krieger, Ulrich K, additional, Peter, Thomas, additional, and Kohn, Tamar, additional

Published
2023
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6. Estimated transmission dynamics of SARS-CoV-2 variants from wastewater are robust to differential shedding

Author

Dreifuss, David, primary, Huisman, Jana S., additional, Rusch, Johannes C., additional, Caduff, Lea, additional, Ganesanandamoorthy, Pravin, additional, Devaux, Alexander J., additional, Gan, Charles, additional, Stadler, Tanja, additional, Kohn, Tamar, additional, Ort, Christoph, additional, Beerenwinkel, Niko, additional, and Julian, Timothy R., additional

Published
2023
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9. Inactivation mechanisms of Influenza A virus under pH conditions encountered in aerosol particles as revealed by whole-virus HDX-MS

Author

David, Shannon C., primary, Vadas, Oscar, additional, Glas, Irina, additional, Schaub, Aline, additional, Luo, Beiping, additional, D’Angelo, Giovanni, additional, Montoya, Jonathan Paz, additional, Bluvshtein, Nir, additional, Hugentobler, Walter, additional, Klein, Liviana K., additional, Motos, Ghislain, additional, Pohl, Marie, additional, Violaki, Kalliopi, additional, Nenes, Athanasios, additional, Krieger, Ulrich K., additional, Stertz, Silke, additional, Peter, Thomas, additional, and Kohn, Tamar, additional

Published
2022
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11. Acidity of expiratory aerosols controls the infectivity of airborne influenza virus and SARS-CoV-2

Author

Luo, Beiping, primary, Schaub, Aline, additional, Glas, Irina, additional, Klein, Liviana K., additional, David, Shannon C., additional, Bluvshtein, Nir, additional, Violaki, Kalliopi, additional, Motos, Ghislain, additional, Pohl, Marie, additional, Hugentobler, Walter, additional, Nenes, Athanasios, additional, Krieger, Ulrich K., additional, Stertz, Silke, additional, Peter, Thomas, additional, and Kohn, Tamar, additional

Published
2022
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12. Inferring Transmission Fitness Advantage of SARS-CoV-2 Variants of Concern in Wastewater Using Digital PCR

Author

Caduff, Lea, Dreifuss, David, Schindler, Tobias, Devaux, Alexander J., Ganesanandamoorthy, Pravin, Kull, Anina, Stachler, Elyse, Fernandez-Cassi, Xavier, Beerenwinkel, Niko, Kohn, Tamar, Ort, Christoph, and Julian, Timothy R.

Subjects
Drop-off assays, SARS-CoV-2, Transmission fitness, B.1.1.7, Digital PCR
Abstract

Throughout the global COVID-19 pandemic, SARS-CoV-2 genetic variants of concern (VOCs) have repeatedly and independently arisen. VOCs are characterized by increased transmissibility, increased virulence, or reduced neutralization by antibodies obtained from prior infection or vaccination. Tracking the introduction and transmission of VOCs relies on sequencing, typically whole-genome sequencing of clinical samples. Wastewater surveillance is increasingly used to track the introduction and spread of SARS-CoV-2 variants through sequencing approaches. Here, we adapt and apply a rapid, high-throughput method for detection and quantification of the frequency of two deletions characteristic of the B.1.1.7, B.1.351, and P.1 VOCs in wastewater. We further develop a statistical approach to analyze temporal dynamics in drop-off RT-dPCR assay data to quantify transmission fitness advantage, providing data similar to that obtained from clinical samples. Digital PCR assays targeting signature mutations in wastewater offer near real-time monitoring of SARS-CoV-2 VOCs and potentially earlier detection and inference on transmission fitness advantage than clinical sequencing., medRxiv

Published
2021

13. Detection and surveillance of SARS-CoV-2 genomic variants in wastewater

Author

Jahn, Katharina, Dreifuss, David, Topolsky, Ivan, Kull, Anina, Ganesanandamoorthy, Pravin, Fernandez-Cassi, Xavier, Bänziger, Carola, Devaux, Alexander J., Stachler, Elyse, Caduff, Lea, Cariti, Federica, Corzón, Alex Tuñas, Fuhrmann, Lara, Chen, Chaoran, Jablonski, Kim Philipp, Nadeau, Sarah Ann, Feldkamp, Mirjam, Beisel, Christian, Aquino, Catharine, Stadler, Tanja, Ort, Christoph, Kohn, Tamar, Julian, Timothy R., and Beerenwinkel, Niko

Abstract

The emergence of SARS-CoV-2 mutants with altered transmissibility, virulence, or immunogenicity emphasizes the need for early detection and epidemiological surveillance of genomic variants. Wastewater samples provide an opportunity to assess circulating viral lineages in the community. We performed genomic sequencing of 122 wastewater samples from three locations in Switzerland to analyze the B.1.1.7, B.1.351, and P.1 variants of SARS-CoV-2 on a population level. We called variant-specific signature mutations and monitored variant prevalence in the local population over time. To enable early detection of emerging variants, we developed a bioinformatics tool that uses read pairs carrying multiple signature mutations as a robust indicator of low-frequency variants. We further devised a statistical approach to estimate the transmission fitness advantage, a key epidemiological parameter indicating the speed at which a variant spreads through the population, and compared the wastewater-based findings to those derived from clinical samples. We found that the local outbreak of the B.1.1.7 variant in two Swiss cities was observable in wastewater up to 8 days before its first detection in clinical samples. We detected a high prevalence of the B.1.1.7 variant in an alpine ski resort popular among British tourists in December 2020, a time when the variant was still very rare in Switzerland. We found no evidence of local spread of the B.1.351 and P.1 variants at the monitored locations until the end of the study (mid February) which is consistent with clinical samples. Estimation of local variant prevalence performs equally well or better for wastewater samples as for a much larger number of clinical samples. We found that the transmission fitness advantage of B.1.1.7, i.e. the relative change of its reproductive number, can be estimated earlier and based on substantially fewer wastewater samples as compared to using clinical samples. Our results show that genomic sequencing of wastewater samples can detect, monitor, and evaluate genetic variants of SARS-CoV-2 on a population level. Our methodology provides a blueprint for rapid, unbiased, and cost-efficient genomic surveillance of SARS-CoV-2 variants., medRxiv

Published
2021

14. Inferring Transmission Fitness Advantage of SARS-CoV-2 Variants of Concern in Wastewater Using Digital PCR

Author

Caduff, Lea, primary, Dreifuss, David, additional, Schindler, Tobias, additional, Devaux, Alexander J., additional, Ganesanandamoorthy, Pravin, additional, Kull, Anina, additional, Stachler, Elyse, additional, Fernandez-Cassi, Xavier, additional, Beerenwinkel, Niko, additional, Kohn, Tamar, additional, Ort, Christoph, additional, and Julian, Timothy R., additional

Published
2021
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15. Wastewater-based estimation of the effective reproductive number of SARS-CoV-2

Author

Huisman, Jana S., primary, Scire, Jérémie, additional, Caduff, Lea, additional, Fernandez-Cassi, Xavier, additional, Ganesanandamoorthy, Pravin, additional, Kull, Anina, additional, Scheidegger, Andreas, additional, Stachler, Elyse, additional, Boehm, Alexandria B., additional, Hughes, Bridgette, additional, Knudson, Alisha, additional, Topol, Aaron, additional, Wigginton, Krista R., additional, Wolfe, Marlene K., additional, Kohn, Tamar, additional, Ort, Christoph, additional, Stadler, Tanja, additional, and Julian, Timothy R., additional

Published
2021
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16. Wastewater monitoring outperforms case numbers as a tool to track COVID-19 incidence dynamics when test positivity rates are high

Author

Fernandez-Cassi, Xavier, primary, Scheidegger, Andreas, additional, Bänziger, Carola, additional, Cariti, Federica, additional, Corzon, Alex Tuñas, additional, Ganesanandamoorthy, Pravin, additional, Lemaitre, Joseph C., additional, Ort, Christoph, additional, Julian, Timothy R., additional, and Kohn, Tamar, additional

Published
2021
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17. Detection and surveillance of SARS-CoV-2 genomic variants in wastewater

Author

Jahn, Katharina, primary, Dreifuss, David, additional, Topolsky, Ivan, additional, Kull, Anina, additional, Ganesanandamoorthy, Pravin, additional, Fernandez-Cassi, Xavier, additional, Bänziger, Carola, additional, Devaux, Alexander J., additional, Stachler, Elyse, additional, Caduff, Lea, additional, Cariti, Federica, additional, Corzón, Alex Tuñas, additional, Fuhrmann, Lara, additional, Chen, Chaoran, additional, Jablonski, Kim Philipp, additional, Nadeau, Sarah, additional, Feldkamp, Mirjam, additional, Beisel, Christian, additional, Aquino, Catharine, additional, Stadler, Tanja, additional, Ort, Christoph, additional, Kohn, Tamar, additional, Julian, Timothy R., additional, and Beerenwinkel, Niko, additional

Published
2021
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