Full genome viral sequences inform patterns of SARS-CoV-2 spread into and within Israel

Danielle Miller; Michael A. Martin; Noam Harel; Omer Tirosh; Talia Kustin; Moran Meir; Nadav Sorek; Shiraz Gefen-Halevi; Sharon Amit; Olesya Vorontsov; Avraham Shaag; Dana Wolf; Avi Peretz; Yonat Shemer-Avni; Diana Roif-Kaminsky; Naama M. Kopelman; Amit Huppert; Katia Koelle; Adi Stern

doi:10.1038/s41467-020-19248-0

Full genome viral sequences inform patterns of SARS-CoV-2 spread into and within Israel

Danielle Miller, Michael A. Martin, Noam Harel, Omer Tirosh, Talia Kustin, Moran Meir, Nadav Sorek, Shiraz Gefen-Halevi, Sharon Amit, Olesya Vorontsov, Avraham Shaag, Dana Wolf, Avi Peretz, Yonat Shemer-Avni, Diana Roif-Kaminsky, Naama M. Kopelman, Amit Huppert, Katia Koelle, Adi Stern

Research output: Contribution to journal › Article › peer-review

Abstract

Full genome sequences are increasingly used to track the geographic spread and transmission dynamics of viral pathogens. Here, with a focus on Israel, we sequence 212 SARS-CoV-2 sequences and use them to perform a comprehensive analysis to trace the origins and spread of the virus. We find that travelers returning from the United States of America significantly contributed to viral spread in Israel, more than their proportion in incoming infected travelers. Using phylodynamic analysis, we estimate that the basic reproduction number of the virus was initially around 2.5, dropping by more than two-thirds following the implementation of social distancing measures. We further report high levels of transmission heterogeneity in SARS-CoV-2 spread, with between 2-10% of infected individuals resulting in 80% of secondary infections. Overall, our findings demonstrate the effectiveness of social distancing measures for reducing viral spread.

Original language	English
Article number	5518
Journal	Nature Communications
Volume	11
Issue number	1
DOIs	https://doi.org/10.1038/s41467-020-19248-0
State	Published - 2 Nov 2020
Externally published	Yes

Bibliographical note

Publisher Copyright:
© 2020, The Author(s).

ASJC Scopus subject areas

General Chemistry
General Biochemistry, Genetics and Molecular Biology
General Physics and Astronomy

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

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10.1038/s41467-020-19248-0

Cite this

Miller, D., Martin, M. A., Harel, N., Tirosh, O., Kustin, T., Meir, M., Sorek, N., Gefen-Halevi, S., Amit, S., Vorontsov, O., Shaag, A., Wolf, D., Peretz, A., Shemer-Avni, Y., Roif-Kaminsky, D., Kopelman, N. M., Huppert, A., Koelle, K., & Stern, A. (2020). Full genome viral sequences inform patterns of SARS-CoV-2 spread into and within Israel. Nature Communications, 11(1), Article 5518. https://doi.org/10.1038/s41467-020-19248-0

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title = "Full genome viral sequences inform patterns of SARS-CoV-2 spread into and within Israel",

abstract = "Full genome sequences are increasingly used to track the geographic spread and transmission dynamics of viral pathogens. Here, with a focus on Israel, we sequence 212 SARS-CoV-2 sequences and use them to perform a comprehensive analysis to trace the origins and spread of the virus. We find that travelers returning from the United States of America significantly contributed to viral spread in Israel, more than their proportion in incoming infected travelers. Using phylodynamic analysis, we estimate that the basic reproduction number of the virus was initially around 2.5, dropping by more than two-thirds following the implementation of social distancing measures. We further report high levels of transmission heterogeneity in SARS-CoV-2 spread, with between 2-10% of infected individuals resulting in 80% of secondary infections. Overall, our findings demonstrate the effectiveness of social distancing measures for reducing viral spread.",

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Miller, D, Martin, MA, Harel, N, Tirosh, O, Kustin, T, Meir, M, Sorek, N, Gefen-Halevi, S, Amit, S, Vorontsov, O, Shaag, A, Wolf, D, Peretz, A, Shemer-Avni, Y, Roif-Kaminsky, D, Kopelman, NM, Huppert, A, Koelle, K & Stern, A 2020, 'Full genome viral sequences inform patterns of SARS-CoV-2 spread into and within Israel', Nature Communications, vol. 11, no. 1, 5518. https://doi.org/10.1038/s41467-020-19248-0

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AU - Meir, Moran

AU - Sorek, Nadav

AU - Gefen-Halevi, Shiraz

AU - Amit, Sharon

AU - Vorontsov, Olesya

AU - Shaag, Avraham

AU - Wolf, Dana

AU - Peretz, Avi

AU - Shemer-Avni, Yonat

AU - Roif-Kaminsky, Diana

AU - Kopelman, Naama M.

AU - Huppert, Amit

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AU - Stern, Adi

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Full genome viral sequences inform patterns of SARS-CoV-2 spread into and within Israel

Abstract

Bibliographical note

ASJC Scopus subject areas

UN SDGs

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