Phylogenetic analysis of SARS-CoV-2 in Boston highlights the impact of superspreading events-Reference-Cited by-同舟云学术

Phylogenetic analysis of SARS-CoV-2 in Boston highlights the impact of superspreading events

Published:2021-02-05 Issue:6529 Volume:371 Page:
ISSN:0036-8075
Container-title:Science
language:en
Short-container-title:Science

Author:

Lemieux Jacob E.¹²^ORCID,Siddle Katherine J.¹³^ORCID,Shaw Bennett M.¹²^ORCID,Loreth Christine¹^ORCID,Schaffner Stephen F.¹³⁴^ORCID,Gladden-Young Adrianne¹,Adams Gordon¹,Fink Timelia⁵,Tomkins-Tinch Christopher H.¹³^ORCID,Krasilnikova Lydia A.¹³^ORCID,DeRuff Katherine C.¹^ORCID,Rudy Melissa¹^ORCID,Bauer Matthew R.¹⁶,Lagerborg Kim A.¹⁶^ORCID,Normandin Erica¹⁷^ORCID,Chapman Sinéad B.¹^ORCID,Reilly Steven K.¹³^ORCID,Anahtar Melis N.⁸^ORCID,Lin Aaron E.¹³^ORCID,Carter Amber¹,Myhrvold Cameron¹³^ORCID,Kemball Molly E.¹⁷^ORCID,Chaluvadi Sushma¹,Cusick Caroline¹^ORCID,Flowers Katelyn¹,Neumann Anna¹^ORCID,Cerrato Felecia¹^ORCID,Farhat Maha⁹¹⁰^ORCID,Slater Damien²^ORCID,Harris Jason B.²¹¹^ORCID,Branda John A.⁸,Hooper David²,Gaeta Jessie M.¹²¹³,Baggett Travis P.¹²¹⁴¹⁵,O’Connell James¹²¹⁴¹⁵^ORCID,Gnirke Andreas¹,Lieberman Tami D.¹¹⁶^ORCID,Philippakis Anthony¹,Burns Meagan⁵^ORCID,Brown Catherine M.⁵,Luban Jeremy¹¹⁷¹⁸^ORCID,Ryan Edward T.²⁴¹⁵,Turbett Sarah E.²⁸¹⁵^ORCID,LaRocque Regina C.²¹⁵^ORCID,Hanage William P.¹⁹^ORCID,Gallagher Glen R.⁵,Madoff Lawrence C.⁵²⁰^ORCID,Smole Sandra⁵^ORCID,Pierce Virginia M.⁸²¹²²^ORCID,Rosenberg Eric²⁸^ORCID,Sabeti Pardis C.¹³⁴¹⁸²³^ORCID,Park Daniel J.¹^ORCID,MacInnis Bronwyn L.¹⁴¹⁸^ORCID

Affiliation:

1. Broad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA 02142, USA.

2. Division of Infectious Diseases, Massachusetts General Hospital, Boston, MA, USA.

3. Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138, USA.

4. Department of Immunology and Infectious Diseases, Harvard T. H. Chan School of Public Health, Harvard University, Boston, MA, USA.

5. Massachusetts Department of Public Health, Boston, MA, USA.

6. Harvard Program in Biological and Biomedical Sciences, Harvard Medical School, Boston, MA 02115, USA.

7. Department of Systems Biology, Harvard Medical School, Boston, MA, USA.

8. Department of Pathology, Massachusetts General Hospital, Boston, MA, USA.

9. Department of Biomedical Informatics, Harvard Medical School, Boston, MA, USA.

10. Division of Pulmonary and Critical Care, Massachusetts General Hospital, Boston, MA, USA.

11. Department of Pediatrics, Harvard Medical School, Boston, MA, USA.

12. Institute for Research, Quality, and Policy in Homeless Health Care, Boston Health Care for the Homeless Program, Boston, MA, USA.

13. Section of General Internal Medicine, Boston University Medical Center, Boston, MA, USA.

14. Division of General Internal Medicine, Massachusetts General Hospital, Boston, MA, USA.

15. Department of Medicine, Harvard Medical School, Boston, MA, USA.

16. Institute for Medical Engineering and Sciences, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.

17. Program in Molecular Medicine, University of Massachusetts Medical School, Worcester, MA 01605, USA.

18. Massachusetts Consortium on Pathogen Readiness, Boston, MA 02115, USA.

19. Center for Communicable Disease Dynamics, Department of Epidemiology, Harvard T. H. Chan School of Public Health, Boston, MA 02115, USA.

20. University of Massachusetts Medical School, Infectious Diseases and Immunology, Worcester, MA 01655, USA.

21. Pediatric Infectious Disease Unit, Massachusetts General Hospital for Children, Boston, MA, USA.

22. Department of Pathology, Harvard Medical School, Boston, MA, USA.

23. Howard Hughes Medical Institute, 4000 Jones Bridge Rd, Chevy Chase, MD 20815, USA.

Abstract

Phylogenetics of superspreading One important characteristic of coronavirus epidemiology is the occurrence of superspreading events. These are marked by a disproportionate number of cases originating from often-times asymptomatic individuals. Using a rich sequence dataset from the early stages of the Boston outbreak, Lemieux et al. identified superspreading events in specific settings and analyzed them phylogenetically (see the Perspective by Alizon). Using ancestral trait inference, the authors identified several importation events, further investigated the context and contribution of particular superspreading events to the establishment of local and wider SARS-CoV-2 transmission, and used viral phylogenies to describe sustained transmission. Science , this issue p. eabe3261 ; see also p. 574

Funder

NIH Office of the Director

Publisher

American Association for the Advancement of Science (AAAS)

Subject

Multidisciplinary

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