Phylogenetic analysis of SARS-CoV-2 in the Boston area highlights the role of recurrent importation and superspreading events

Type: Preprint

Publication Date: 2020-08-25

Citations: 49

DOI: https://doi.org/10.1101/2020.08.23.20178236

Locations

  • PubMed Central - View
  • medRxiv (Cold Spring Harbor Laboratory) - View
  • PubMed - View

Similar Works

Action Title Year Authors
+ Evidence of transmission from fully vaccinated individuals in a large outbreak of the SARS-CoV-2 Delta variant in Provincetown, Massachusetts 2021 Katherine J. Siddle
Lydia A. Krasilnikova
Gage K. Moreno
S. F. Schaffner
Johanna Vostok
Nicholas FitzGerald
Jacob E. Lemieux
Nikolaos Barkas
Christine Loreth
Ivan Specht
+ Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Household Transmission during the Omicron Era in Massachusetts: A Prospective, Case-Ascertained Study using Genomic Epidemiology 2024 Jaspreet Banga
Taylor Brock-Fisher
Brittany A. Petros
Eric Y. Dai
Ariana T. Leonelli
Sabrina T. Dobbins
Katelyn S. Messer
Audrey B. Nathanson
Amelia Capone
Nancy Littlehale
+ PDF Chat Transmission from vaccinated individuals in a large SARS-CoV-2 Delta variant outbreak 2021 Katherine J. Siddle
Lydia A. Krasilnikova
Gage K. Moreno
S. F. Schaffner
Johanna Vostok
Nicholas FitzGerald
Jacob E. Lemieux
Nikolaos Barkas
Christine Loreth
Ivan Specht
+ PDF Chat Superspreading of SARS-CoV-2: a systematic review and meta-analysis of event attack rates and individual transmission patterns 2024 Clifton McKee
Xinchun Yu
Andrés J. Garcı́a
Jules Jackson
Aybüke Koyuncu
Sophie M Rose
Andrew S. Azman
Katie Lobner
Emma Sacks
Maria D. Van Kerkhove
+ Decision letter: Superspreaders drive the largest outbreaks of hospital onset COVID-19 infections 2021 Sarah Cobey
+ PDF Chat Revealing fine-scale spatiotemporal differences in SARS-CoV-2 introduction and spread 2020 Gage K. Moreno
Katarina M. Braun
Kasen K. Riemersma
Michael A. Martin
Peter Halfmann
Chelsea M. Crooks
Trent M. Prall
David A. Baker
John J. Baczenas
Anna S. Heffron
+ Superspreading of SARS-CoV-2: a systematic review and meta-analysis of event attack rates and individual transmission patterns 2024 Clifton McKee
Xinchun Yu
Andrés J. Garcı́a
Jules Jackson
Aybüke Koyuncu
Sophie M Rose
Andrew S. Azman
Katie Lobner
Emma Sacks
Maria D Van Kerkhove
+ Author response: Superspreaders drive the largest outbreaks of hospital onset COVID-19 infections 2021 Christopher J. R. Illingworth
William L. Hamilton
Ben Warne
Matthew Routledge
A.I. Popay
Chris Jackson
Tom Fieldman
Luke W. Meredith
Charlotte J. Houldcroft
Myra Hosmillo
+ Sequencing identifies multiple early introductions of SARS-CoV-2 to the New York City Region 2020 Matthew T. Maurano
Sitharam Ramaswami
Paul Zappile
Dacia Dimartino
Ludovic Boytard
André M. Ribeiro-dos-Santos
Nicholas A. Vulpescu
Gael Westby
Guomiao Shen
Xiaojun Feng
+ From Emergence to Evolution: Dynamics of the SARS-CoV-2 Omicron Variant in Florida 2024 Sobur Ali
Marta Giovanetti
Catherine Johnston
Verónica Urdaneta-Páez
Taj Azarian
Eleonora Cella
+ Superspreading potentials of SARS-CoV-2 Delta variants across different contact settings in Eastern China: A retrospective observational study 2023 Kai Wang
Zemin Luan
Zihao Guo
Hao Lei
Ting Zeng
Lin Yu
Hujiaojiao Li
Maozai Tian
Jinjun Ran
Shi Zhao
+ PDF Chat Sequencing identifies multiple early introductions of SARS-CoV-2 to the New York City region 2020 Matthew T. Maurano
Sitharam Ramaswami
Paul Zappile
Dacia Dimartino
Ludovic Boytard
André M. Ribeiro-dos-Santos
Nicholas A. Vulpescu
Gael Westby
Guomiao Shen
Xiaojun Feng
+ PDF Chat Local-scale phylodynamics reveal differential community impact of SARS-CoV-2 in a metropolitan US county 2024 Miguel I. Paredes
Amanda C. Perofsky
Lauren Frisbie
Louise H. Moncla
Pavitra Roychoudhury
Hong Xie
Shah A. Mohamed Bakhash
Kevin Kong
Isabel Arnould
Nguyễn Văn Tiến
+ PDF Chat Local-Scale phylodynamics reveal differential community impact of SARS-CoV-2 in metropolitan US county 2022 Miguel I. Paredes
Amanda C. Perofsky
Lauren Frisbie
Louise H. Moncla
Pavitra Roychoudhury
Hong Xie
Shah A. Mohamed Bakhash
Kevin Kong
Isabel Arnould
Nguyễn Văn Tiến
+ PDF Chat Early Emergence Phase of SARS-CoV-2 Delta Variant in Florida, US 2022 Eleonora Cella
Sobur Ali
Sarah E. Schmedes
Brittany Rife Magalis
Simone Marini
Marco Salemi
Jason Blanton
Taj Azarian
+ Emergence of an early SARS-CoV-2 epidemic in the United States 2021 Mark Zeller
Karthik Gangavarapu
Catelyn Anderson
Allison R. Smither
John A. Vanchiere
Rebecca Rose
Daniel J. Snyder
Gytis Dudas
Alexander Watts
Nathaniel L. Matteson
+ Cryptic transmission of SARS-CoV-2 in Washington State 2020 Trevor Bedford
Alexander L. Greninger
Pavitra Roychoudhury
Lea M. Starita
Michael Famulare
Meei‐Li Huang
Arun Kumar Nalla
Gregory Pepper
Adam Reinhardt
Hong Xie
+ Outbreak of SARS-CoV-2 Infections, Including COVID-19 Vaccine Breakthrough Infections, Associated with Large Public Gatherings — Barnstable County, Massachusetts, July 2021 2021 Catherine Brown
Johanna Vostok
Hillary Johnson
Meagan Burns
Radhika Gharpure
Samira Sami
Rebecca T. Sabo
Noémi B. Hall
Anne Foreman
Petra Schubert
+ Distinct patterns of SARS-CoV-2 transmission in two nearby communities in Wisconsin, USA 2020 Gage K. Moreno
Katarina M. Braun
Kasen K. Riemersma
Michael A. Martin
Peter Halfmann
Chelsea M. Crooks
Trent M. Prall
David A. Baker
John J. Baczenas
Anna S. Heffron
+ Emergence of an early SARS-CoV-2 epidemic in the United States 2021 Mark Zeller
Karthik Gangavarapu
Catelyn Anderson
Allison R. Smither
John A. Vanchiere
Rebecca Rose
Daniel J. Snyder
Gytis Dudas
Alexander Watts
Nathaniel L. Matteson

Works That Cite This (25)

Action Title Year Authors
+ Enhanced Sentinel Surveillance System for COVID-19 Outbreak Prediction in a Large European Dialysis Clinics Network 2021 Francesco Bellocchio
Paola Carioni
Caterina Lonati
Mario Garbelli
Francisco José Martínez-Martínez
Stefano Stuard
Luca Neri
+ COVID-19-neutralizing antibodies predict disease severity and survival 2020 Wilfredo F. García-Beltrán
Evan C. Lam
Michael G. Astudillo
Diane Yang
Tyler E. Miller
Jared Feldman
Blake M. Hauser
Timothy M. Caradonna
Kiera Clayton
Adam D. Nitido
+ PDF Chat Superspreading drives the COVID pandemic — and could help to tame it 2021 Dyani Lewis
+ Emergence of an early SARS-CoV-2 epidemic in the United States 2021 Mark Zeller
Karthik Gangavarapu
Catelyn Anderson
Allison R. Smither
John A. Vanchiere
Rebecca Rose
Daniel J. Snyder
Gytis Dudas
Alexander Watts
Nathaniel L. Matteson
+ Emergence of an early SARS-CoV-2 epidemic in the United States 2021 Mark Zeller
Karthik Gangavarapu
Catelyn Anderson
Allison R. Smither
John A. Vanchiere
Rebecca Rose
Daniel J. Snyder
Gytis Dudas
Alexander Watts
Nathaniel L. Matteson
+ Rapid transmission of coronavirus disease 2019 within a religious sect in South Korea: a mathematical modeling study 2021 Jong‐Hoon Kim
Hyojung Lee
Yong Sul Won
Woo‐Sik Son
Justin Im
+ PDF Chat “Mass gathering events and COVID-19 transmission in Borriana (Spain): A retrospective cohort study” 2021 Salvador Domènech-Montoliu
María Rosario Pac-Sa
Paula Vidal-Utrillas
Marta Latorre-Poveda
Alba Del Rio-González
Sara Ferrando-Rubert
Gema Ferrer-Abad
Manuel Sánchez-Urbano
Laura Aparisi-Esteve
Gema Badenes-Marques
+ COVID-19 neutralizing antibodies predict disease severity and survival 2020 Wilfredo F. García-Beltrán
Evan C. Lam
Michael G. Astudillo
Diane Yang
Tyler E. Miller
Jared Feldman
Blake M. Hauser
Timothy M. Caradonna
Kiera Clayton
Adam D. Nitido
+ Characterizing superspreading of SARS-CoV-2 : from mechanism to measurement 2020 Zachary Susswein
Shweta Bansal
+ Genomic epidemiology of the early stages of SARS-CoV-2 outbreak in Russia 2020 Andrey B. Komissarov
Ksenia R. Safina
Sofya K. Garushyants
Artem Fadeev
Maria V. Sergeeva
Anna A. Ivanova
Daria Danilenko
Dmitry Lioznov
Olga V. Shneider
Nikita Shvyrev

Works Cited by This (15)

Action Title Year Authors
+ PDF Chat Ebola Virus Epidemiology, Transmission, and Evolution during Seven Months in Sierra Leone 2015 Daniel J. Park
Gytis Dudas
Shirlee Wohl
Augustine Goba
Shannon Whitmer
Kristian G. Andersen
Rachel Sealfon
Jason T. Ladner
Jeffrey R. Kugelman
Christian B. Matranga
+ Superspreading and the effect of individual variation on disease emergence 2005 James O. Lloyd‐Smith
Sebastian J. Schreiber
Peter Ekkehard Kopp
Wayne M. Getz
+ PDF Chat Superspreading SARS Events, Beijing, 2003 2004 Zhuang Shen
Fang Ning
Weigong Zhou
Xiong He
Changying Lin
Daniel P. Chin
Zonghan Zhu
Anne Schuchat
+ PDF Chat Identifying and Interrupting Superspreading Events—Implications for Control of Severe Acute Respiratory Syndrome Coronavirus 2 2020 Thomas R. Frieden
Christopher T. Lee
+ PDF Chat Quantifying SARS-CoV-2 transmission suggests epidemic control with digital contact tracing 2020 Luca Ferretti
Chris Wymant
Michelle Kendall
Lele Zhao
Anel Nurtay
Lucie Abeler‐Dörner
Michael Parker
David Bonsall
Christophe Fraser
+ Epidemiology of Covid-19 in a Long-Term Care Facility in King County, Washington 2020 Temet M. McMichael
Dustin W. Currie
Shauna Clark
Sargis Pogosjans
Meagan Kay
Noah G. Schwartz
James Lewis
Atar Baer
Vance Kawakami
Margaret D. Lukoff
+ PDF Chat Presymptomatic Transmission of SARS-CoV-2 — Singapore, January 23–March 16, 2020 2020 Wycliffe Enli Wei
Zongbin Li
Calvin J. Chiew
Sarah Ee Fang Yong
Matthias Paul HS Toh
Vernon J. Lee
+ Estimating the overdispersion in COVID-19 transmission using outbreak sizes outside China 2020 Akira Endo
Sam Abbott
Adam J. Kucharski
Sebastian Funk
+ Prevalence of SARS-CoV-2 Infection in Residents of a Large Homeless Shelter in Boston 2020 Travis P. Baggett
Harrison Keyes
Nora Sporn
Jessie M. Gaeta
+ PDF Chat Public Health Response to the Initiation and Spread of Pandemic COVID-19 in the United States, February 24–April 21, 2020 2020 Anne Schuchat