About the Authors
- Nicholas F. G. Chen
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Roles Conceptualization, Formal analysis, Investigation, Methodology, Visualization, Writing – original draft, Writing – review & editing
¶‡ NFGC, CC, and LG share first authorship on this work. GRG and CBFV are co-senior authors on this work.
Affiliation Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, Connecticut, United States of America
- Chrispin Chaguza
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Roles Conceptualization, Formal analysis, Investigation, Methodology, Writing – original draft, Writing – review & editing
¶‡ NFGC, CC, and LG share first authorship on this work. GRG and CBFV are co-senior authors on this work.
Affiliation Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, Connecticut, United States of America
- Luc Gagne
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Roles Conceptualization, Formal analysis, Investigation, Methodology, Writing – review & editing
¶‡ NFGC, CC, and LG share first authorship on this work. GRG and CBFV are co-senior authors on this work.
Affiliation Massachusetts Department of Public Health, Jamaica Plain, Massachusetts, United States of America
- Matthew Doucette
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Roles Formal analysis, Investigation, Writing – review & editing
Affiliation Massachusetts Department of Public Health, Jamaica Plain, Massachusetts, United States of America
- Sandra Smole
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Roles Investigation, Writing – review & editing
Affiliation Massachusetts Department of Public Health, Jamaica Plain, Massachusetts, United States of America
- Erika Buzby
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Roles Investigation, Writing – review & editing
Affiliation Massachusetts Department of Public Health, Jamaica Plain, Massachusetts, United States of America
- Joshua Hall
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Roles Investigation, Writing – review & editing
Affiliation Massachusetts Department of Public Health, Jamaica Plain, Massachusetts, United States of America
- Stephanie Ash
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Roles Investigation, Writing – review & editing
Affiliation Massachusetts Department of Public Health, Jamaica Plain, Massachusetts, United States of America
- Rachel Harrington
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Roles Investigation, Writing – review & editing
Affiliation Massachusetts Department of Public Health, Jamaica Plain, Massachusetts, United States of America
- Seana Cofsky
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Roles Investigation, Writing – review & editing
Affiliation Massachusetts Department of Public Health, Jamaica Plain, Massachusetts, United States of America
- Selina Clancy
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Roles Investigation, Writing – review & editing
Affiliation Massachusetts Department of Public Health, Jamaica Plain, Massachusetts, United States of America
- Curtis J. Kapsak
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Roles Investigation, Writing – review & editing
Affiliation Theiagen Genomics, Highlands Ranch, Colorado, United States of America
- Joel Sevinsky
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Roles Investigation, Writing – review & editing
Affiliation Theiagen Genomics, Highlands Ranch, Colorado, United States of America
- Kevin Libuit
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Roles Investigation, Writing – review & editing
Affiliation Theiagen Genomics, Highlands Ranch, Colorado, United States of America
- Daniel J. Park
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Roles Formal analysis, Investigation, Writing – review & editing
Affiliation Broad Institute, Cambridge, Massachusetts, United States of America
- Peera Hemarajata
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Roles Investigation, Writing – review & editing
Affiliation Los Angeles County Public Health Laboratories, Downey, California, United States of America
- Jacob M. Garrigues
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Roles Investigation, Writing – review & editing
Affiliation Los Angeles County Public Health Laboratories, Downey, California, United States of America
- Nicole M. Green
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Roles Investigation, Writing – review & editing
Affiliation Los Angeles County Public Health Laboratories, Downey, California, United States of America
- Sean Sierra-Patev
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Roles Investigation, Writing – review & editing
Affiliation Rhode Island Department of Health, Rhode Island State Health Laboratory, Providence, Rhode Island, United States of America
- Kristin Carpenter-Azevedo
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Roles Investigation, Writing – review & editing
Affiliation Rhode Island Department of Health, Rhode Island State Health Laboratory, Providence, Rhode Island, United States of America
- Richard C. Huard
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Roles Investigation, Writing – review & editing
Affiliation Rhode Island Department of Health, Rhode Island State Health Laboratory, Providence, Rhode Island, United States of America
- Claire Pearson
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Roles Investigation, Writing – review & editing
Affiliation Connecticut Department of Public Health, Rocky Hill, Connecticut, United States of America
- Kutluhan Incekara
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Roles Investigation, Writing – review & editing
Affiliation Connecticut Department of Public Health, Rocky Hill, Connecticut, United States of America
- Christina Nishimura
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Roles Investigation, Writing – review & editing
Affiliation Connecticut Department of Public Health, Rocky Hill, Connecticut, United States of America
- Jian Ping Huang
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Roles Investigation, Writing – review & editing
Affiliation Connecticut Department of Public Health, Rocky Hill, Connecticut, United States of America
- Emily Gagnon
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Roles Investigation, Writing – review & editing
Affiliation Connecticut Department of Public Health, Rocky Hill, Connecticut, United States of America
- Ethan Reever
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Roles Investigation, Writing – review & editing
Affiliation Connecticut Department of Public Health, Rocky Hill, Connecticut, United States of America
- Jafar Razeq
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Roles Investigation, Writing – review & editing
Affiliation Connecticut Department of Public Health, Rocky Hill, Connecticut, United States of America
- Anthony Muyombwe
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Roles Investigation, Writing – review & editing
Affiliation Connecticut Department of Public Health, Rocky Hill, Connecticut, United States of America
- Vítor Borges
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Roles Investigation, Writing – review & editing
Affiliation Genomics and Bioinformatics Unit, Department of Infectious Diseases, National Institute of Health Doutor Ricardo Jorge (INSA), Lisbon, Portugal
- Rita Ferreira
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Roles Investigation, Writing – review & editing
Affiliation Genomics and Bioinformatics Unit, Department of Infectious Diseases, National Institute of Health Doutor Ricardo Jorge (INSA), Lisbon, Portugal
- Daniel Sobral
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Roles Investigation, Writing – review & editing
Affiliation Genomics and Bioinformatics Unit, Department of Infectious Diseases, National Institute of Health Doutor Ricardo Jorge (INSA), Lisbon, Portugal
- Silvia Duarte
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Roles Investigation, Writing – review & editing
Affiliation Technology and Innovation Unit, Department of Human Genetics, National Institute of Health Doutor Ricardo Jorge (INSA), Lisbon, Portugal
- Daniela Santos
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Roles Investigation, Writing – review & editing
Affiliation Technology and Innovation Unit, Department of Human Genetics, National Institute of Health Doutor Ricardo Jorge (INSA), Lisbon, Portugal
- Luís Vieira
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Roles Investigation, Writing – review & editing
Affiliation Technology and Innovation Unit, Department of Human Genetics, National Institute of Health Doutor Ricardo Jorge (INSA), Lisbon, Portugal
- João Paulo Gomes
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Roles Investigation, Writing – review & editing
Affiliations Genomics and Bioinformatics Unit, Department of Infectious Diseases, National Institute of Health Doutor Ricardo Jorge (INSA), Lisbon, Portugal, Faculty of Veterinary Medicine, Lusófona University, Lisbon, Portugal
- Carly Aquino
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Roles Investigation, Writing – review & editing
Affiliation Delaware Public Health Laboratory, Smyrna, Delaware, United States of America
- Isabella M. Savino
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Roles Investigation, Writing – review & editing
Affiliation Delaware Public Health Laboratory, Smyrna, Delaware, United States of America
- Karinda Felton
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Roles Investigation, Writing – review & editing
Affiliation Delaware Public Health Laboratory, Smyrna, Delaware, United States of America
- Moneeb Bajwa
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Roles Investigation, Writing – review & editing
Affiliation Delaware Public Health Laboratory, Smyrna, Delaware, United States of America
- Nyjil Hayward
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Roles Investigation, Writing – review & editing
Affiliation Delaware Public Health Laboratory, Smyrna, Delaware, United States of America
- Holly Miller
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Roles Investigation, Writing – review & editing
Affiliation Delaware Public Health Laboratory, Smyrna, Delaware, United States of America
- Allison Naumann
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Roles Investigation, Writing – review & editing
Affiliation Delaware Public Health Laboratory, Smyrna, Delaware, United States of America
- Ria Allman
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Roles Investigation, Writing – review & editing
Affiliation Delaware Public Health Laboratory, Smyrna, Delaware, United States of America
- Neel Greer
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Roles Investigation, Writing – review & editing
Affiliation Delaware Public Health Laboratory, Smyrna, Delaware, United States of America
- Amary Fall
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Roles Investigation, Writing – review & editing
Affiliation Johns Hopkins School of Medicine, Baltimore, Maryland, United States of America
- Heba H. Mostafa
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Roles Investigation, Writing – review & editing
Affiliation Johns Hopkins School of Medicine, Baltimore, Maryland, United States of America
- Martin P. McHugh
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Roles Investigation, Writing – review & editing
Affiliations Viral Genotyping Reference Laboratory Edinburgh, NHS Lothian, Royal Infirmary of Edinburgh, Edinburgh, United Kingdom, School of Medicine, University of St Andrews, St Andrews, United Kingdom
- Daniel M. Maloney
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Roles Investigation, Writing – review & editing
Affiliations Viral Genotyping Reference Laboratory Edinburgh, NHS Lothian, Royal Infirmary of Edinburgh, Edinburgh, United Kingdom, Institute of Ecology and Evolution, University of Edinburgh, Edinburgh, United Kingdom
- Rebecca Dewar
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Roles Investigation, Writing – review & editing
Affiliation Viral Genotyping Reference Laboratory Edinburgh, NHS Lothian, Royal Infirmary of Edinburgh, Edinburgh, United Kingdom
- Juliet Kenicer
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Roles Investigation, Writing – review & editing
Affiliation Viral Genotyping Reference Laboratory Edinburgh, NHS Lothian, Royal Infirmary of Edinburgh, Edinburgh, United Kingdom
- Abby Parker
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Roles Investigation, Writing – review & editing
Affiliation Viral Genotyping Reference Laboratory Edinburgh, NHS Lothian, Royal Infirmary of Edinburgh, Edinburgh, United Kingdom
- Katharine Mathers
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Roles Investigation, Writing – review & editing
Affiliation Viral Genotyping Reference Laboratory Edinburgh, NHS Lothian, Royal Infirmary of Edinburgh, Edinburgh, United Kingdom
- Jonathan Wild
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Roles Investigation, Writing – review & editing
Affiliation Viral Genotyping Reference Laboratory Edinburgh, NHS Lothian, Royal Infirmary of Edinburgh, Edinburgh, United Kingdom
- Seb Cotton
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Roles Investigation, Writing – review & editing
Affiliation Viral Genotyping Reference Laboratory Edinburgh, NHS Lothian, Royal Infirmary of Edinburgh, Edinburgh, United Kingdom
- Kate E. Templeton
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Roles Investigation, Writing – review & editing
Affiliation Viral Genotyping Reference Laboratory Edinburgh, NHS Lothian, Royal Infirmary of Edinburgh, Edinburgh, United Kingdom
- George Churchwell
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Roles Investigation, Writing – review & editing
Affiliation Florida Department of Health, Bureau of Public Health Laboratories, Jacksonville, Florida, United States of America
- Philip A. Lee
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Roles Investigation, Writing – review & editing
Affiliation Florida Department of Health, Bureau of Public Health Laboratories, Jacksonville, Florida, United States of America
- Maria Pedrosa
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Roles Investigation, Writing – review & editing
Affiliation Florida Department of Health, Bureau of Public Health Laboratories, Jacksonville, Florida, United States of America
- Brenna McGruder
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Roles Investigation, Writing – review & editing
Affiliation Florida Department of Health, Bureau of Public Health Laboratories, Jacksonville, Florida, United States of America
- Sarah Schmedes
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Roles Investigation, Writing – review & editing
Affiliation Florida Department of Health, Bureau of Public Health Laboratories, Jacksonville, Florida, United States of America
- Matthew R. Plumb
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Roles Investigation, Writing – review & editing
Affiliation Minnesota Department of Health, Public Health Laboratory, St. Paul, Minnesota, United States of America
- Xiong Wang
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Roles Investigation, Writing – review & editing
Affiliation Minnesota Department of Health, Public Health Laboratory, St. Paul, Minnesota, United States of America
- Regina Bones Barcellos
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Roles Investigation, Writing – review & editing
Affiliation Centro Estadual de Vigilância em Saúde, Secretaria Estadual da Saúde do Rio Grande do Sul, Porto Alegre, Rio Grande do Sul, Brazil
- Fernanda M. S. Godinho
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Roles Investigation, Writing – review & editing
Affiliation Centro Estadual de Vigilância em Saúde, Secretaria Estadual da Saúde do Rio Grande do Sul, Porto Alegre, Rio Grande do Sul, Brazil
- Richard Steiner Salvato
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Roles Investigation, Writing – review & editing
Affiliation Centro Estadual de Vigilância em Saúde, Secretaria Estadual da Saúde do Rio Grande do Sul, Porto Alegre, Rio Grande do Sul, Brazil
- Aimee Ceniseros
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Roles Investigation, Writing – review & editing
Affiliation Idaho Bureau of Laboratories, Boise, Idaho, United States of America
- Mallery I. Breban
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Roles Investigation, Writing – review & editing
Affiliation Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, Connecticut, United States of America
- Nathan D. Grubaugh
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Roles Formal analysis, Investigation, Writing – review & editing
Affiliations Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, Connecticut, United States of America, Department of Ecology and Evolutionary Biology, Yale University, New Haven, Connecticut, United States of America
- Glen R. Gallagher
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Roles Conceptualization, Formal analysis, Investigation, Methodology, Supervision, Writing – review & editing
* E-mail: glen.gallagher@health.ri.gov (GRG); chantal.vogels@yale.edu (CBFV)
¶‡ NFGC, CC, and LG share first authorship on this work. GRG and CBFV are co-senior authors on this work.
Affiliations Massachusetts Department of Public Health, Jamaica Plain, Massachusetts, United States of America, Rhode Island Department of Health, Rhode Island State Health Laboratory, Providence, Rhode Island, United States of America
- Chantal B. F. Vogels
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Roles Conceptualization, Formal analysis, Investigation, Methodology, Supervision, Writing – original draft, Writing – review & editing
* E-mail: glen.gallagher@health.ri.gov (GRG); chantal.vogels@yale.edu (CBFV)
¶‡ NFGC, CC, and LG share first authorship on this work. GRG and CBFV are co-senior authors on this work.
Affiliation Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, Connecticut, United States of America
Competing Interests
I have read the journal’s policy and the authors of this manuscript have the following competing interests: NDG is a consultant for Tempus Labs and the National Basketball Association for work related to COVID-19. All other authors have declared that no competing interests exist.