Cargando…

1525. The Impact of Traveler-Based Genomic Surveillance on SARS-CoV-2 Variant Detection in Arriving International Air Travelers– United States, November 29, 2021-April 24, 2022

BACKGROUND: International travel facilitates SARS-CoV-2 spread globally. Early detection of variants among arriving international travelers could provide viral information about introduction of variants with differing infectivity, virulence, and vaccine effectiveness, enabling adjustments to treatme...

Descripción completa

Detalles Bibliográficos
Autores principales: Appiah, Grace D, Smith, Teresa C, Wegrzyn, Renee, Morfino, Robert C, Guagliardo, Sarah, Milford, Scott, Walker, Allison Taylor, Ernst, Ezra T, Darrow, William W, Li, Siyao Lisa, Aichele, Thomas, Rothstein, Andrew, Rome, Benjamin, MacCannell, Duncan, Woronoff, Gabrielle, Robison, Keith, Dai, Dongjuan, Girinathan, Brintha, Hicks, Allison, Cosca, Bryan, Plocik, Alex, Simen, Birgitte, Moriarty, Leah, Cetron, Martin S, Friedman, Cindy R
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9752054/
http://dx.doi.org/10.1093/ofid/ofac492.087
_version_ 1784850624775454720
author Appiah, Grace D
Smith, Teresa C
Wegrzyn, Renee
Morfino, Robert C
Guagliardo, Sarah
Milford, Scott
Milford, Scott
Walker, Allison Taylor
Ernst, Ezra T
Darrow, William W
Li, Siyao Lisa
Aichele, Thomas
Rothstein, Andrew
Rome, Benjamin
MacCannell, Duncan
Woronoff, Gabrielle
Robison, Keith
Dai, Dongjuan
Girinathan, Brintha
Hicks, Allison
Cosca, Bryan
Plocik, Alex
Simen, Birgitte
Moriarty, Leah
Cetron, Martin S
Friedman, Cindy R
Friedman, Cindy R
Friedman, Cindy R
Friedman, Cindy R
author_facet Appiah, Grace D
Smith, Teresa C
Wegrzyn, Renee
Morfino, Robert C
Guagliardo, Sarah
Milford, Scott
Milford, Scott
Walker, Allison Taylor
Ernst, Ezra T
Darrow, William W
Li, Siyao Lisa
Aichele, Thomas
Rothstein, Andrew
Rome, Benjamin
MacCannell, Duncan
Woronoff, Gabrielle
Robison, Keith
Dai, Dongjuan
Girinathan, Brintha
Hicks, Allison
Cosca, Bryan
Plocik, Alex
Simen, Birgitte
Moriarty, Leah
Cetron, Martin S
Friedman, Cindy R
Friedman, Cindy R
Friedman, Cindy R
Friedman, Cindy R
author_sort Appiah, Grace D
collection PubMed
description BACKGROUND: International travel facilitates SARS-CoV-2 spread globally. Early detection of variants among arriving international travelers could provide viral information about introduction of variants with differing infectivity, virulence, and vaccine effectiveness, enabling adjustments to treatment and prevention strategies. We initiated a genomic surveillance program at 4 US airports to detect SARS-CoV-2 variants among arriving international travelers. METHODS: Between November 29, 2021-April 24, 2022, we enrolled arriving air travelers (≥18 years) from flights originating in 16 countries on 5 continents. At four airports, participants self-collected nasal swab samples that were pooled with 5–25 other samples by country of flight. Participants were also given a take-home saliva collection kit; saliva was collected 3-5 days after arrival and mailed back to the laboratory. SARS-CoV-2 reverse transcription–polymerase chain reaction (RT-PCR) was performed on all samples at the laboratory. Positives underwent whole genome sequencing. Demographic, clinical, and travel information was collected. RESULTS: We enrolled 28,656 travelers; median age was 42 years (interquartile range 31-55), 48% were female, and 99.4% self-reported COVID-19 vaccination. Overall, 19% (504/2,666) of pooled and 7.5% (285/3804) of individual samples were positive for SARS-CoV-2. Highest pool positivity of 46% occurred during January 3–10, 2022 (Figure 1). Omicron variant accounted for 97% of sequences (Figure 2). We detected the earliest reporting of Omicron sub-lineages BA.2 and BA.3 (7 and 43 days earlier than reported elsewhere) in the United States and North America, respectively. During April 4–18, we detected an increasing trend of pool positivity among travelers on South African flights, detecting one of the first US-reported BA.4 sub-lineages consistent with early surge of cases in South Africa. Weekly pooled positivity for travelers on South African flights aligned with World Health Organization (WHO)-reported 7-day COVID-19 incidence rates over the same period (Figure 3). [Figure: see text] [Figure: see text] [Figure: see text] CONCLUSION: This genomic sequencing surveillance platform is a model for traveler-based SARS-CoV-2 genomic surveillance that can be used as an early warning system to detect future outbreaks and pandemics. DISCLOSURES: Renee Wegrzyn, PhD, Ginkgo Bioworks: Stocks/Bonds Robert C. Morfino, MBA, Ginkgo Bioworks Inc: Employee|Ginkgo Bioworks Inc: Stocks/Bonds Scott Milford, n/a, XpresSpa Group, Inc: Stocks/Bonds Scott Milford, n/a, XpresSpa Group, Inc: Stocks/Bonds Ezra T. Ernst, n/a, XpresSpa Group, Inc: Ownership Interest|XpresSpa Group, Inc: Stocks/Bonds William W. Darrow, n/a, XpresSpa Group, Inc: Stocks/Bonds Siyao Lisa Li, n/a, Ginkgo Bioworks, Inc: Grant/Research Support|Ginkgo Bioworks, Inc: Stocks/Bonds Thomas Aichele, n/a, Ginkgo Bioworks, Inc: Grant/Research Support|Ginkgo Bioworks, Inc: Stocks/Bonds Andrew Rothstein, n/a, Ginkgo Bioworks, Inc: Grant/Research Support|Ginkgo Bioworks, Inc: Stocks/Bonds Benjamin Rome, MBA, Ginkgo Bioworks, Inc: Grant/Research Support|Ginkgo Bioworks, Inc: Stocks/Bonds Gabrielle Woronoff, PhD, Ginkgo Bioworks, Inc: Grant/Research Support|Ginkgo Bioworks, Inc: Stocks/Bonds Keith Robison, PhD, Ginkgo Bioworks, Inc: Grant/Research Support|Ginkgo Bioworks, Inc: Stocks/Bonds Dongjuan Dai, PhD, Ginkgo Bioworks, Inc: Grant/Research Support|Ginkgo Bioworks, Inc: Stocks/Bonds Allison Hicks, PhD, Ginkgo Bioworks: I am a current employee|Ginkgo Bioworks: Stocks/Bonds Bryan Cosca, n/a, Ginkgo Bioworks, Inc: Grant/Research Support|Ginkgo Bioworks, Inc: Stocks/Bonds Alex Plocik, PhD, Ginkgo Bioworks, Inc: Grant/Research Support|Ginkgo Bioworks, Inc: Stocks/Bonds Birgitte Simen, PhD, Ginkgo Bioworks: I am a current employee|Ginkgo Bioworks: Stocks/Bonds.
format Online
Article
Text
id pubmed-9752054
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher Oxford University Press
record_format MEDLINE/PubMed
spelling pubmed-97520542022-12-16 1525. The Impact of Traveler-Based Genomic Surveillance on SARS-CoV-2 Variant Detection in Arriving International Air Travelers– United States, November 29, 2021-April 24, 2022 Appiah, Grace D Smith, Teresa C Wegrzyn, Renee Morfino, Robert C Guagliardo, Sarah Milford, Scott Milford, Scott Walker, Allison Taylor Ernst, Ezra T Darrow, William W Li, Siyao Lisa Aichele, Thomas Rothstein, Andrew Rome, Benjamin MacCannell, Duncan Woronoff, Gabrielle Robison, Keith Dai, Dongjuan Girinathan, Brintha Hicks, Allison Cosca, Bryan Plocik, Alex Simen, Birgitte Moriarty, Leah Cetron, Martin S Friedman, Cindy R Friedman, Cindy R Friedman, Cindy R Friedman, Cindy R Open Forum Infect Dis Abstracts BACKGROUND: International travel facilitates SARS-CoV-2 spread globally. Early detection of variants among arriving international travelers could provide viral information about introduction of variants with differing infectivity, virulence, and vaccine effectiveness, enabling adjustments to treatment and prevention strategies. We initiated a genomic surveillance program at 4 US airports to detect SARS-CoV-2 variants among arriving international travelers. METHODS: Between November 29, 2021-April 24, 2022, we enrolled arriving air travelers (≥18 years) from flights originating in 16 countries on 5 continents. At four airports, participants self-collected nasal swab samples that were pooled with 5–25 other samples by country of flight. Participants were also given a take-home saliva collection kit; saliva was collected 3-5 days after arrival and mailed back to the laboratory. SARS-CoV-2 reverse transcription–polymerase chain reaction (RT-PCR) was performed on all samples at the laboratory. Positives underwent whole genome sequencing. Demographic, clinical, and travel information was collected. RESULTS: We enrolled 28,656 travelers; median age was 42 years (interquartile range 31-55), 48% were female, and 99.4% self-reported COVID-19 vaccination. Overall, 19% (504/2,666) of pooled and 7.5% (285/3804) of individual samples were positive for SARS-CoV-2. Highest pool positivity of 46% occurred during January 3–10, 2022 (Figure 1). Omicron variant accounted for 97% of sequences (Figure 2). We detected the earliest reporting of Omicron sub-lineages BA.2 and BA.3 (7 and 43 days earlier than reported elsewhere) in the United States and North America, respectively. During April 4–18, we detected an increasing trend of pool positivity among travelers on South African flights, detecting one of the first US-reported BA.4 sub-lineages consistent with early surge of cases in South Africa. Weekly pooled positivity for travelers on South African flights aligned with World Health Organization (WHO)-reported 7-day COVID-19 incidence rates over the same period (Figure 3). [Figure: see text] [Figure: see text] [Figure: see text] CONCLUSION: This genomic sequencing surveillance platform is a model for traveler-based SARS-CoV-2 genomic surveillance that can be used as an early warning system to detect future outbreaks and pandemics. DISCLOSURES: Renee Wegrzyn, PhD, Ginkgo Bioworks: Stocks/Bonds Robert C. Morfino, MBA, Ginkgo Bioworks Inc: Employee|Ginkgo Bioworks Inc: Stocks/Bonds Scott Milford, n/a, XpresSpa Group, Inc: Stocks/Bonds Scott Milford, n/a, XpresSpa Group, Inc: Stocks/Bonds Ezra T. Ernst, n/a, XpresSpa Group, Inc: Ownership Interest|XpresSpa Group, Inc: Stocks/Bonds William W. Darrow, n/a, XpresSpa Group, Inc: Stocks/Bonds Siyao Lisa Li, n/a, Ginkgo Bioworks, Inc: Grant/Research Support|Ginkgo Bioworks, Inc: Stocks/Bonds Thomas Aichele, n/a, Ginkgo Bioworks, Inc: Grant/Research Support|Ginkgo Bioworks, Inc: Stocks/Bonds Andrew Rothstein, n/a, Ginkgo Bioworks, Inc: Grant/Research Support|Ginkgo Bioworks, Inc: Stocks/Bonds Benjamin Rome, MBA, Ginkgo Bioworks, Inc: Grant/Research Support|Ginkgo Bioworks, Inc: Stocks/Bonds Gabrielle Woronoff, PhD, Ginkgo Bioworks, Inc: Grant/Research Support|Ginkgo Bioworks, Inc: Stocks/Bonds Keith Robison, PhD, Ginkgo Bioworks, Inc: Grant/Research Support|Ginkgo Bioworks, Inc: Stocks/Bonds Dongjuan Dai, PhD, Ginkgo Bioworks, Inc: Grant/Research Support|Ginkgo Bioworks, Inc: Stocks/Bonds Allison Hicks, PhD, Ginkgo Bioworks: I am a current employee|Ginkgo Bioworks: Stocks/Bonds Bryan Cosca, n/a, Ginkgo Bioworks, Inc: Grant/Research Support|Ginkgo Bioworks, Inc: Stocks/Bonds Alex Plocik, PhD, Ginkgo Bioworks, Inc: Grant/Research Support|Ginkgo Bioworks, Inc: Stocks/Bonds Birgitte Simen, PhD, Ginkgo Bioworks: I am a current employee|Ginkgo Bioworks: Stocks/Bonds. Oxford University Press 2022-12-15 /pmc/articles/PMC9752054/ http://dx.doi.org/10.1093/ofid/ofac492.087 Text en © The Author(s) 2022. Published by Oxford University Press on behalf of Infectious Diseases Society of America. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Abstracts
Appiah, Grace D
Smith, Teresa C
Wegrzyn, Renee
Morfino, Robert C
Guagliardo, Sarah
Milford, Scott
Milford, Scott
Walker, Allison Taylor
Ernst, Ezra T
Darrow, William W
Li, Siyao Lisa
Aichele, Thomas
Rothstein, Andrew
Rome, Benjamin
MacCannell, Duncan
Woronoff, Gabrielle
Robison, Keith
Dai, Dongjuan
Girinathan, Brintha
Hicks, Allison
Cosca, Bryan
Plocik, Alex
Simen, Birgitte
Moriarty, Leah
Cetron, Martin S
Friedman, Cindy R
Friedman, Cindy R
Friedman, Cindy R
Friedman, Cindy R
1525. The Impact of Traveler-Based Genomic Surveillance on SARS-CoV-2 Variant Detection in Arriving International Air Travelers– United States, November 29, 2021-April 24, 2022
title 1525. The Impact of Traveler-Based Genomic Surveillance on SARS-CoV-2 Variant Detection in Arriving International Air Travelers– United States, November 29, 2021-April 24, 2022
title_full 1525. The Impact of Traveler-Based Genomic Surveillance on SARS-CoV-2 Variant Detection in Arriving International Air Travelers– United States, November 29, 2021-April 24, 2022
title_fullStr 1525. The Impact of Traveler-Based Genomic Surveillance on SARS-CoV-2 Variant Detection in Arriving International Air Travelers– United States, November 29, 2021-April 24, 2022
title_full_unstemmed 1525. The Impact of Traveler-Based Genomic Surveillance on SARS-CoV-2 Variant Detection in Arriving International Air Travelers– United States, November 29, 2021-April 24, 2022
title_short 1525. The Impact of Traveler-Based Genomic Surveillance on SARS-CoV-2 Variant Detection in Arriving International Air Travelers– United States, November 29, 2021-April 24, 2022
title_sort 1525. the impact of traveler-based genomic surveillance on sars-cov-2 variant detection in arriving international air travelers– united states, november 29, 2021-april 24, 2022
topic Abstracts
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9752054/
http://dx.doi.org/10.1093/ofid/ofac492.087
work_keys_str_mv AT appiahgraced 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT smithteresac 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT wegrzynrenee 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT morfinorobertc 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT guagliardosarah 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT milfordscott 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT milfordscott 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT walkerallisontaylor 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT ernstezrat 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT darrowwilliamw 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT lisiyaolisa 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT aichelethomas 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT rothsteinandrew 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT romebenjamin 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT maccannellduncan 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT woronoffgabrielle 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT robisonkeith 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT daidongjuan 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT girinathanbrintha 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT hicksallison 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT coscabryan 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT plocikalex 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT simenbirgitte 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT moriartyleah 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT cetronmartins 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT friedmancindyr 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT friedmancindyr 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT friedmancindyr 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022
AT friedmancindyr 1525theimpactoftravelerbasedgenomicsurveillanceonsarscov2variantdetectioninarrivinginternationalairtravelersunitedstatesnovember292021april242022