Rapid Detection and Characterization of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Omicron Variant in a Returning Traveler
Abstract We describe rapid detection of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Omicron variant using targeted spike single-nucleotide polymorphism polymerase chain reaction and viral genome sequencing. This case occurred in a fully vaccinated and boosted returning traveler...
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| Published in | Clinical infectious diseases Vol. 75; no. 1; pp. e350 - e353 |
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| Main Authors | , , , , , , , , , , , , , , , , , , , |
| Format | Journal Article |
| Language | English |
| Published |
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Oxford University Press
24.08.2022
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| Abstract | Abstract
We describe rapid detection of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Omicron variant using targeted spike single-nucleotide polymorphism polymerase chain reaction and viral genome sequencing. This case occurred in a fully vaccinated and boosted returning traveler with mild symptoms who was identified through community surveillance rather than clinical care. |
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| AbstractList | We describe rapid detection of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Omicron variant using targeted spike single-nucleotide polymorphism polymerase chain reaction and viral genome sequencing. This case occurred in a fully vaccinated and boosted returning traveler with mild symptoms who was identified through community surveillance rather than clinical care. Abstract We describe rapid detection of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Omicron variant using targeted spike single-nucleotide polymorphism polymerase chain reaction and viral genome sequencing. This case occurred in a fully vaccinated and boosted returning traveler with mild symptoms who was identified through community surveillance rather than clinical care. We describe rapid detection of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Omicron variant using targeted spike single-nucleotide polymorphism polymerase chain reaction and viral genome sequencing. This case occurred in a fully vaccinated and boosted returning traveler with mild symptoms who was identified through community surveillance rather than clinical care.We describe rapid detection of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Omicron variant using targeted spike single-nucleotide polymorphism polymerase chain reaction and viral genome sequencing. This case occurred in a fully vaccinated and boosted returning traveler with mild symptoms who was identified through community surveillance rather than clinical care. |
| Author | Nguyen, Phuong Vi Edara, Venkata Viswanadh Douek, Daniel C Godbole, Sucheta Suthar, Mehul S Khosravi, Dara Henry, Amy R Gagne, Matthew Rouphael, Nadine Foster, Stephanie L Sexton, Mary Elizabeth Wang, Ethan Roberts-Torres, Jesmine Piantadosi, Anne Moore, Kathryn M Taz, Azmain Arthur, Robert A Waggoner, Jesse J Patel, Mit Carmola, Ludy R |
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| Cites_doi | 10.1101/2021.09.15.21263618 10.3390/v13091693 10.3201/eid2607.201285 10.1128/JCM.02226-20 10.1038/s41586-021-03402-9 10.15585/mmwr.mm7003e2 10.1128/JCM.01446-21 |
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| Keywords | multiplex PCR SARS-CoV-2 vaccine Omicron genomic surveillance |
| Language | English |
| License | This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial-NoDerivs licence (https://creativecommons.org/licenses/by-nc-nd/4.0/), which permits non-commercial reproduction and distribution of the work, in any medium, provided the original work is not altered or transformed in any way, and that the work is properly cited. For commercial re-use, please contact journals.permissions@oup.com https://creativecommons.org/licenses/by-nc-nd/4.0 The Author(s) 2022. Published by Oxford University Press for the Infectious Diseases Society of America. |
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| References | World Health Organization. (2022082503020245900_CIT0001) Galloway (2022082503020245900_CIT0006) 2021; 70 UK Health Security Agency. (2022082503020245900_CIT0012) 2021 Martinez (2022082503020245900_CIT0004) 2021 Addetia (2022082503020245900_CIT0009) 2020; 59 Patel (2022082503020245900_CIT0010) 2021 Tegally (2022082503020245900_CIT0007) 2021; 592 Wilhelm (2022082503020245900_CIT0008) 2021; 13 Waggoner (2022082503020245900_CIT0003) 2020; 26 Latif (2022082503020245900_CIT0002) Babiker (2022082503020245900_CIT0005) 2021; 59 O’Toole (2022082503020245900_CIT0011) 2021; 6 |
| References_xml | – year: 2021 ident: 2022082503020245900_CIT0004 article-title: SARS-CoV-2 variants in Paraguay: detection and surveillance with a readily modifiable, multiplex real-time RT-PCR publication-title: medRxiv doi: 10.1101/2021.09.15.21263618 – volume: 13 start-page: 1693 year: 2021 ident: 2022082503020245900_CIT0008 article-title: Antibody-mediated neutralization of authentic SARS-CoV-2 B.1.617 variants harboring L452R and T478K/E484Q publication-title: Viruses doi: 10.3390/v13091693 – ident: 2022082503020245900_CIT0001 – volume: 26 start-page: 1633 year: 2020 ident: 2022082503020245900_CIT0003 article-title: Triplex real-time RT-PCR for severe acute respiratory syndrome coronavirus 2 publication-title: Emerg Infect Dis doi: 10.3201/eid2607.201285 – volume: 59 start-page: e02226-20 year: 2020 ident: 2022082503020245900_CIT0009 article-title: Sensitive recovery of complete SARS-CoV-2 genomes from clinical samples by use of Swift Biosciences’ SARS-CoV-2 multiplex amplicon sequencing panel publication-title: J Clin Microbiol doi: 10.1128/JCM.02226-20 – volume-title: nf-core/viralrecon: nf-core/viralrecon v2.2 - Tin Turtle year: 2021 ident: 2022082503020245900_CIT0010 – volume: 6 start-page: 121 year: 2021 ident: 2022082503020245900_CIT0011 article-title: Tracking the international spread of SARS-CoV-2 lineages B.1.1.7 and B.1.351/501Y-V2 with grinch publication-title: Wellcome Open Res – year: 2021 ident: 2022082503020245900_CIT0012 – ident: 2022082503020245900_CIT0002 – volume: 592 start-page: 438 year: 2021 ident: 2022082503020245900_CIT0007 article-title: Detection of a SARS-CoV-2 variant of concern in South Africa publication-title: Nature doi: 10.1038/s41586-021-03402-9 – volume: 70 start-page: 95 year: 2021 ident: 2022082503020245900_CIT0006 article-title: Emergence of SARS-CoV-2 B.1.1.7 lineage—United States, December 29, 2020 publication-title: MMWR Morb Mortal Wkly Rep doi: 10.15585/mmwr.mm7003e2 – volume: 59 start-page: e0144621 year: 2021 ident: 2022082503020245900_CIT0005 article-title: Single-amplicon multiplex real-time reverse transcription-PCR with tiled probes to detect SARS-CoV-2 spike mutations associated with variants of concern publication-title: J Clin Microbiol doi: 10.1128/JCM.01446-21 |
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We describe rapid detection of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Omicron variant using targeted spike single-nucleotide... We describe rapid detection of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Omicron variant using targeted spike single-nucleotide... |
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| SubjectTerms | Brief Report COVID-19 - diagnosis Genome, Viral Humans Polymerase Chain Reaction SARS-CoV-2 - genetics |
| Title | Rapid Detection and Characterization of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Omicron Variant in a Returning Traveler |
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