Identification of the First SARS-CoV-2 Lineage B.1.1.529 Virus Detected in Europe
We report the complete genome sequence of a severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Omicron variant (lineage B.1.1.529) from a Belgian patient with a history of recent travel to Egypt. At the time of writing, this genome constituted the first confirmed case of an infection with...
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Published in | Microbiology resource announcements Vol. 11; no. 2; p. e0116121 |
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Main Authors | , , , , , , , , , , |
Format | Journal Article |
Language | English |
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American Society for Microbiology
17.02.2022
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Abstract | We report the complete genome sequence of a severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Omicron variant (lineage B.1.1.529) from a Belgian patient with a history of recent travel to Egypt. At the time of writing, this genome constituted the first confirmed case of an infection with the Omicron variant in Europe. |
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AbstractList | We report the complete genome sequence of a severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Omicron variant (lineage B.1.1.529) from a Belgian patient with a history of recent travel to Egypt. At the time of writing, this genome constituted the first confirmed case of an infection with the Omicron variant in Europe.
ABSTRACT
We report the complete genome sequence of a severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Omicron variant (lineage B.1.1.529) from a Belgian patient with a history of recent travel to Egypt. At the time of writing, this genome constituted the first confirmed case of an infection with the Omicron variant in Europe. We report the complete genome sequence of a severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Omicron variant (lineage B.1.1.529) from a Belgian patient with a history of recent travel to Egypt. At the time of writing, this genome constituted the first confirmed case of an infection with the Omicron variant in Europe. |
Author | Martí-Carreras, Joan Baele, Guy Vanmechelen, Bert Verlinden, Jens Slechten, Bram André, Emmanuel Maes, Piet Logist, Anne-Sophie Cuypers, Lize Wawina-Bokalanga, Tony Geenen, Caspar |
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Cites_doi | 10.1056/NEJMoa2001017 10.1093/molbev/mst010 10.1093/ve/vex042 10.1093/ve/vew007 10.1093/molbev/msu300 10.1038/s41564-020-0695-z 10.1093/bioinformatics/bty407 |
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References_xml | – ident: B3 article-title: Mullen JL , Tsueng G , Latif AA , Alkuzweny M , Cano M , Haag E , Zhou J , Zeller M , Hufbauer E , Matteson N , Andersen KG , Wu C , Su AI , Gangavarapu K , Hughes LD , Center for Viral Systems Biology . 2020 . outbreak.info . https://outbreak.info . Accessed 29 November 2021 . – volume: 382 start-page: 727 year: 2020 end-page: 733 ident: B2 article-title: A novel coronavirus from patients with pneumonia in China, 2019 publication-title: N Engl J Med doi: 10.1056/NEJMoa2001017 contributor: fullname: Tan, W – ident: B4 article-title: World Health Organization . 2021 . Tracking SARS-CoV-2 variants . https://www.who.int/en/activities/tracking-SARS-CoV-2-variants . Accessed 29 November 2021 . – volume: 30 start-page: 772 year: 2013 end-page: 780 ident: B9 article-title: MAFFT multiple sequence alignment software version 7: improvements in performance and usability publication-title: Mol Biol Evol doi: 10.1093/molbev/mst010 contributor: fullname: Standley, DM – volume: 4 start-page: vex042 year: 2018 ident: B10 article-title: TreeTime: maximum-likelihood phylodynamic analysis publication-title: Virus Evol doi: 10.1093/ve/vex042 contributor: fullname: Neher, RA – volume: 2 start-page: vew007 year: 2016 ident: B11 article-title: Exploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen) publication-title: Virus Evol doi: 10.1093/ve/vew007 contributor: fullname: Pybus, OG – volume: 32 start-page: 268 year: 2015 end-page: 274 ident: B8 article-title: IQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies publication-title: Mol Biol Evol doi: 10.1093/molbev/msu300 contributor: fullname: Minh, BQ – volume: 5 start-page: 536 year: 2020 end-page: 544 ident: B1 article-title: The species Severe acute respiratory syndrome-related coronavirus: classifying 2019-nCoV and naming it SARS-CoV-2 publication-title: Nat Microbiol doi: 10.1038/s41564-020-0695-z – ident: B5 article-title: World Health Organization . 2021 . Classification of Omicron (B.1.1.529): SARS-CoV-2 variant of concern . https://www.who.int/news/item/26-11-2021-classification-of-omicron-(b.1.1.529)-sars-cov-2-variant-of-concern . Accessed 29 November 2021 . – ident: B6 article-title: Loman N , Rowe W , Rambaut A . 2020 . nCoV-2019 novel coronavirus bioinformatics protocol . https://artic.network/ncov-2019/ncov2019-bioinformatics-sop.html . Accessed 29 November 2021 . – volume: 34 start-page: 4121 year: 2018 end-page: 4123 ident: B7 article-title: Nextstrain: real-time tracking of pathogen evolution publication-title: Bioinformatics doi: 10.1093/bioinformatics/bty407 contributor: fullname: Neher, RA – ident: e_1_3_2_2_2 doi: 10.1038/s41564-020-0695-z – ident: e_1_3_2_5_2 – ident: e_1_3_2_8_2 doi: 10.1093/bioinformatics/bty407 – ident: e_1_3_2_9_2 doi: 10.1093/molbev/msu300 – ident: e_1_3_2_4_2 – ident: e_1_3_2_11_2 doi: 10.1093/ve/vex042 – ident: e_1_3_2_3_2 doi: 10.1056/NEJMoa2001017 – ident: e_1_3_2_10_2 doi: 10.1093/molbev/mst010 – ident: e_1_3_2_7_2 – ident: e_1_3_2_12_2 doi: 10.1093/ve/vew007 – ident: e_1_3_2_6_2 |
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Title | Identification of the First SARS-CoV-2 Lineage B.1.1.529 Virus Detected in Europe |
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