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Expansion of a SARS-CoV-2 Delta variant with an 872 nt deletion encompassing ORF7a, ORF7b and ORF8, Poland, July to August 2021.
Mazur-Panasiuk, Natalia; Rabalski, Lukasz; Gromowski, Tomasz; Nowicki, Grzegorz; Kowalski, Michal; Wydmanski, Witold; Szulc, Piotr; Kosinski, Maciej; Gackowska, Karolina; Drweska-Matelska, Natalia; Grabowski, Jakub; Piotrowska-Mietelska, Anna; Szewczyk, Boguslaw; Bienkowska-Szewczyk, Krystyna; Swadzba, Jakub; Labaj, Pawel; Grzybek, Maciej; Pyrc, Krzysztof.
  • Mazur-Panasiuk N; Virogenetics Laboratory of Virology, Malopolska Centre of Biotechnology, Jagiellonian University, Krakow, Poland.
  • Rabalski L; Laboratory of Recombinant Vaccines, Intercollegiate Faculty of Biotechnology of University of Gdansk and Medical University of Gdansk, Gdansk, Poland.
  • Gromowski T; Virogenetics Laboratory of Virology, Malopolska Centre of Biotechnology, Jagiellonian University, Krakow, Poland.
  • Nowicki G; Human Genome Research Variation Group, Malopolska Centre of Biotechnology, Jagiellonian University, Krakow, Poland.
  • Kowalski M; genXone SA, Research & Development Laboratory, Suchy Las, Poland.
  • Wydmanski W; Bioinformatics Research Group, Malopolska Centre of Biotechnology, Jagiellonian University, Krakow, Poland.
  • Szulc P; Bioinformatics Research Group, Malopolska Centre of Biotechnology, Jagiellonian University, Krakow, Poland.
  • Kosinski M; Bioinformatics Research Group, Malopolska Centre of Biotechnology, Jagiellonian University, Krakow, Poland.
  • Gackowska K; Laboratory of Recombinant Vaccines, Intercollegiate Faculty of Biotechnology of University of Gdansk and Medical University of Gdansk, Gdansk, Poland.
  • Drweska-Matelska N; Laboratory of Recombinant Vaccines, Intercollegiate Faculty of Biotechnology of University of Gdansk and Medical University of Gdansk, Gdansk, Poland.
  • Grabowski J; genXone SA, Research & Development Laboratory, Suchy Las, Poland.
  • Piotrowska-Mietelska A; genXone SA, Research & Development Laboratory, Suchy Las, Poland.
  • Szewczyk B; Diagnostyka Medical Laboratories, Krakow, Poland.
  • Bienkowska-Szewczyk K; Laboratory of Recombinant Vaccines, Intercollegiate Faculty of Biotechnology of University of Gdansk and Medical University of Gdansk, Gdansk, Poland.
  • Swadzba J; Laboratory of Virus Molecular Biology, Intercollegiate Faculty of Biotechnology of University of Gdansk and Medical University of Gdansk, Gdansk, Poland.
  • Labaj P; Diagnostyka Medical Laboratories, Krakow, Poland.
  • Grzybek M; Bioinformatics Research Group, Malopolska Centre of Biotechnology, Jagiellonian University, Krakow, Poland.
  • Pyrc K; Department of Tropical Parasitology, Institute of Maritime and Tropical Medicine, Medical University of Gdansk, Gdynia, Poland.
Euro Surveill ; 26(39)2021 09.
Article in English | MEDLINE | ID: covidwho-1448681
ABSTRACT
Routine genomic surveillance on samples from COVID-19 patients collected in Poland during summer 2021 revealed the emergence of a SARS-CoV-2 Delta variant with a large 872 nt deletion. This change, confirmed by Sanger and deep sequencing, causes complete loss of ORF7a, ORF7b, and ORF8 genes. The index case carrying the deletion is unknown. The standard pipeline for sequencing may mask this deletion with a long stretch of N's. Effects of this deletion on phenotype or immune evasion needs further study.
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Full text: Available Collection: International databases Database: MEDLINE Main subject: SARS-CoV-2 / COVID-19 Topics: Variants Limits: Humans Country/Region as subject: Europa Language: English Journal subject: Communicable Diseases Year: 2021 Document Type: Article Affiliation country: 1560-7917.ES.2021.26.39.2100902

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Full text: Available Collection: International databases Database: MEDLINE Main subject: SARS-CoV-2 / COVID-19 Topics: Variants Limits: Humans Country/Region as subject: Europa Language: English Journal subject: Communicable Diseases Year: 2021 Document Type: Article Affiliation country: 1560-7917.ES.2021.26.39.2100902