Emergence and spread of SARS-CoV-2 lineage B.1.620 with variant of concern-like mutations and deletions.

Autor: Dudas G; Gothenburg Global Biodiversity Centre, Gothenburg, Sweden. gytisdudas@gmail.com.; Hematology, Oncology and Transfusion Medicine Center, Vilnius University Hospital Santaros Klinikos, Vilnius, Lithuania. gytisdudas@gmail.com., Hong SL; Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven, Leuven, Belgium., Potter BI; Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven, Leuven, Belgium., Calvignac-Spencer S; Epidemiology of Highly Pathogenic Organisms, Robert Koch Institute, 13353, Berlin, Germany.; Viral Evolution, Robert Koch Institute, 13353, Berlin, Germany., Niatou-Singa FS; WWF Central African Republic Programme Office, Dzanga Sangha Protected Areas, BP 1053, Bangui, Central African Republic., Tombolomako TB; WWF Central African Republic Programme Office, Dzanga Sangha Protected Areas, BP 1053, Bangui, Central African Republic., Fuh-Neba T; WWF Central African Republic Programme Office, Dzanga Sangha Protected Areas, BP 1053, Bangui, Central African Republic., Vickos U; Infectious and Tropical Diseases Unit, Department of medicine, Amitié Hospital, Bangui, Central African Republic.; Academic Department of Pediatrics, Clinical immunology and vaccinology, Children's Hospital Bambino Gesù, IRCCS, Rome, Italy., Ulrich M; Epidemiology of Highly Pathogenic Organisms, Robert Koch Institute, 13353, Berlin, Germany., Leendertz FH; Epidemiology of Highly Pathogenic Organisms, Robert Koch Institute, 13353, Berlin, Germany., Khan K; BlueDot, Toronto, ON, M5J 1A7, Canada.; Li Ka Shing Knowledge Institute, St. Michael's Hospital, Toronto, ON, M5B 1A6, Canada.; Division of Infectious Diseases, Department of Medicine, University of Toronto, Toronto, ON, M5S 3H2, Canada., Huber C; BlueDot, Toronto, ON, M5J 1A7, Canada., Watts A; BlueDot, Toronto, ON, M5J 1A7, Canada., Olendraitė I; Hematology, Oncology and Transfusion Medicine Center, Vilnius University Hospital Santaros Klinikos, Vilnius, Lithuania.; Division of Virology, Department of Pathology, University of Cambridge, Addenbrooke's Hospital Lab, CB2 2QQ, Cambridge, UK., Snijder J; Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute of Pharmaceutical Sciences, Utrecht University, Padualaan 8, 3584 CH, Utrecht, The Netherlands., Wijnant KN; Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute of Pharmaceutical Sciences, Utrecht University, Padualaan 8, 3584 CH, Utrecht, The Netherlands., Bonvin AMJJ; Bijvoet Centre for Biomolecular Research, Faculty of Science - Chemistry, Utrecht University, Padualaan 8, 3584 CH, Utrecht, The Netherlands., Martres P; Microbiology, Centre Hospitalier René Dubos, Cergy Pontoise, France., Behillil S; Molecular Genetics of RNA viruses, CNRS UMR 3569, Université de Paris, Institut Pasteur, Paris, France.; National Reference Center for Respiratory Viruses, Institut Pasteur, Paris, France., Ayouba A; TransVIHMI, Université de Montpellier, IRD, INSERM, 911 Avenue Agropolis, 34394, Montpellier cedex, France., Maidadi MF; Centre de Recherches sur les Maladies Émergentes, Ré-émergentes et la Médecine Nucléaire, Institut de Recherches Médicales et D'études des Plantes Médicinales, Yaoundé, Cameroon., Djomsi DM; Centre de Recherches sur les Maladies Émergentes, Ré-émergentes et la Médecine Nucléaire, Institut de Recherches Médicales et D'études des Plantes Médicinales, Yaoundé, Cameroon., Godwe C; Centre de Recherches sur les Maladies Émergentes, Ré-émergentes et la Médecine Nucléaire, Institut de Recherches Médicales et D'études des Plantes Médicinales, Yaoundé, Cameroon., Butel C; TransVIHMI, Université de Montpellier, IRD, INSERM, 911 Avenue Agropolis, 34394, Montpellier cedex, France., Šimaitis A; The Office of the Government of the Republic of Lithuania, Vilnius, Lithuania., Gabrielaitė M; Center for Genomic Medicine, Rigshospitalet, Copenhagen, Denmark., Katėnaitė M; Hematology, Oncology and Transfusion Medicine Center, Vilnius University Hospital Santaros Klinikos, Vilnius, Lithuania., Norvilas R; Hematology, Oncology and Transfusion Medicine Center, Vilnius University Hospital Santaros Klinikos, Vilnius, Lithuania.; Department of Experimental, Preventive and Clinical Medicine, State Research Institute Centre for Innovative Medicine, Vilnius, Lithuania., Raugaitė L; Hematology, Oncology and Transfusion Medicine Center, Vilnius University Hospital Santaros Klinikos, Vilnius, Lithuania., Koyaweda GW; Le Laboratoire National de Biologie Clinique et de Santé Publique (LNBCSP), Bangui, Central African Republic., Kandou JK; Le Laboratoire National de Biologie Clinique et de Santé Publique (LNBCSP), Bangui, Central African Republic., Jonikas R; Department of Genetics and Molecular Medicine, Hospital of Lithuanian University of Health Sciences Kauno Klinikos, Kaunas, Lithuania., Nasvytienė I; Department of Genetics and Molecular Medicine, Hospital of Lithuanian University of Health Sciences Kauno Klinikos, Kaunas, Lithuania., Žemeckienė Ž; Department of Genetics and Molecular Medicine, Hospital of Lithuanian University of Health Sciences Kauno Klinikos, Kaunas, Lithuania., Gečys D; Institute of Cardiology, Lithuanian University of Health Sciences, Kaunas, Lithuania., Tamušauskaitė K; Institute of Cardiology, Lithuanian University of Health Sciences, Kaunas, Lithuania., Norkienė M; Institute of Biotechnology, Life Sciences Center, Vilnius University, Vilnius, Lithuania., Vasiliūnaitė E; Institute of Biotechnology, Life Sciences Center, Vilnius University, Vilnius, Lithuania., Žiogienė D; Institute of Biotechnology, Life Sciences Center, Vilnius University, Vilnius, Lithuania., Timinskas A; Institute of Biotechnology, Life Sciences Center, Vilnius University, Vilnius, Lithuania., Šukys M; Department of Genetics and Molecular Medicine, Hospital of Lithuanian University of Health Sciences Kauno Klinikos, Kaunas, Lithuania.; Department of Genetics and Molecular Medicine, Lithuanian University of Health Sciences, Kaunas, Lithuania., Šarauskas M; Department of Genetics and Molecular Medicine, Hospital of Lithuanian University of Health Sciences Kauno Klinikos, Kaunas, Lithuania., Alzbutas G; Institute for Digestive Research, Lithuanian University of Health Sciences, Kaunas, Lithuania., Aziza AA; National Institute for Biomedical Research (INRB), Avenue De la Democratie (Ex Huileries), BP 1197, Kinshasa-Gombe, Democratic Republic of the Congo.; University of Kinshasa (UNIKIN), BP 127, Kinshasa XI, Democratic Republic of the Congo., Lusamaki EK; National Institute for Biomedical Research (INRB), Avenue De la Democratie (Ex Huileries), BP 1197, Kinshasa-Gombe, Democratic Republic of the Congo.; University of Kinshasa (UNIKIN), BP 127, Kinshasa XI, Democratic Republic of the Congo., Cigolo JM; National Institute for Biomedical Research (INRB), Avenue De la Democratie (Ex Huileries), BP 1197, Kinshasa-Gombe, Democratic Republic of the Congo.; University of Kinshasa (UNIKIN), BP 127, Kinshasa XI, Democratic Republic of the Congo., Mawete FM; National Institute for Biomedical Research (INRB), Avenue De la Democratie (Ex Huileries), BP 1197, Kinshasa-Gombe, Democratic Republic of the Congo.; University of Kinshasa (UNIKIN), BP 127, Kinshasa XI, Democratic Republic of the Congo., Lofiko EL; National Institute for Biomedical Research (INRB), Avenue De la Democratie (Ex Huileries), BP 1197, Kinshasa-Gombe, Democratic Republic of the Congo., Kingebeni PM; National Institute for Biomedical Research (INRB), Avenue De la Democratie (Ex Huileries), BP 1197, Kinshasa-Gombe, Democratic Republic of the Congo.; University of Kinshasa (UNIKIN), BP 127, Kinshasa XI, Democratic Republic of the Congo., Tamfum JM; National Institute for Biomedical Research (INRB), Avenue De la Democratie (Ex Huileries), BP 1197, Kinshasa-Gombe, Democratic Republic of the Congo.; University of Kinshasa (UNIKIN), BP 127, Kinshasa XI, Democratic Republic of the Congo., Belizaire MRD; World Health Organization, Central African Republic Office, Bangui, Central African Republic., Essomba RG; National Public Health Laboratory, Ministry of Public Health, Yaoundé, Cameroon.; Faculty of Medicine and Biomedical Sciences, University of Yaoundé I, Yaoundé, Cameroon., Assoumou MCO; National Public Health Laboratory, Ministry of Public Health, Yaoundé, Cameroon.; Faculty of Medicine and Biomedical Sciences, University of Yaoundé I, Yaoundé, Cameroon., Mboringong AB; National Public Health Laboratory, Ministry of Public Health, Yaoundé, Cameroon., Dieng AB; World Health Organization, Cameroon Office, Yaoundé, Cameroon., Juozapaitė D; Hematology, Oncology and Transfusion Medicine Center, Vilnius University Hospital Santaros Klinikos, Vilnius, Lithuania., Hosch S; Swiss Tropical and Public Health Institute, Basel, Switzerland., Obama J; Ministry of Health and Social Welfare, Malabo, Equatorial Guinea., Ayekaba MO; Ministry of Health and Social Welfare, Malabo, Equatorial Guinea., Naumovas D; Hematology, Oncology and Transfusion Medicine Center, Vilnius University Hospital Santaros Klinikos, Vilnius, Lithuania., Pautienius A; Institute of Microbiology and Virology, Lithuanian University of Health Sciences, Kaunas, Lithuania., Rafaï CD; Le Laboratoire National de Biologie Clinique et de Santé Publique (LNBCSP), Bangui, Central African Republic., Vitkauskienė A; Department of Laboratory Medicine, Lithuanian University of Health Sciences, Kaunas, Lithuania., Ugenskienė R; Department of Genetics and Molecular Medicine, Hospital of Lithuanian University of Health Sciences Kauno Klinikos, Kaunas, Lithuania.; Department of Genetics and Molecular Medicine, Lithuanian University of Health Sciences, Kaunas, Lithuania., Gedvilaitė A; Institute of Biotechnology, Life Sciences Center, Vilnius University, Vilnius, Lithuania., Čereškevičius D; Department of Genetics and Molecular Medicine, Hospital of Lithuanian University of Health Sciences Kauno Klinikos, Kaunas, Lithuania.; Institute of Cardiology, Lithuanian University of Health Sciences, Kaunas, Lithuania., Lesauskaitė V; Institute of Cardiology, Lithuanian University of Health Sciences, Kaunas, Lithuania., Žemaitis L; Institute of Cardiology, Lithuanian University of Health Sciences, Kaunas, Lithuania.; National Public Health Surveillance Laboratory, Vilnius, Lithuania., Griškevičius L; Hematology, Oncology and Transfusion Medicine Center, Vilnius University Hospital Santaros Klinikos, Vilnius, Lithuania., Baele G; Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven, Leuven, Belgium. guy.baele@kuleuven.be.
Jazyk: angličtina
Zdroj: Nature communications [Nat Commun] 2021 Oct 01; Vol. 12 (1), pp. 5769. Date of Electronic Publication: 2021 Oct 01.
DOI: 10.1038/s41467-021-26055-8
Abstrakt: Distinct SARS-CoV-2 lineages, discovered through various genomic surveillance initiatives, have emerged during the pandemic following unprecedented reductions in worldwide human mobility. We here describe a SARS-CoV-2 lineage - designated B.1.620 - discovered in Lithuania and carrying many mutations and deletions in the spike protein shared with widespread variants of concern (VOCs), including E484K, S477N and deletions HV69Δ, Y144Δ, and LLA241/243Δ. As well as documenting the suite of mutations this lineage carries, we also describe its potential to be resistant to neutralising antibodies, accompanying travel histories for a subset of European cases, evidence of local B.1.620 transmission in Europe with a focus on Lithuania, and significance of its prevalence in Central Africa owing to recent genome sequencing efforts there. We make a case for its likely Central African origin using advanced phylogeographic inference methodologies incorporating recorded travel histories of infected travellers.
(© 2021. The Author(s).)
Databáze: MEDLINE
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