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Selection analysis identifies unusual clustered mutational changes in Omicron lineage BA.1 that likely impact Spike function.
Martin, Darren P; Lytras, Spyros; Lucaci, Alexander G; Maier, Wolfgang; Grüning, Björn; Shank, Stephen D; Weaver, Steven; MacLean, Oscar A; Orton, Richard J; Lemey, Philippe; Boni, Maciej F; Tegally, Houriiyah; Harkins, Gordon; Scheepers, Cathrine; Bhiman, Jinal N; Everatt, Josie; Amoako, Daniel G; San, James Emmanuel; Giandhari, Jennifer; Sigal, Alex; Williamson, Carolyn; Hsiao, Nei-Yuan; von Gottberg, Anne; De Klerk, Arne; Shafer, Robert W; Robertson, David L; Wilkinson, Robert J; Sewell, B Trevor; Lessells, Richard; Nekrutenko, Anton; Greaney, Allison J; Starr, Tyler N; Bloom, Jesse D; Murrell, Ben; Wilkinson, Eduan; Gupta, Ravindra K; de Oliveira, Tulio; Kosakovsky Pond, Sergei L.
Affiliation
  • Martin DP; Institute of Infectious Diseases and Molecular Medicine, Division Of Computational Biology, Department of Integrative Biomedical Sciences, University of Cape Town, Cape Town 7701, South Africa.
  • Lytras S; MRC-University of Glasgow Centre for Virus Research, University of Glasgow, Glasgow G61 1QH, UK.
  • Lucaci AG; Institute for Genomics and Evolutionary Medicine, Department of Biology, Temple University, Philadelphia, PA 19122, USA.
  • Maier W; Bioinformatics Group, Department of Computer Science, University of Freiburg, Freiburg, Germany, usegalaxy.eu.
  • Grüning B; Bioinformatics Group, Department of Computer Science, University of Freiburg, Freiburg, Germany, usegalaxy.eu.
  • Shank SD; Institute for Genomics and Evolutionary Medicine, Department of Biology, Temple University, Philadelphia, PA 19122, USA.
  • Weaver S; Institute for Genomics and Evolutionary Medicine, Department of Biology, Temple University, Philadelphia, PA 19122, USA.
  • MacLean OA; MRC-University of Glasgow Centre for Virus Research, University of Glasgow, Glasgow G61 1QH, UK.
  • Orton RJ; MRC-University of Glasgow Centre for Virus Research, University of Glasgow, Glasgow G61 1QH, UK.
  • Lemey P; Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven, Leuven, Belgium.
  • Boni MF; Center for Infectious Disease Dynamics, Department of Biology, Pennsylvania State University, University Park, PA, USA.
  • Tegally H; KwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), School of Laboratory Medicine & Medical Sciences, University of KwaZulu-Natal, Durban, South Africa.
  • Harkins G; South African National Bioinformatics Institute, University of the Western Cape, Cape Town, South Africa.
  • Scheepers C; National Institute for Communicable Diseases (NICD) of the National Health Laboratory Service (NHLS), Johannesburg, South Africa.
  • Bhiman JN; SA MRC Antibody Immunity Research Unit, School of Pathology, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg, South Africa.
  • Everatt J; National Institute for Communicable Diseases (NICD) of the National Health Laboratory Service (NHLS), Johannesburg, South Africa.
  • Amoako DG; SA MRC Antibody Immunity Research Unit, School of Pathology, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg, South Africa.
  • San JE; National Institute for Communicable Diseases (NICD) of the National Health Laboratory Service (NHLS), Johannesburg, South Africa.
  • Giandhari J; National Institute for Communicable Diseases (NICD) of the National Health Laboratory Service (NHLS), Johannesburg, South Africa.
  • Sigal A; KwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), School of Laboratory Medicine & Medical Sciences, University of KwaZulu-Natal, Durban, South Africa.
  • Williamson C; Africa Health Research Institute, Durban, South Africa.
  • von Gottberg A; Institute of Infectious Disease and Molecular Medicine, Department of Pathology, University of Cape Town, Cape Town, South Africa.
  • De Klerk A; Division of Medical Virology, University of Cape Town and National Health Laboratory Service, Cape Town South Africa.
  • Shafer RW; Wellcome Center for Infectious Diseases Research in Africa, Institute of Infectious Disease and Molecular Medicine and Department of Medicine, University of Cape Town, South Africa.
  • Robertson DL; Division of Medical Virology, University of Cape Town and National Health Laboratory Service, Cape Town South Africa.
  • Wilkinson RJ; National Institute for Communicable Diseases (NICD) of the National Health Laboratory Service (NHLS), Johannesburg, South Africa.
  • Sewell BT; School of Pathology, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg.
  • Lessells R; Institute of Infectious Diseases and Molecular Medicine, Division Of Computational Biology, Department of Integrative Biomedical Sciences, University of Cape Town, Cape Town 7701, South Africa.
  • Nekrutenko A; Division of Infectious Diseases, Department of medicine, Stanford university, Stanford, CA, USA.
  • Greaney AJ; MRC-University of Glasgow Centre for Virus Research, University of Glasgow, Glasgow G61 1QH, UK.
  • Starr TN; Wellcome Center for Infectious Diseases Research in Africa, Institute of Infectious Disease and Molecular Medicine and Department of Medicine, University of Cape Town, South Africa.
  • Bloom JD; Francis Crick Institute, Midland Road, London NW1 1AT, UK.
  • Murrell B; Department of Infectious Diseases, Imperial College London, W12 0NN, UK.
  • Wilkinson E; Structural Biology Research Unit, Department of Integrative Biomedical Sciences, Institute for Infectious Diseases and Molecular Medicine, University of Cape Town, South Africa.
  • Gupta RK; KwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), School of Laboratory Medicine & Medical Sciences, University of KwaZulu-Natal, Durban, South Africa.
  • de Oliveira T; Department Of Biochemistry and Molecular Biology, The Pennsylvania State University, usegalaxy.org.
  • Kosakovsky Pond SL; Basic Sciences Division and Computational Biology Program, Fred Hutchinson Cancer Research Center, Seattle, WA 98109, USA.
bioRxiv ; 2022 Jan 18.
Article in En | MEDLINE | ID: mdl-35075456
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Full text: 1 Collection: 01-internacional Database: MEDLINE Language: En Journal: BioRxiv Year: 2022 Document type: Article Affiliation country: Sudáfrica Country of publication: Estados Unidos
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Full text: 1 Collection: 01-internacional Database: MEDLINE Language: En Journal: BioRxiv Year: 2022 Document type: Article Affiliation country: Sudáfrica Country of publication: Estados Unidos