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Preliminary findings3/17/2023 The higher diversity and the earlier sampling dates of P.1. These findings indicate local transmission and possibly recent increase in the frequency of a new lineage from the Amazon region. Importantly, the P.1 lineage was identified in 42% (13 out of 31) RT-PCR positive samples collected between 15 to 23 December, but it was absent in 26 publicly available genome surveillance samples collected in Manaus between March to November 2020. The new lineage, named P.1 (descendent of B.1.1.28), contains a unique constellation of lineage defining mutations, including several mutations of known biological importance such as E484K, K417T, and N501Y. We have detected a new variant circulating in December in Manaus, Amazonas state, north Brazil, where very high attack rates have been estimated previously. Institute for Microbiology and Infection, University of Birmingham, Birmingham, UK.Institute of Evolutionary Biology, University of Edinburgh, Edinburgh, UK.HEMOAM, Fundação de Hematologia e Hemoterapia do Amazonas, Manaus, Brazil.CDL Laboratório Santos e Vidal Ltda., Manaus, Brazil.DB Diagnósticos do Brasil, São Paulo, Brazil.Departamento de Genética, Ecologia e Evolução, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil.Department of Infectious Disease, School of Medicine, University of São Paulo, São Paulo, Brazil.Institute of Tropical Medicine, University of São Paulo, São Paulo, Brazil.Department of Zoology, University of Oxford, Oxford, United Kingdom.MRC Centre for Global Infectious Disease Analysis, J-IDEA, Imperial College London, London, United Kingdom.Sabino 3,4, on behalf of CADDE Genomic Network 11 Carvalho 8, Andrew Rambaut 9, Nick Loman 10, Oliver G. Faria 1,2,3, Ingra Morales Claro 3,4, Darlan Candido 2,3, Lucas A. Genomic characterisation of an emergent SARS-CoV-2 lineage in Manaus: preliminary findings
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