Imperial College London
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Professor Nuno R. Faria

Faculty of Medicine, School of Public Health

Professor in Virus Genomic Epidemiology
 
 
 
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Contact

 

+44 (0)20 7594 3560n.faria

 
 
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Location

 

Sir Alexander Fleming BuildingSouth Kensington Campus

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Summary

 

Publications

Citation

BibTex format

@unpublished{Faria:2021,
author = {Faria, NM},
title = {Genomic characterisation of an emergent SARS-CoV-2 lineage in Manaus: preliminary findings},
url = {https://virological.org/t/genomic-characterisation-of-an-emergent-sars-cov-2-lineage-in-manaus-preliminary-findings/586},
year = {2021}
}
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RIS format (EndNote, RefMan)

TY  - UNPB
AB  - We have detected a new variant circulating in December in Manaus, Amazonas state, north Brazil, where very high attack rates have been estimated previously. 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. 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. These findings indicate local transmission and possibly recent increase in the frequency of a new lineage from the Amazon region. The higher diversity and the earlier sampling dates of P.1. in Manaus corroborates the travel info of recently detected cases in Japan, suggesting the direction of travel was Manaus to Japan. The recent emergence of variants with multiple shared mutations in spike raises concern about convergent evolution to a new phenotype, potentially associated with an increase in transmissibility or propensity for re-infection of individuals.
AU  - Faria,NM
PY  - 2021///
TI  - Genomic characterisation of an emergent SARS-CoV-2 lineage in Manaus: preliminary findings
UR  - https://virological.org/t/genomic-characterisation-of-an-emergent-sars-cov-2-lineage-in-manaus-preliminary-findings/586
ER  -
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