Replacement of the Gamma by the Delta variant in Brazil: Impact of lineage displacement on the ongoing pandemic

Detalhes bibliográficos
Autor(a) principal: Giovanetti, Marta
Data de Publicação: 2022
Outros Autores: Fonseca, Vagner, Wilkinson, Eduan, Tegally, Houriiyah, San, Emmanuel James, Althaus, Christian L., Xavier, Joilson, Slavov, Svetoslav Nanev, Viala, Vincent Louis, Jeronimo Lima, Alex Ranieri, Ribeiro, Gabriela, Souza-Neto, Jayme A. [UNESP], Fukumasu, Heidge, Coutinho, Luiz Lehmann, Cunha, Rivaldo Venancio da, Freitas, Carla, e Melo, Carlos F. Campelo de A., Araujo, Wildo Navegantes de, Do Carmo Said, Rodrigo Fabiano, Almiron, Maria, Oliveira, Tulio de, Sampaio, Sandra Coccuzzo, Elias, Maria Carolina, Covas, Dimas Tadeu, Holmes, Edward C., Lourenco, Jose, Kashima, Simone, Junior de Alcantara, Luiz Carlos
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Institucional da UNESP
Texto Completo: http://dx.doi.org/10.1093/ve/veac024
http://hdl.handle.net/11449/218593
Resumo: The coronavirus disease 2019 (COVID-19) epidemic in Brazil was driven mainly by the spread of Gamma (P.1), a locally emerged variant of concern (VOC) that was first detected in early January 2021. This variant was estimated to be responsible for more than 96 per cent of cases reported between January and June 2021, being associated with increased transmissibility and disease severity, a reduction in neutralization antibodies and effectiveness of treatments or vaccines, and diagnostic detection failure. Here we show that, following several importations predominantly from the USA, the Delta variant rapidly replaced Gamma after July 2021. However, in contrast to what was seen in other countries, the rapid spread of Delta did not lead to a large increase in the number of cases and deaths reported in Brazil. We suggest that this was likely due to the relatively successful early vaccination campaign coupled with natural immunity acquired following prior infection with Gamma. Our data reinforce reports of the increased transmissibility of the Delta variant and, considering the increasing concern due to the recently identified Omicron variant, argues for the necessity to strengthen genomic monitoring on a national level to quickly detect the emergence and spread of other VOCs that might threaten global health.
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spelling Replacement of the Gamma by the Delta variant in Brazil: Impact of lineage displacement on the ongoing pandemicGenomic monitoringvariants replacmentBrazilGammaDeltaThe coronavirus disease 2019 (COVID-19) epidemic in Brazil was driven mainly by the spread of Gamma (P.1), a locally emerged variant of concern (VOC) that was first detected in early January 2021. This variant was estimated to be responsible for more than 96 per cent of cases reported between January and June 2021, being associated with increased transmissibility and disease severity, a reduction in neutralization antibodies and effectiveness of treatments or vaccines, and diagnostic detection failure. Here we show that, following several importations predominantly from the USA, the Delta variant rapidly replaced Gamma after July 2021. However, in contrast to what was seen in other countries, the rapid spread of Delta did not lead to a large increase in the number of cases and deaths reported in Brazil. We suggest that this was likely due to the relatively successful early vaccination campaign coupled with natural immunity acquired following prior infection with Gamma. Our data reinforce reports of the increased transmissibility of the Delta variant and, considering the increasing concern due to the recently identified Omicron variant, argues for the necessity to strengthen genomic monitoring on a national level to quickly detect the emergence and spread of other VOCs that might threaten global health.National Institutes of Health USACRP-ICGEB RESEARCH GRANT 2020 ProjectOswaldo Cruz FoundationBrazilian Ministry of HealthConselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)Fundação de Amparo à Pesquisa do Estado do Rio de Janeiro (FAPERJ)European Union's Horizon 2020 research and innovation programme-project EpiPoseSouth African Department of Science and InnovationSouth African Medical Research Council under the BRICS JAFAustralian Research Council Laureate FellowshipInst Oswaldo Cruz, Lab Flavivirus, Fundacao Aswaldo Cruz, FIOCRUZ,IOC, Av Brasil 4365, BR-21040360 Rio De Janeiro, RJ, BrazilUniv Fed Minas Gerais, Inst Ciencias Biol, Lab Genet Celular & Mol, Av Pres Antonio Carlos 6627, BR-31270901 Belo Horizonte, MG, BrazilUniv Campus Biomed Roma, Dept Sci & Technol Humans & Environm, Via Alvaro Portillo 21, I-00128 Rome, ItalyOrganizacao Pan Amer Saude, Organizacao Mundial Saude, Lote 19 Ave Nacoes, BR-70312970 Brasilia, DF, BrazilUniv KwaZulu Natal, Coll Hlth Sci, Sch Lab Med & Med Sci, KwaZulu Natal Res Innovat & Sequencing Platfom KR, 238 Mazisi Kunene Rd, ZA-4041 Durban, South AfricaStellenbosch Univ, Ctr Epidem Response & Innovat CERI, Sch Data Sci & Computat Thinking, Banhoek Rd & Joubert St, ZA-7600 Stellenbosch, South AfricaUniv Bern, Inst Social & Prevent Med, Hochschulstr 6, CH-3012 Bern, SwitzerlandFundacao Ezequiel Dias, Lab Cent Saude Publ Estado Minas Gerais, Rua Conde Pereira Carneiro,80 Gameleira, BR-30510010 Belo Horizonte, MG, BrazilUniv Sao Paulo, Blood Ctr Ribeirao Preto, Ribeirao Preto Med Sch, R Quintino Bocaiuva 470, BR-14015160 Ribeirao Preto, SP, BrazilButantan Inst, Ave Doutor Vital Brasil 1500, Sao Paulo, SP, BrazilSao Paulo State Univ UNESP, Sch Agr Sci, R Quintino Bocaiuva 470, BR-05508900 Botucatu, SP, BrazilUniv Sao Paulo, Sch Anim Sci & Food Engn, Dept Vet Med, R Quintino Bocaiuva 470, Sao Paulo, BrazilUniv Sao Paulo, Ctr Genom Func ESALQ, R Quintino Bocaiuva 470, Piracicaba, SP, BrazilFundacao Oswaldo Cruz, Biomanguinhos, Av Brasil 4365, BR-21040360 Rio De Janeiro, RJ, BrazilCoordenacao Geral Labs Saude Publ, Minist Saude CGLAB SVS MS, Secretaria Vigilancia Saude, Esplanada Ministerios Bloco G Edificio Sede, BR-70058900 Brasilia, DF, BrazilUniv KwaZulu Natal, Ctr AIDS Programme Res South Africa CAPRISA, Doris Duke Med Res Inst, Nelson R Mandela Sch Med, Private Bag X7, ZA-4013 Congella, South AfricaUniv Washington, Dept Global Hlth, Schmitz Hall 1410 NE Campus Pkway Box 355852, Seattle, WA 98195 USAUniv Oxford, Dept Zool, Peter Medawar Bldg,1a Mansfield Rd, Oxford, EnglandUniv Sydney, Sch Life & Environm Sci, Sydney Inst Infect Dis, Sydney, NSW, AustraliaUniv Sydney, Sch Med Sci, Sydney, NSW, AustraliaUniv Lisbon, Biosyst & Integrat Sci Inst BioISI, P-1749016 Lisbon, PortugalSao Paulo State Univ UNESP, Sch Agr Sci, R Quintino Bocaiuva 470, BR-05508900 Botucatu, SP, BrazilNational Institutes of Health USA: U01 AI151698CRP-ICGEB RESEARCH GRANT 2020 Project: CRP/BRA20-03CRP-ICGEB RESEARCH GRANT 2020 Project: CRP/20/03Oswaldo Cruz Foundation: VPGDI-027-FIO-20-2-2-30Brazilian Ministry of Health: SCON2021-00180CNPq: 426559/2018-5FAPERJ: E-26/202.930/2016FAPERJ: E-26/202.248/2018(238504)FAPERJ: E26/202.665/2019(247400)European Union's Horizon 2020 research and innovation programme-project EpiPose: 101003688South African Medical Research Council under the BRICS JAF: 2020/049Australian Research Council Laureate Fellowship: FL170100022Oxford Univ PressInst Oswaldo CruzUniversidade Federal de Minas Gerais (UFMG)Univ Campus Biomed RomaOrganizacao Pan Amer SaudeUniv KwaZulu NatalStellenbosch UnivUniv BernFundacao Ezequiel DiasUniversidade de São Paulo (USP)Butantan InstUniversidade Estadual Paulista (UNESP)Fundacao Oswaldo CruzCoordenacao Geral Labs Saude PublUniv WashingtonUniv OxfordUniv SydneyUniv LisbonGiovanetti, MartaFonseca, VagnerWilkinson, EduanTegally, HouriiyahSan, Emmanuel JamesAlthaus, Christian L.Xavier, JoilsonSlavov, Svetoslav NanevViala, Vincent LouisJeronimo Lima, Alex RanieriRibeiro, GabrielaSouza-Neto, Jayme A. [UNESP]Fukumasu, HeidgeCoutinho, Luiz LehmannCunha, Rivaldo Venancio daFreitas, Carlae Melo, Carlos F. Campelo de A.Araujo, Wildo Navegantes deDo Carmo Said, Rodrigo FabianoAlmiron, MariaOliveira, Tulio deSampaio, Sandra CoccuzzoElias, Maria CarolinaCovas, Dimas TadeuHolmes, Edward C.Lourenco, JoseKashima, SimoneJunior de Alcantara, Luiz Carlos2022-04-28T17:21:53Z2022-04-28T17:21:53Z2022-04-01info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article6http://dx.doi.org/10.1093/ve/veac024Virus Evolution. Oxford: Oxford Univ Press, v. 8, n. 1, 6 p., 2022.http://hdl.handle.net/11449/21859310.1093/ve/veac024WOS:000776769300004Web of Sciencereponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengVirus Evolutioninfo:eu-repo/semantics/openAccess2022-04-28T17:21:53Zoai:repositorio.unesp.br:11449/218593Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462024-08-05T19:42:50.310923Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false
dc.title.none.fl_str_mv Replacement of the Gamma by the Delta variant in Brazil: Impact of lineage displacement on the ongoing pandemic
title Replacement of the Gamma by the Delta variant in Brazil: Impact of lineage displacement on the ongoing pandemic
spellingShingle Replacement of the Gamma by the Delta variant in Brazil: Impact of lineage displacement on the ongoing pandemic
Giovanetti, Marta
Genomic monitoring
variants replacment
Brazil
Gamma
Delta
title_short Replacement of the Gamma by the Delta variant in Brazil: Impact of lineage displacement on the ongoing pandemic
title_full Replacement of the Gamma by the Delta variant in Brazil: Impact of lineage displacement on the ongoing pandemic
title_fullStr Replacement of the Gamma by the Delta variant in Brazil: Impact of lineage displacement on the ongoing pandemic
title_full_unstemmed Replacement of the Gamma by the Delta variant in Brazil: Impact of lineage displacement on the ongoing pandemic
title_sort Replacement of the Gamma by the Delta variant in Brazil: Impact of lineage displacement on the ongoing pandemic
author Giovanetti, Marta
author_facet Giovanetti, Marta
Fonseca, Vagner
Wilkinson, Eduan
Tegally, Houriiyah
San, Emmanuel James
Althaus, Christian L.
Xavier, Joilson
Slavov, Svetoslav Nanev
Viala, Vincent Louis
Jeronimo Lima, Alex Ranieri
Ribeiro, Gabriela
Souza-Neto, Jayme A. [UNESP]
Fukumasu, Heidge
Coutinho, Luiz Lehmann
Cunha, Rivaldo Venancio da
Freitas, Carla
e Melo, Carlos F. Campelo de A.
Araujo, Wildo Navegantes de
Do Carmo Said, Rodrigo Fabiano
Almiron, Maria
Oliveira, Tulio de
Sampaio, Sandra Coccuzzo
Elias, Maria Carolina
Covas, Dimas Tadeu
Holmes, Edward C.
Lourenco, Jose
Kashima, Simone
Junior de Alcantara, Luiz Carlos
author_role author
author2 Fonseca, Vagner
Wilkinson, Eduan
Tegally, Houriiyah
San, Emmanuel James
Althaus, Christian L.
Xavier, Joilson
Slavov, Svetoslav Nanev
Viala, Vincent Louis
Jeronimo Lima, Alex Ranieri
Ribeiro, Gabriela
Souza-Neto, Jayme A. [UNESP]
Fukumasu, Heidge
Coutinho, Luiz Lehmann
Cunha, Rivaldo Venancio da
Freitas, Carla
e Melo, Carlos F. Campelo de A.
Araujo, Wildo Navegantes de
Do Carmo Said, Rodrigo Fabiano
Almiron, Maria
Oliveira, Tulio de
Sampaio, Sandra Coccuzzo
Elias, Maria Carolina
Covas, Dimas Tadeu
Holmes, Edward C.
Lourenco, Jose
Kashima, Simone
Junior de Alcantara, Luiz Carlos
author2_role author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
dc.contributor.none.fl_str_mv Inst Oswaldo Cruz
Universidade Federal de Minas Gerais (UFMG)
Univ Campus Biomed Roma
Organizacao Pan Amer Saude
Univ KwaZulu Natal
Stellenbosch Univ
Univ Bern
Fundacao Ezequiel Dias
Universidade de São Paulo (USP)
Butantan Inst
Universidade Estadual Paulista (UNESP)
Fundacao Oswaldo Cruz
Coordenacao Geral Labs Saude Publ
Univ Washington
Univ Oxford
Univ Sydney
Univ Lisbon
dc.contributor.author.fl_str_mv Giovanetti, Marta
Fonseca, Vagner
Wilkinson, Eduan
Tegally, Houriiyah
San, Emmanuel James
Althaus, Christian L.
Xavier, Joilson
Slavov, Svetoslav Nanev
Viala, Vincent Louis
Jeronimo Lima, Alex Ranieri
Ribeiro, Gabriela
Souza-Neto, Jayme A. [UNESP]
Fukumasu, Heidge
Coutinho, Luiz Lehmann
Cunha, Rivaldo Venancio da
Freitas, Carla
e Melo, Carlos F. Campelo de A.
Araujo, Wildo Navegantes de
Do Carmo Said, Rodrigo Fabiano
Almiron, Maria
Oliveira, Tulio de
Sampaio, Sandra Coccuzzo
Elias, Maria Carolina
Covas, Dimas Tadeu
Holmes, Edward C.
Lourenco, Jose
Kashima, Simone
Junior de Alcantara, Luiz Carlos
dc.subject.por.fl_str_mv Genomic monitoring
variants replacment
Brazil
Gamma
Delta
topic Genomic monitoring
variants replacment
Brazil
Gamma
Delta
description The coronavirus disease 2019 (COVID-19) epidemic in Brazil was driven mainly by the spread of Gamma (P.1), a locally emerged variant of concern (VOC) that was first detected in early January 2021. This variant was estimated to be responsible for more than 96 per cent of cases reported between January and June 2021, being associated with increased transmissibility and disease severity, a reduction in neutralization antibodies and effectiveness of treatments or vaccines, and diagnostic detection failure. Here we show that, following several importations predominantly from the USA, the Delta variant rapidly replaced Gamma after July 2021. However, in contrast to what was seen in other countries, the rapid spread of Delta did not lead to a large increase in the number of cases and deaths reported in Brazil. We suggest that this was likely due to the relatively successful early vaccination campaign coupled with natural immunity acquired following prior infection with Gamma. Our data reinforce reports of the increased transmissibility of the Delta variant and, considering the increasing concern due to the recently identified Omicron variant, argues for the necessity to strengthen genomic monitoring on a national level to quickly detect the emergence and spread of other VOCs that might threaten global health.
publishDate 2022
dc.date.none.fl_str_mv 2022-04-28T17:21:53Z
2022-04-28T17:21:53Z
2022-04-01
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://dx.doi.org/10.1093/ve/veac024
Virus Evolution. Oxford: Oxford Univ Press, v. 8, n. 1, 6 p., 2022.
http://hdl.handle.net/11449/218593
10.1093/ve/veac024
WOS:000776769300004
url http://dx.doi.org/10.1093/ve/veac024
http://hdl.handle.net/11449/218593
identifier_str_mv Virus Evolution. Oxford: Oxford Univ Press, v. 8, n. 1, 6 p., 2022.
10.1093/ve/veac024
WOS:000776769300004
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv Virus Evolution
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv 6
dc.publisher.none.fl_str_mv Oxford Univ Press
publisher.none.fl_str_mv Oxford Univ Press
dc.source.none.fl_str_mv Web of Science
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