Replacement of the Gamma by the Delta variant in Brazil: Impact of lineage displacement on the ongoing pandemic
Autor(a) principal: | |
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Data de Publicação: | 2022 |
Outros Autores: | , , , , , , , , , , , , , , , , , , , , , , , , , , |
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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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 reponame:Repositório Institucional da UNESP instname:Universidade Estadual Paulista (UNESP) instacron:UNESP |
instname_str |
Universidade Estadual Paulista (UNESP) |
instacron_str |
UNESP |
institution |
UNESP |
reponame_str |
Repositório Institucional da UNESP |
collection |
Repositório Institucional da UNESP |
repository.name.fl_str_mv |
Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP) |
repository.mail.fl_str_mv |
|
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1808129108692959232 |