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Article ; Online: Ultrastructural analysis of monkeypox virus replication in Vero cells.

Witt, Amanda Stéphanie Arantes / Trindade, Giliane de Souza / Souza, Fernanda Gil de / Serafim, Mateus Sá Magalhães / da Costa, Alana Vitor Barbosa / Silva, Marcos Vinícius Ferreira / de Melo Iani, Felipe Campos / Rodrigues, Rodrigo Araújo Lima / Kroon, Erna Geessien / Abrahão, Jônatas Santos

Journal of medical virology

2023 Volume 95, Issue 2, Page(s) e28536

Abstract: In early May 2022, the first worldwide monkeypox virus (MPXV) outbreak was reported, with different clinical aspects from previously studied human monkeypox infections. Despite monkeypox medical importance, much of its biological aspects remain to be ... ...

Abstract	In early May 2022, the first worldwide monkeypox virus (MPXV) outbreak was reported, with different clinical aspects from previously studied human monkeypox infections. Despite monkeypox medical importance, much of its biological aspects remain to be further investigated. In the present work, we evaluated ultrastructural aspects of MPXV asynchronous infections in Vero cells by transmission electron microscopy (TEM). The viral strain was isolated from a male patient infected during the 2022 outbreak. TEM analysis showed: (i) adhered intracellular mature virus particles before entry of the host cell; (ii) a reorganization of the rough endoplasmic reticulum cisternae into the so-called "mini-nuclei" structure associated with genome replication; and (iii) noticeably different sites within the viral factory presenting granular or fibrillar aspects. We also observed viral crescents, different MPXV particle morphotypes, and cellular alterations induced by infection, such as changes in the cytoskeleton structure and multimembrane vesicles abundance. Taken together, to the best of our knowledge, these results revealed for the first-time ultrastructural aspects of different steps of the MPXV cycle.
MeSH term(s)	Animals ; Chlorocebus aethiops ; Male ; Humans ; Mpox (monkeypox) ; Vero Cells ; Monkeypox virus/genetics ; Virus Replication
Language	English
Publishing date	2023-01-27
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	752392-0
ISSN	1096-9071 ; 0146-6615
ISSN (online)	1096-9071
ISSN	0146-6615
DOI	10.1002/jmv.28536
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Zs.A 1320: Show issues

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Article: Influence of SARS-CoV-2 inactivation by different chemical reagents on the humoral response evaluated in a murine model

de Castro Barbosa, Emerson / de Souza Andrade, Adriana / Duarte, Myrian Morato / Faria, Gilson / de Melo Iani, Felipe Campos / Ataide, Ana Caroline Zampiroli / Cunha, Lucas Maciel / Duarte, Clara Guerra / Fialho, Sílvia Ligorio / Caldas, Sérgio

Molecular immunology. 2022 July, v. 147

2022

Abstract: Viral inactivation for antibody induction purposes, among other applications, should ensure biosafety, completely avoiding the risk of infectivity, and preserving viral immunogenicity. β-propiolactone (BPL) is one of the most used reagents for viral ... ...

Abstract	Viral inactivation for antibody induction purposes, among other applications, should ensure biosafety, completely avoiding the risk of infectivity, and preserving viral immunogenicity. β-propiolactone (BPL) is one of the most used reagents for viral inactivation, despite its high toxicity and recent difficulties related to importation, experienced in Brazil during the SARS-CoV-2 pandemic. In this context, the main objectives of this work were to test different inactivation procedures for SARS-CoV-2 and to evaluate the induction of neutralizing antibodies in mice immunized with antigenic preparations obtained after viral treatment with formaldehyde (FDE), glutaraldehyde (GDE), peroxide hydrogen (H₂O₂), as well as with viral proteins extract (VPE), in parallel with BPL. Verification of viral inactivation was performed by subsequent incubations of the inactivated virus in Vero cells, followed by cytopathic effect and lysis plaques observation, as well as by quantification of RNA load using reverse transcription–quantitative real time polymerase chain reaction. Once viral inactivation was confirmed, cell culture supernatants were concentrated and purified. In addition, an aliquot inactivated by BPL was also subjected to viral protein extraction (VPE). The different antigens were prepared using a previously developed microemulsion as adjuvant, and were administered in a four-dose immunization protocol. Antibody production was comparatively evaluated by ELISA and Plaque Reduction Neutralization Tests (PRNT). All immunogens evaluated showed some level of IgG anti-SARS-CoV-2 antibodies in the ELISA assay, with the highest levels presented by the group immunized with FDE-inactivated viral antigen. In the PRNT results, except for VPE-antigen, all other immunogens evaluated induced some level of neutralizing anti-SARS-CoV-2 antibodies, and the FDE-antigen stood out again with the most expressive values. Taken together, the present work shows that FDE can be an efficient and affordable alternative to BPL for the production of inactivated SARS-CoV-2 viral antigen.
Keywords	RNA ; Severe acute respiratory syndrome coronavirus 2 ; adjuvants ; animal models ; antibody formation ; biosafety ; cell culture ; cytopathogenicity ; emulsions ; formaldehyde ; glutaraldehyde ; humoral immunity ; hydrogen ; immunization ; immunogenicity ; neutralization ; pandemic ; polymerase chain reaction ; risk ; toxicity ; viral antigens ; viruses ; Brazil
Language	English
Dates of publication	2022-07
Size	p. 199-208.
Publishing place	Elsevier Ltd
Document type	Article
ZDB-ID	424427-8
ISSN	1872-9142 ; 0161-5890
ISSN (online)	1872-9142
ISSN	0161-5890
DOI	10.1016/j.molimm.2022.05.012
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Zs.A 166: Show issues

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Article ; Online: Influence of SARS-CoV-2 inactivation by different chemical reagents on the humoral response evaluated in a murine model.

Molecular immunology

2022 Volume 147, Page(s) 199–208

Abstract	Viral inactivation for antibody induction purposes, among other applications, should ensure biosafety, completely avoiding the risk of infectivity, and preserving viral immunogenicity. β-propiolactone (BPL) is one of the most used reagents for viral inactivation, despite its high toxicity and recent difficulties related to importation, experienced in Brazil during the SARS-CoV-2 pandemic. In this context, the main objectives of this work were to test different inactivation procedures for SARS-CoV-2 and to evaluate the induction of neutralizing antibodies in mice immunized with antigenic preparations obtained after viral treatment with formaldehyde (FDE), glutaraldehyde (GDE), peroxide hydrogen (H
MeSH term(s)	Animals ; Antibodies, Viral ; Antigens, Viral ; COVID-19 ; Chlorocebus aethiops ; Disease Models, Animal ; Hydrogen Peroxide ; Mice ; SARS-CoV-2 ; Vero Cells
Chemical Substances	Antibodies, Viral ; Antigens, Viral ; Hydrogen Peroxide (BBX060AN9V)
Language	English
Publishing date	2022-05-23
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	424427-8
ISSN	1872-9142 ; 0161-5890
ISSN (online)	1872-9142
ISSN	0161-5890
DOI	10.1016/j.molimm.2022.05.012
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Zs.A 166: Show issues

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Article ; Online: Potential use of high-resolution melting analyses for SARS-CoV-2 genomic surveillance.

de Souza Andrade, Adriana / Freitas, Eduarda Fernandes / de Castro Barbosa, Emerson / Guimarães, Natália Rocha / de Melo Iani, Felipe Campos / da Costa, Alana Vitor Barbosa / Bernardes, André Felipe Leal / Adelino, Talita Emile Ribeiro / Ataide, Ana Caroline Zampiroli / Gregianini, Tatiana Schäffer / Nunes, Jônathas Dias / Stringari, Lorenzzo Lyrio / Riediger, Irina Nastassja / Fernandes, Sandra Bianchini / de Jesus, Ronaldo / Fonseca, Vagner / Caldas, Sérgio

Journal of virological methods

2023 Volume 317, Page(s) 114742

Abstract: The pandemic caused by COVID-19 and the emergence of new variants of SARS-CoV-2 have generated clinical and epidemiological impacts on a global scale. The use of strategies for monitoring viral circulation and identifying mutations in genomic regions ... ...

Abstract	The pandemic caused by COVID-19 and the emergence of new variants of SARS-CoV-2 have generated clinical and epidemiological impacts on a global scale. The use of strategies for monitoring viral circulation and identifying mutations in genomic regions involved in host interaction are important measures to mitigate viral dissemination and reduce its likely complications on population health. In this context, the objective of this work was to explore the potential of high-resolution melting (HRM) analysis combined with one-step real-time reverse transcription PCR in a closed-tube system, as a fast and convenient method of screening for SARS-CoV-2 mutations with possible implications on host-pathogen interactions. The HRM analyses allowed the distinction of the Gamma, Zeta, Alpha, Delta, and Omicron variants against the predecessors (B.1.1.28, B.1.1.33) of occurrence in Brazil. It is concluded that the molecular tool standardized here has the potential to optimize the genomic surveillance of SARS-CoV-2, and could be adapted for genomic surveillance of other pathogens, due to its ability to detect, prior to sequencing, samples suggestive of new variants, selecting them more assertively and earlier for whole genome sequencing when compared to random screening.
MeSH term(s)	Humans ; SARS-CoV-2/genetics ; COVID-19/diagnosis ; Genomics ; Real-Time Polymerase Chain Reaction ; Mutation
Language	English
Publishing date	2023-04-26
Publishing country	Netherlands
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	8013-5
ISSN	1879-0984 ; 0166-0934
ISSN (online)	1879-0984
ISSN	0166-0934
DOI	10.1016/j.jviromet.2023.114742
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Zs.A 1565: Show issues

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Article ; Online: Rickettsia rickettsii infecting Rhipicephalus sanguineus sensu lato (Latreille 1806), in high altitude atlantic forest fragments, Ceara State, Brazil.

Silva, Arannadia Barbosa / Duarte, Myrian Morato / da Costa Cavalcante, Robson / de Oliveira, Stefan Vilges / Vizzoni, Vinicius Figueiredo / de Lima Duré, Ana Íris / de Melo Iani, Felipe Campos / Machado-Ferreira, Erik / Gazêta, Gilberto Salles

Acta tropica

2017 Volume 173, Page(s) 30–33

Abstract: In Brazil, Spotted Fever (SF) is caused by Rickettsia rickettsii and Rickettsia parkeri strain Atlantic Forest. In recent years, several human cases of a milder SF have been reported from the Maciço de Baturité region of Ceará State. Previous studies in ... ...

Abstract	In Brazil, Spotted Fever (SF) is caused by Rickettsia rickettsii and Rickettsia parkeri strain Atlantic Forest. In recent years, several human cases of a milder SF have been reported from the Maciço de Baturité region of Ceará State. Previous studies in this region found R. parkeri strain Atlantic Forest to be present in Rhipicephalus sanguineus sensu lato and Amblyomma ovale ticks. The present study isolated and identified the Rickettsia spp. present in this new endemic area in Brazil. In March 2015, R. sanguineus s.l. and A. ovale were collected in rural areas of the Maciço de Baturité region, and subjected to the isolation technique. A bacterium was isolated from one R. sanguineus s.l., which phylogenetic analysis clustered to the R. rickettsii group. In conclusion, R. rickettsii bacteria is circulating in the studied area and may in future have an impact on the clinical diagnoses and consequently cause changes in the profile of the disease in the region. In addition, we suggest the increase of epidemiological and environmental surveillance in the area, in order to prevent Brazilian Spotted Fever cases.
Language	English
Publishing date	2017-09
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	210415-5
ISSN	1873-6254 ; 0001-706X
ISSN (online)	1873-6254
ISSN	0001-706X
DOI	10.1016/j.actatropica.2017.05.018
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Ud II Zs.136: Show issues

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Article: CCL3, CCL5, IL-15, IL-1Ra and VEGF compose a reliable algorithm to discriminate classes of adverse events following 17DD-YF primary vaccination according to cause-specific definitions

Fradico, Jordana Rodrigues Barbosa / Campi-Azevedo, Ana Carolina / Peruhype-Magalhães, Vanessa / Coelho-dos-Reis, Jordana Grazziela Alves / Faria, Elaine Spezialli / Drumond, Betânia Paiva / de Rezende, Izabela Maurício / Almeida, Janaina Fonseca / da Silva, Roberta Barros / Gusmão, Josiane Dias / Arcoverde Medeiros, Eva Lídia / Rodrigues, Regina Coeli Magalhães / Ribeiro, José Geraldo Leite / Pereira, Maira Alves / Silva, Marcos Vinícius Ferreira / Rocha, Marília Lima Cruz / Adelino, Talita Emile Ribeiro / de Melo Iani, Felipe Campos / Pereira, Glauco Carvalho /

Fernandes, Eder Gatti / Auxiliadora-Martins, Maria / Valim, Valéria / de Souza Gomes, Matheus / Amaral, Laurence Rodrigues / Romano, Alessandro Pecego Martins / Ramos, Daniel Garkauskas / Carvalho, Sandra Maria Deotti / Fantinato, Francieli Fontana Sutile Tardetti / do Carmo Said, Rodrigo Fabiano / Teixeira-Carvalho, Andréa / Martins-Filho, Olindo Assis

Vaccine. 2021 July 13, v. 39, no. 31

2021

Abstract: In the present study, a range of serum biomarkers were quantified in suspected cases of adverse events following YF immunization (YEL-AEFI) to propose a reliable laboratorial algorithm to discriminate confirmed YEL-AEFI (“A1” class) from cases with other ...

Abstract	In the present study, a range of serum biomarkers were quantified in suspected cases of adverse events following YF immunization (YEL-AEFI) to propose a reliable laboratorial algorithm to discriminate confirmed YEL-AEFI (“A1” class) from cases with other illnesses (“C” class). Our findings demonstrated that increased levels of CXCL8, CCL2, CXCL10, IL-1β, IL-6 and TNF-α were observed in YEL-AEFI (“A1” and “C” classes) as compared to primary vaccines without YEL-AEFI [PV(day 3–28)] and reference range (RR) controls. Notably, increased levels of CCL3, CCL4, CCL2, CCL5, IL-1β, IL-15, IL-1Ra and G-CSF were found in “A1” as compared to “C” class. Venn diagrams analysis allowed the pre-selection of biomarkers for further analysis of performance indices. Data demonstrated that CCL3, CCL5, IL-15 and IL-1Ra presented high global accuracy (AUC = 1.00) to discriminate “A1” from “C”. Decision tree was proposed with a reliable algorithm to discriminate YEL-AEFI cases according to cause-specific definitions with outstanding overall accuracy (91%). CCL3, CCL5, IL-15 and IL-1Ra appears as root attributes to identify “A1” followed by VEGF as branch nodes to discriminate Wild Type YFV infection (“C(WT-YFV)”) from cases with other illnesses (“C*”). Together, these results demonstrated the applicability of serum biomarker measurements as putative parameters towards the establishment of accurate laboratorial tools for complementary differential diagnosis of YEL-AEFI cases.
Keywords	algorithms ; biomarkers ; blood serum ; decision support systems ; interleukin-15 ; interleukin-6 ; vaccination ; vaccines
Language	English
Dates of publication	2021-0713
Size	p. 4359-4372.
Publishing place	Elsevier Ltd
Document type	Article
ZDB-ID	605674-x
ISSN	1873-2518 ; 0264-410X
ISSN (online)	1873-2518
ISSN	0264-410X
DOI	10.1016/j.vaccine.2021.05.101
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Zs.MO 458: Show issues

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Article ; Online: CCL3, CCL5, IL-15, IL-1Ra and VEGF compose a reliable algorithm to discriminate classes of adverse events following 17DD-YF primary vaccination according to cause-specific definitions.

Fradico, Jordana Rodrigues Barbosa / Campi-Azevedo, Ana Carolina / Peruhype-Magalhães, Vanessa / Coelho-Dos-Reis, Jordana Grazziela Alves / Faria, Elaine Spezialli / Drumond, Betânia Paiva / de Rezende, Izabela Maurício / Almeida, Janaina Fonseca / da Silva, Roberta Barros / Gusmão, Josiane Dias / Arcoverde Medeiros, Eva Lídia / Rodrigues, Regina Coeli Magalhães / Ribeiro, José Geraldo Leite / Pereira, Maira Alves / Silva, Marcos Vinícius Ferreira / Rocha, Marília Lima Cruz / Adelino, Talita Emile Ribeiro / de Melo Iani, Felipe Campos / Pereira, Glauco Carvalho /

Vaccine

2021 Volume 39, Issue 31, Page(s) 4359–4372

Abstract	In the present study, a range of serum biomarkers were quantified in suspected cases of adverse events following YF immunization (YEL-AEFI) to propose a reliable laboratorial algorithm to discriminate confirmed YEL-AEFI ("A1" class) from cases with other illnesses ("C" class). Our findings demonstrated that increased levels of CXCL8, CCL2, CXCL10, IL-1β, IL-6 and TNF-α were observed in YEL-AEFI ("A1" and "C" classes) as compared to primary vaccines without YEL-AEFI [PV(day 3-28)] and reference range (RR) controls. Notably, increased levels of CCL3, CCL4, CCL2, CCL5, IL-1β, IL-15, IL-1Ra and G-CSF were found in "A1" as compared to "C" class. Venn diagrams analysis allowed the pre-selection of biomarkers for further analysis of performance indices. Data demonstrated that CCL3, CCL5, IL-15 and IL-1Ra presented high global accuracy (AUC = 1.00) to discriminate "A1" from "C". Decision tree was proposed with a reliable algorithm to discriminate YEL-AEFI cases according to cause-specific definitions with outstanding overall accuracy (91%). CCL3, CCL5, IL-15 and IL-1Ra appears as root attributes to identify "A1" followed by VEGF as branch nodes to discriminate Wild Type YFV infection ("C(WT-YFV)") from cases with other illnesses ("C*"). Together, these results demonstrated the applicability of serum biomarker measurements as putative parameters towards the establishment of accurate laboratorial tools for complementary differential diagnosis of YEL-AEFI cases.
MeSH term(s)	Algorithms ; Chemokine CCL5 ; Humans ; Interleukin 1 Receptor Antagonist Protein ; Interleukin-15 ; Vaccination ; Vascular Endothelial Growth Factor A ; Yellow Fever ; Yellow Fever Vaccine
Chemical Substances	CCL5 protein, human ; Chemokine CCL5 ; Interleukin 1 Receptor Antagonist Protein ; Interleukin-15 ; Vascular Endothelial Growth Factor A ; Yellow Fever Vaccine
Language	English
Publishing date	2021-06-16
Publishing country	Netherlands
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	605674-x
ISSN	1873-2518 ; 0264-410X
ISSN (online)	1873-2518
ISSN	0264-410X
DOI	10.1016/j.vaccine.2021.05.101
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Article ; Online: Genomic and Epidemiological Surveillance of Zika Virus in the Amazon Region.

Giovanetti, Marta / Faria, Nuno Rodrigues / Lourenço, José / Goes de Jesus, Jaqueline / Xavier, Joilson / Claro, Ingra Morales / Kraemer, Moritz U G / Fonseca, Vagner / Dellicour, Simon / Thézé, Julien / da Silva Salles, Flavia / Gräf, Tiago / Silveira, Paola Paz / do Nascimento, Valdinete Alves / Costa de Souza, Victor / de Melo Iani, Felipe Campos / Castilho-Martins, Emerson Augusto / Cruz, Laura Nogueira / Wallau, Gabriel /

Cell reports

2020 Volume 30, Issue 7, Page(s) 2275–2283.e7

Abstract: Zika virus (ZIKV) has caused an explosive epidemic linked to severe clinical outcomes in the Americas. As of June 2018, 4,929 ZIKV suspected infections and 46 congenital syndrome cases had been reported in Manaus, Amazonas, Brazil. Although Manaus is a ... ...

Abstract	Zika virus (ZIKV) has caused an explosive epidemic linked to severe clinical outcomes in the Americas. As of June 2018, 4,929 ZIKV suspected infections and 46 congenital syndrome cases had been reported in Manaus, Amazonas, Brazil. Although Manaus is a key demographic hub in the Amazon region, little is known about the ZIKV epidemic there, in terms of both transmission and viral genetic diversity. Using portable virus genome sequencing, we generated 59 ZIKV genomes in Manaus. Phylogenetic analyses indicated multiple introductions of ZIKV from northeastern Brazil to Manaus. Spatial genomic analysis of virus movement among six areas in Manaus suggested that populous northern neighborhoods acted as sources of virus transmission to other neighborhoods. Our study revealed how the ZIKV epidemic was ignited and maintained within the largest urban metropolis in the Amazon. These results might contribute to improving the public health response to outbreaks in Brazil.
MeSH term(s)	Brazil/epidemiology ; Epidemiological Monitoring ; Female ; Genomics/methods ; Humans ; Male ; Zika Virus/genetics ; Zika Virus Infection/epidemiology ; Zika Virus Infection/virology
Language	English
Publishing date	2020-03-04
Publishing country	United States
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
ZDB-ID	2649101-1
ISSN	2211-1247 ; 2211-1247
ISSN (online)	2211-1247
ISSN	2211-1247
DOI	10.1016/j.celrep.2020.01.085
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Article ; Online: Field and classroom initiatives for portable sequence-based monitoring of dengue virus in Brazil.

Adelino, Talita Émile Ribeiro / Giovanetti, Marta / Fonseca, Vagner / Xavier, Joilson / de Abreu, Álvaro Salgado / do Nascimento, Valdinete Alves / Demarchi, Luiz Henrique Ferraz / Oliveira, Marluce Aparecida Assunção / da Silva, Vinícius Lemes / de Mello, Arabela Leal E Silva / Cunha, Gabriel Muricy / Santos, Roselene Hans / de Oliveira, Elaine Cristina / Júnior, Jorge Antônio Chamon / de Melo Iani, Felipe Campos / de Filippis, Ana Maria Bispo / de Abreu, André Luiz / de Jesus, Ronaldo / de Albuquerque, Carlos Frederico Campelo /

Rico, Jairo Mendez / do Carmo Said, Rodrigo Fabiano / Silva, Joscélio Aguiar / de Moura, Noely Fabiana Oliveira / Leite, Priscila / Frutuoso, Lívia Carla Vinhal / Haddad, Simone Kashima / Martínez, Alexander / Barreto, Fernanda Khouri / Vazquez, Cynthia Carolina / da Cunha, Rivaldo Venâncio / Araújo, Emerson Luiz Lima / de Oliveira Tosta, Stephane Fraga / de Araújo Fabri, Allison / Chalhoub, Flávia Löwen Levy / da Silva Lemos, Poliana / de Bruycker-Nogueira, Fernanda / de Castro Lichs, Gislene Garcia / Zardin, Marina Castilhos Souza Umaki / Segovia, Fátima María Cardozo / Gonçalves, Crhistinne Cavalheiro Maymone / Grillo, Zoraida Del Carmen Fernandez / Slavov, Svetoslav Nanev / Pereira, Luiz Augusto / Mendonça, Ana Flávia / Pereira, Felicidade Mota / de Magalhães, Jurandy Júnior Ferraz / Dos Santos Júnior, Agenor de Castro Moreira / de Lima, Maricélia Maia / Nogueira, Rita Maria Ribeiro / Góes-Neto, Aristóteles / de Carvalho Azevedo, Vasco Ariston / Ramalho, Dario Brock / Oliveira, Wanderson Kleber / Macario, Eduardo Marques / de Medeiros, Arnaldo Correia / Pimentel, Victor / Holmes, Edward C / de Oliveira, Tulio / Lourenço, José / Alcantara, Luiz Carlos Junior

Nature communications

2021 Volume 12, Issue 1, Page(s) 2296

Abstract: Brazil experienced a large dengue virus (DENV) epidemic in 2019, highlighting a continuous struggle with effective control and public health preparedness. Using Oxford Nanopore sequencing, we led field and classroom initiatives for the monitoring of DENV ...

Abstract	Brazil experienced a large dengue virus (DENV) epidemic in 2019, highlighting a continuous struggle with effective control and public health preparedness. Using Oxford Nanopore sequencing, we led field and classroom initiatives for the monitoring of DENV in Brazil, generating 227 novel genome sequences of DENV1-2 from 85 municipalities (2015-2019). This equated to an over 50% increase in the number of DENV genomes from Brazil available in public databases. Using both phylogenetic and epidemiological models we retrospectively reconstructed the recent transmission history of DENV1-2. Phylogenetic analysis revealed complex patterns of transmission, with both lineage co-circulation and replacement. We identified two lineages within the DENV2 BR-4 clade, for which we estimated the effective reproduction number and pattern of seasonality. Overall, the surveillance outputs and training initiative described here serve as a proof-of-concept for the utility of real-time portable sequencing for research and local capacity building in the genomic surveillance of emerging viruses.
MeSH term(s)	Brazil/epidemiology ; Dengue/epidemiology ; Dengue/prevention & control ; Dengue/transmission ; Dengue/virology ; Dengue Virus/genetics ; Dengue Virus/isolation & purification ; Epidemics/prevention & control ; Epidemiological Monitoring ; Feasibility Studies ; Genetic Variation ; Genome, Viral/genetics ; Humans ; Mobile Health Units ; Molecular Epidemiology ; Molecular Typing ; Phylogeny ; Proof of Concept Study ; RNA, Viral/genetics ; RNA, Viral/isolation & purification ; Real-Time Polymerase Chain Reaction ; Retrospective Studies ; Whole Genome Sequencing
Chemical Substances	RNA, Viral
Language	English
Publishing date	2021-04-16
Publishing country	England
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
ZDB-ID	2553671-0
ISSN	2041-1723 ; 2041-1723
ISSN (online)	2041-1723
ISSN	2041-1723
DOI	10.1038/s41467-021-22607-0
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Article: Genomic epidemiology reveals the impact of national and international restrictions measures on the SARS-CoV-2 epidemic in Brazil.

Giovanetti, Marta / Slavov, Svetoslav Nanev / Fonseca, Vagner / Wilkinson, Eduan / Tegally, Houriiyah / Patané, José Salvatore Leister / Viala, Vincent Louis / San, James Emmanuel / Rodrigues, Evandra Strazza / Santos, Elaine Vieira / Aburjaile, Flavia / Xavier, Joilson / Fritsch, Hegger / Adelino, Talita Emile Ribeiro / Pereira, Felicidade / Leal, Arabela / de Melo Iani, Felipe Campos / de Carvalho Pereira, Glauco / Vazquez, Cynthia /

Mercedes Estigarribia Sanabria, Gladys / de Oliveira, Elaine Cristina / Demarchi, Luiz / Croda, Julio / Dos Santos Bezerra, Rafael / de Lima, Loyze Paola Oliveira / Martins, Antonio Jorge / Dos Santos Barros, Claudia Renata / Marqueze, Elaine Cristina / de Souza Todao Bernardino, Jardelina / Moretti, Debora Botequio / Brassaloti, Ricardo Augusto / de Lello Rocha Campos Cassano, Raquel / Mariani, Pilar Drummond Sampaio Corrêa / Kitajima, João Paulo / Santos, Bibiana / Proto-Siqueira, Rodrigo / Cantarelli, Vlademir Vicente / Tosta, Stephane / Nardy, Vanessa Brandão / de Oliveira da Silva, Luciana Reboredo / Kelly Astete Gómez, Marcela / Lima, Jaqueline Gomes / Ribeiro, Adriana Aparecida / Guimarães, Natália Rocha / Watanabe, Luiz Takao / Da Silva, Luana Barbosa / da Silva Ferreira, Raquel / da Penha, Mara Patricia F / Ortega, María José / de la Fuente, Andrea Gómez / Villalba, Shirley / Torales, Juan / Gamarra, María Liz / Aquino, Carolina / Martínez Figueredo, Gloria Patricia / Fava, Wellington Santos / Motta-Castro, Ana Rita C / Venturini, James / de Oliveira, Sandra Maria do Vale Leone / Gonçalves, Crhistinne Cavalheiro Maymone / do Carmo Debur Rossa, Maria / Becker, Guilherme Nardi / Presibella, Mayra Marinho / Marques, Nelson Quallio / Riediger, Irina Nastassja / Raboni, Sonia / Coelho, Gabriela Mattoso / Cataneo, Allan Henrique Depieri / Zanluca, Camila / Dos Santos, Claudia N Duarte / Assato, Patricia Akemi / da Costa, Felipe Allan da Silva / Poleti, Mirele Daiana / Lesbon, Jessika Cristina Chagas / Mattos, Elisangela Chicaroni / Banho, Cecilia Artico / Sacchetto, Lívia / Moraes, Marília Mazzi / Grotto, Rejane Maria Tommasini / Souza-Neto, Jayme A / Nogueira, Maurício Lacerda / Fukumasu, Heidge / Coutinho, Luiz Lehmann / Calado, Rodrigo Tocantins / Neto, Raul Machado / de Filippis, Ana Maria Bispo / da Cunha, Rivaldo Venancio / Freitas, Carla / Peterka, Cassio Roberto Leonel / de Fátima Rangel Fernandes, Cássia / de Araújo, Wildo Navegantes / do Carmo Said, Rodrigo Fabiano / Almiron, Maria / de Albuquerque E Melo, Carlos Frederico Campelo / Lourenço, José / de Oliveira, Tulio / Holmes, Edward C / Haddad, Ricardo / Sampaio, Sandra Coccuzzo / Elias, Maria Carolina / Kashima, Simone / de Alcantara, Luiz Carlos Junior / Covas, Dimas Tadeu

medRxiv : the preprint server for health sciences

2022

Abstract: Brazil has experienced some of the highest numbers of COVID-19 cases and deaths globally and from May 2021 made Latin America a pandemic epicenter. Although SARS-CoV-2 established sustained transmission in Brazil early in the pandemic, important gaps ... ...

Abstract	Brazil has experienced some of the highest numbers of COVID-19 cases and deaths globally and from May 2021 made Latin America a pandemic epicenter. Although SARS-CoV-2 established sustained transmission in Brazil early in the pandemic, important gaps remain in our understanding of virus transmission dynamics at the national scale. Here, we describe the genomic epidemiology of SARS-CoV-2 using near-full genomes sampled from 27 Brazilian states and a bordering country - Paraguay. We show that the early stage of the pandemic in Brazil was characterised by the co-circulation of multiple viral lineages, linked to multiple importations predominantly from Europe, and subsequently characterized by large local transmission clusters. As the epidemic progressed under an absence of effective restriction measures, there was a local emergence and onward international spread of Variants of Concern (VOC) and Variants Under Monitoring (VUM), including Gamma (P.1) and Zeta (P.2). In addition, we provide a preliminary genomic overview of the epidemic in Paraguay, showing evidence of importation from Brazil. These data reinforce the usefulness and need for the implementation of widespread genomic surveillance in South America as a toolkit for pandemic monitoring that provides a means to follow the real-time spread of emerging SARS-CoV-2 variants with possible implications for public health and immunization strategies.
Language	English
Publishing date	2022-03-28
Publishing country	United States
Document type	Preprint
DOI	10.1101/2021.10.07.21264644
Database	MEDical Literature Analysis and Retrieval System OnLINE

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