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Côrtes N, Lira A, Prates-Syed W, Dinis Silva J, Vuitika L, Cabral-Miranda W, Durães-Carvalho R, Balan A, Cabral-Marques O, Cabral-Miranda G. Integrated control strategies for dengue, Zika, and Chikungunya virus infections. Front Immunol 2023; 14:1281667. [PMID: 38196945 PMCID: PMC10775689 DOI: 10.3389/fimmu.2023.1281667] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2023] [Accepted: 11/24/2023] [Indexed: 01/11/2024] Open
Abstract
Arboviruses are a major threat to public health in tropical regions, encompassing over 534 distinct species, with 134 capable of causing diseases in humans. These viruses are transmitted through arthropod vectors that cause symptoms such as fever, headache, joint pains, and rash, in addition to more serious cases that can lead to death. Among the arboviruses, dengue virus stands out as the most prevalent, annually affecting approximately 16.2 million individuals solely in the Americas. Furthermore, the re-emergence of the Zika virus and the recurrent outbreaks of chikungunya in Africa, Asia, Europe, and the Americas, with one million cases reported annually, underscore the urgency of addressing this public health challenge. In this manuscript we discuss the epidemiology, viral structure, pathogenicity and integrated control strategies to combat arboviruses, and the most used tools, such as vaccines, monoclonal antibodies, treatment, etc., in addition to presenting future perspectives for the control of arboviruses. Currently, specific medications for treating arbovirus infections are lacking, and symptom management remains the primary approach. However, promising advancements have been made in certain treatments, such as Chloroquine, Niclosamide, and Isatin derivatives, which have demonstrated notable antiviral properties against these arboviruses in vitro and in vivo experiments. Additionally, various strategies within vector control approaches have shown significant promise in reducing arbovirus transmission rates. These encompass public education initiatives, targeted insecticide applications, and innovative approaches like manipulating mosquito bacterial symbionts, such as Wolbachia. In conclusion, combatting the global threat of arbovirus diseases needs a comprehensive approach integrating antiviral research, vaccination, and vector control. The continued efforts of research communities, alongside collaborative partnerships with public health authorities, are imperative to effectively address and mitigate the impact of these arboviral infections on public health worldwide.
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Affiliation(s)
- Nelson Côrtes
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil
- The Interunits Graduate Program in Biotechnology of the University of São Paulo, the Butantan Institute and the Technological Research Institute of the State of São Paulo, São Paulo, Brazil
| | - Aline Lira
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil
- The Interunits Graduate Program in Biotechnology of the University of São Paulo, the Butantan Institute and the Technological Research Institute of the State of São Paulo, São Paulo, Brazil
| | - Wasim Prates-Syed
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil
- The Interunits Graduate Program in Biotechnology of the University of São Paulo, the Butantan Institute and the Technological Research Institute of the State of São Paulo, São Paulo, Brazil
| | - Jaqueline Dinis Silva
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil
- The Graduate Program in Pathophysiology and Toxicology, Department of Clinical and Toxicological Analyses, School of Pharmaceutical Sciences, University of São Paulo, São Paulo, Brazil
| | - Larissa Vuitika
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil
| | | | - Ricardo Durães-Carvalho
- São Paulo School of Medicine, Department of Microbiology, Immunology and Parasitology, Federal University of São Paulo, São Paulo, Brazil
| | - Andrea Balan
- The Interunits Graduate Program in Biotechnology of the University of São Paulo, the Butantan Institute and the Technological Research Institute of the State of São Paulo, São Paulo, Brazil
- Applied Structural Biology Laboratory, Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil
| | - Otavio Cabral-Marques
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil
- The Graduate Program in Pathophysiology and Toxicology, Department of Clinical and Toxicological Analyses, School of Pharmaceutical Sciences, University of São Paulo, São Paulo, Brazil
- Department of Medicine, Division of Molecular Medicine, University of São Paulo School of Medicine, São Paulo, Brazil
| | - Gustavo Cabral-Miranda
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil
- The Interunits Graduate Program in Biotechnology of the University of São Paulo, the Butantan Institute and the Technological Research Institute of the State of São Paulo, São Paulo, Brazil
- The Graduate Program in Pathophysiology and Toxicology, Department of Clinical and Toxicological Analyses, School of Pharmaceutical Sciences, University of São Paulo, São Paulo, Brazil
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Silva Souza M, Pires Farias J, Barros Luiz W, Birbrair A, Durães-Carvalho R, de Souza Ferreira LC, Amorim JH. Immune targets to stop future SARS-CoV-2 variants. Microbiol Spectr 2023; 11:e0289223. [PMID: 37966210 PMCID: PMC10714790 DOI: 10.1128/spectrum.02892-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2023] [Accepted: 10/08/2023] [Indexed: 11/16/2023] Open
Abstract
IMPORTANCE The emergence of SARS-CoV-2 had a major impact across the world. It is true that the collaboration of scientists from all over the world resulted in a rapid response against COVID-19, mainly with the development of vaccines against the disease. However, many viral genetic variants that threaten vaccines have emerged. Our study reveals highly conserved antigenic regions in the vaccines have emerged. Our study reveals highly conserved antigenic regions in the spike protein in all variants of concern (Alpha, Beta, Gamma, Delta, and Omicron) as well as in the wild-type virus. Such immune targets can be used to fight future SARS-CoV-2 variants.
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Affiliation(s)
- Milena Silva Souza
- Western Bahia Virology Institute, Center of Biological Sciences and Health, Federal University of Western Bahia, Barreiras, Bahia, Brazil
- Department of Biological Sciences, Laboratory of Applied Pathology and Genetics, State University of Santa Cruz, Ilhéus, Bahia, Brazil
| | - Jéssica Pires Farias
- Western Bahia Virology Institute, Center of Biological Sciences and Health, Federal University of Western Bahia, Barreiras, Bahia, Brazil
| | - Wilson Barros Luiz
- Department of Biological Sciences, Laboratory of Applied Pathology and Genetics, State University of Santa Cruz, Ilhéus, Bahia, Brazil
| | - Alexander Birbrair
- Department of Dermatology, School of Medicine and Public Health, University of Wisconsin–Madison, Madison, Wisconsin, USA
- Department of Radiology, Columbia University Medical Center, New York, New York, USA
| | - Ricardo Durães-Carvalho
- Department of Microbiology, Immunology and Parasitology, São Paulo School of Medicine, Federal University of São Paulo (UNIFESP), São Paulo, Brazil
| | - Luís Carlos de Souza Ferreira
- Department of Microbiology, Vaccine Development Laboratory, Biomedical Sciences Institute, University of São Paulo, São Paulo, Brazil
| | - Jaime Henrique Amorim
- Western Bahia Virology Institute, Center of Biological Sciences and Health, Federal University of Western Bahia, Barreiras, Bahia, Brazil
- Department of Biological Sciences, Laboratory of Applied Pathology and Genetics, State University of Santa Cruz, Ilhéus, Bahia, Brazil
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3
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Silva Júnior JVJ, Durães-Carvalho R, de Souza JR, Ramos Janini LM, Weiblen R, Flores EF. Emergence of SARS-CoV-2 serotype(s): Is it a matter of time? Virology 2023; 585:78-81. [PMID: 37321144 PMCID: PMC10240909 DOI: 10.1016/j.virol.2023.04.014] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2023] [Revised: 04/09/2023] [Accepted: 04/17/2023] [Indexed: 06/17/2023]
Abstract
Since its identification in late 2019, SARS-CoV-2 has undergone numerous mutations, resulting in the emergence of several viral variants, which may differ in transmissibility, virulence and/or evasion from host immunity. Particularly, immunity-related changes have been well documented in the Omicron variant, including reports of escaping neutralizing antibodies induced by infection/vaccination with heterologous SARS-CoV-2 or used in serological therapy. These findings may encourage some discussions about the possibility that Omicron is a distinct SARS-CoV-2 serotype. To contribute to this issue, we combined concepts from immunology, virology and evolution and performed an interesting brainstorm on the hypothesis that Omicron is a distinct SARS-CoV-2 serotype. Furthermore, we also discussed the likelihood of emergence of SARS-CoV-2 serotypes over time, which may not necessarily be related to Omicron. Finally, insights into this topic may have direct implications for vaccine formulations, immunodiagnostic platforms and serological therapies, contributing to better management of future outbreaks or waves.
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Affiliation(s)
- José Valter Joaquim Silva Júnior
- Virology Sector, Department of Preventive Veterinary Medicine, Center for Rural Sciences, Federal University of Santa Maria, Rio Grande do Sul, Brazil; Virology Sector, Keizo Asami Institute, Federal University of Pernambuco, Pernambuco, Brazil; Department of Clinical Analysis, Health Sciences Center, Federal University of Santa Maria, Rio Grande do Sul, Brazil.
| | - Ricardo Durães-Carvalho
- São Paulo School of Medicine, Department of Microbiology, Immunology and Parasitology, Federal University of São Paulo, São Paulo, Brazil; Graduate Program in Structural and Functional Biology, Federal University of São Paulo, São Paulo, Brazil.
| | | | - Luiz Mário Ramos Janini
- São Paulo School of Medicine, Department of Microbiology, Immunology and Parasitology, Federal University of São Paulo, São Paulo, Brazil
| | - Rudi Weiblen
- Virology Sector, Department of Preventive Veterinary Medicine, Center for Rural Sciences, Federal University of Santa Maria, Rio Grande do Sul, Brazil
| | - Eduardo Furtado Flores
- Virology Sector, Department of Preventive Veterinary Medicine, Center for Rural Sciences, Federal University of Santa Maria, Rio Grande do Sul, Brazil.
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4
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de Sousa LLF, de Souza TL, Tibo LHS, Moura FBP, Junior FAS, de Oliveira-Filho EF, Ludwig-Begall LF, Cabral-Miranda G, Andreata-Santos R, Janini LMR, Poon LLM, Durães-Carvalho R. Rabies virus variants from bats closely related to variants found in marmosets (Callithrix jacchus), a neglected source of human rabies infection in Brazil. J Med Virol 2023; 95:e29046. [PMID: 37605969 DOI: 10.1002/jmv.29046] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2023] [Revised: 07/25/2023] [Accepted: 08/09/2023] [Indexed: 08/23/2023]
Abstract
Rabies is a fatal viral zoonosis caused by rabies virus (RABV). RABV infects the central nervous system and triggers acute encephalomyelitis in both humans and animals. Endemic in the Brazilian Northeast region, RABV emergence in distinct wildlife species has been identified as a source of human rabies infection and as such, constitutes a public health concern. Here, we performed post-mortem RABV analyses of 144 encephalic tissues from bats sampled from January to July 2022, belonging to 15 different species. We identified phylogenetically distinct RABV from Phyllostomidae and Molossidae bats circulating in Northeastern Brazil. Phylogenetic clustering revealed the close evolutionary relationship between RABV viruses circulating in bats and variants hosted in white-tufted marmosets, commonly captured to be kept as pets and linked to human rabies cases and deaths in Brazil. Our findings underline the urgent need to implement a phylogenetic-scale epidemiological surveillance platform to track multiple RABV variants which may pose a threat to both humans and animals.
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Affiliation(s)
- Larissa L F de Sousa
- Department of Microbiology, Immunology and Parasitology, Federal University of São Paulo (UNIFESP), São Paulo, São Paulo, Brazil
- Rabies Diagnosis Laboratory, Central Laboratory of Public Health-LACEN, Fortaleza, Ceará, Brazil
| | - Tatiane L de Souza
- Department of Microbiology, Immunology and Parasitology, Federal University of São Paulo (UNIFESP), São Paulo, São Paulo, Brazil
| | - Luiz H S Tibo
- Department of Microbiology, Immunology and Parasitology, Federal University of São Paulo (UNIFESP), São Paulo, São Paulo, Brazil
| | | | - Francisco A S Junior
- Rabies Diagnosis Laboratory, Central Laboratory of Public Health-LACEN, Fortaleza, Ceará, Brazil
| | | | - Louisa F Ludwig-Begall
- Department of Infectious and Parasitic Diseases, Veterinary Virology and Animal Viral Diseases, FARAH Research Centre, University of Liège, Liège, Belgium
| | - Gustavo Cabral-Miranda
- Institute of Biomedical Sciences, University of São Paulo (ICB/USP), São Paulo, São Paulo, Brazil
| | - Robert Andreata-Santos
- Department of Microbiology, Immunology and Parasitology, Federal University of São Paulo (UNIFESP), São Paulo, São Paulo, Brazil
| | - Luiz M R Janini
- Department of Microbiology, Immunology and Parasitology, Federal University of São Paulo (UNIFESP), São Paulo, São Paulo, Brazil
| | - Leo L M Poon
- School of Public Health, The University of Hong Kong, Hong Kong, China
| | - Ricardo Durães-Carvalho
- Department of Microbiology, Immunology and Parasitology, Federal University of São Paulo (UNIFESP), São Paulo, São Paulo, Brazil
- Department of Morphology and Genetics, UNIFESP, São Paulo, São Paulo, Brazil
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Dos Santos DRL, Durães-Carvalho R, Gardinali NR, Machado LC, de Paula VS, da Luz Wallau G, de Oliveira JM, Pena LJ, Pinto MA, Gil LHVG, de Oliveira-Filho EF. Uncovering neglected subtypes and zoonotic transmission of Hepatitis E virus (HEV) in Brazil. Virol J 2023; 20:83. [PMID: 37131237 PMCID: PMC10152778 DOI: 10.1186/s12985-023-02047-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2023] [Accepted: 04/22/2023] [Indexed: 05/04/2023] Open
Abstract
Hepatitis E virus (HEV) circulation in humans and swine has been extensively studied in South America over the last two decades. Nevertheless, only 2.1% of reported HEV strains are available as complete genome sequences. Therefore, many clinical, epidemiological, and evolutionary aspects of circulating HEV in the continent still need to be clarified. Here, we conducted a retrospective evolutionary analysis of one human case and six swine HEV strains previously reported in northeastern, southern, and southeastern Brazil. We obtained two complete and four nearly complete genomic sequences. Evolutionary analysis comparing the whole genomic and capsid gene sequences revealed high genetic variability. This included the circulation of at least one unrecognized unique South American subtype. Our results corroborate that sequencing the whole capsid gene could be used as an alternative for HEV subtype assignment in the absence of complete genomic sequences. Moreover, our results substantiate the evidence for zoonotic transmission by comparing a larger genomic fragment recovered from the sample of the autochthonous human hepatitis E case. Further studies should continuously investigate HEV genetic diversity and zoonotic transmission of HEV in South America.
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Affiliation(s)
- Debora Regina Lopes Dos Santos
- Department of Virology, Aggeu Magalhães Institute, Oswaldo Cruz Foundation (IAM- FIOCRUZ), Recife, Pernambuco, Brazil
- Veterinary Institute, Federal Rural University of Rio de Janeiro (UFRRJ), Seropédica, Rio de Janeiro, Brazil
| | - Ricardo Durães-Carvalho
- São Paulo School of Medicine, Department of Microbiology, Immunology and Parasitology, Federal University of São Paulo (UNIFESP), São Paulo, SP, Brazil
- Post-Graduate Program in Structural and Functional Biology, UNIFESP, São Paulo, Brazil
| | - Noemi Rovaris Gardinali
- Laboratório de Desenvolvimento Tecnológico em Virologia (LADTV) , Instituto Oswaldo Cruz (IOC), Fundação Oswaldo Cruz (Fiocruz), Rio de Janeiro, Brazil
- Laboratório de Tecnologia Virológica (LATEV) , Instituto de Tecnologia em Imunobiológicos (Biomanguinhos), Fundação Oswaldo Cruz (Fiocruz), Rio de Janeiro, Brazil
| | - Lais Ceschini Machado
- Department of Entomology and Bioinformatic Core, Oswaldo Cruz Foundation-Fiocruz, Recife, PE, Brazil
| | - Vanessa Salete de Paula
- Laboratory of Molecular Virology, Oswaldo Cruz Institute, Oswaldo Cruz Foundation (IOC- FIOCRUZ), Rio de Janeiro, Brazil
| | - Gabriel da Luz Wallau
- Department of Entomology and Bioinformatic Core, Oswaldo Cruz Foundation-Fiocruz, Recife, PE, Brazil
- Department of Arbovirology, Bernhard Nocht Institute for Tropical Medicine, WHO Collaborating Center for Arbovirus and Hemorrhagic Fever Reference and Research, National Reference Center for Tropical Infectious Diseases, Bernhard-Nocht-Straße 74, 20359, Hamburg, Germany
| | - Jaqueline Mendes de Oliveira
- Laboratório de Desenvolvimento Tecnológico em Virologia (LADTV) , Instituto Oswaldo Cruz (IOC), Fundação Oswaldo Cruz (Fiocruz), Rio de Janeiro, Brazil
| | - Lindomar José Pena
- Department of Virology, Aggeu Magalhães Institute, Oswaldo Cruz Foundation (IAM- FIOCRUZ), Recife, Pernambuco, Brazil
| | - Marcelo Alves Pinto
- Laboratório de Desenvolvimento Tecnológico em Virologia (LADTV) , Instituto Oswaldo Cruz (IOC), Fundação Oswaldo Cruz (Fiocruz), Rio de Janeiro, Brazil
| | | | - Edmilson Ferreira de Oliveira-Filho
- Department of Virology, Aggeu Magalhães Institute, Oswaldo Cruz Foundation (IAM- FIOCRUZ), Recife, Pernambuco, Brazil.
- Institute of Virology, Charité-Universitätsmedizin Berlin, Corporate Member of Freie Universität Berlin, Humboldt-Universität zu Berlin, Charitéplatz 1, 10117, Berlin, Germany.
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6
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Pinheiro JR, dos Reis EC, Farias JP, Fogaça MMC, da Silva PDS, Santana IVR, Rocha ALS, Vidal PO, Simões RDC, Luiz WB, Birbrair A, de Aguiar RS, de Souza RP, Azevedo VADC, Chaves G, Belmok A, Durães-Carvalho R, Melo FL, Ribeiro BM, Amorim JH. Impact of Early Pandemic SARS-CoV-2 Lineages Replacement with the Variant of Concern P.1 (Gamma) in Western Bahia, Brazil. Viruses 2022; 14:v14102314. [PMID: 36298869 PMCID: PMC9611628 DOI: 10.3390/v14102314] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2022] [Revised: 10/19/2022] [Accepted: 10/21/2022] [Indexed: 11/14/2022] Open
Abstract
BACKGROUND The correct understanding of the epidemiological dynamics of COVID-19, caused by the SARS-CoV-2, is essential for formulating public policies of disease containment. METHODS In this study, we constructed a picture of the epidemiological dynamics of COVID-19 in a Brazilian population of almost 17000 patients in 15 months. We specifically studied the fluctuations of COVID-19 cases and deaths due to COVID-19 over time according to host gender, age, viral load, and genetic variants. RESULTS As the main results, we observed that the numbers of COVID-19 cases and deaths due to COVID-19 fluctuated over time and that men were the most affected by deaths, as well as those of 60 or more years old. We also observed that individuals between 30- and 44-years old were the most affected by COVID-19 cases. In addition, the viral loads in the patients' nasopharynx were higher in the early symptomatic period. We found that early pandemic SARS-CoV-2 lineages were replaced by the variant of concern (VOC) P.1 (Gamma) in the second half of the study period, which led to a significant increase in the number of deaths. CONCLUSIONS The results presented in this study are helpful for future formulations of efficient public policies of COVID-19 containment.
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Affiliation(s)
- Josilene R. Pinheiro
- Center of Biological Sciences and Health, Federal University of Western Bahia, Barreiras 47805, BA, Brazil
- Department of Biological Sciences, State University of Santa Cruz, Ilhéus 45662, BA, Brazil
| | - Esther C. dos Reis
- Center of Biological Sciences and Health, Federal University of Western Bahia, Barreiras 47805, BA, Brazil
| | - Jéssica P. Farias
- Center of Biological Sciences and Health, Federal University of Western Bahia, Barreiras 47805, BA, Brazil
| | - Mayanna M. C. Fogaça
- Center of Biological Sciences and Health, Federal University of Western Bahia, Barreiras 47805, BA, Brazil
| | - Patrícia de S. da Silva
- Center of Biological Sciences and Health, Federal University of Western Bahia, Barreiras 47805, BA, Brazil
- Department of Biological Sciences, State University of Santa Cruz, Ilhéus 45662, BA, Brazil
| | - Itana Vivian R. Santana
- Center of Biological Sciences and Health, Federal University of Western Bahia, Barreiras 47805, BA, Brazil
| | - Ana Luiza S. Rocha
- Center of Biological Sciences and Health, Federal University of Western Bahia, Barreiras 47805, BA, Brazil
| | - Paloma O. Vidal
- Center of Biological Sciences and Health, Federal University of Western Bahia, Barreiras 47805, BA, Brazil
| | - Rafael da C. Simões
- Center of Biological Sciences and Health, Federal University of Western Bahia, Barreiras 47805, BA, Brazil
| | - Wilson B. Luiz
- Department of Biological Sciences, State University of Santa Cruz, Ilhéus 45662, BA, Brazil
| | - Alexander Birbrair
- Department of Dermatology, School of Medicine and Public Health, University of Wisconsin-Madison, Madison, WI 53706, USA
- Department of Pathology, Federal University of Minas Gerais, Belo Horizonte 31270, MG, Brazil
- Department of Radiology, Columbia University Medical Center, New York, NY 10032, USA
| | - Renato S. de Aguiar
- Department of Genetics, Ecology and Evolution, Federal University of Minas Gerais, Belo Horizonte 31270, MG, Brazil
- D’Or Institute of Research, Rio de Janeiro 22281, RJ, Brazil
| | - Renan P. de Souza
- Department of Genetics, Ecology and Evolution, Federal University of Minas Gerais, Belo Horizonte 31270, MG, Brazil
| | - Vasco A. de C. Azevedo
- Department of Genetics, Ecology and Evolution, Federal University of Minas Gerais, Belo Horizonte 31270, MG, Brazil
| | - Gepoliano Chaves
- Department of Pediatrics, University of Chicago, Chicago, IL 60637, USA
| | - Aline Belmok
- Laboratory of Baculoviruses, University of Brasilia, Brasilia 70910, DF, Brazil
| | - Ricardo Durães-Carvalho
- Department of Microbiology, Immunology and Parasitology, São Paulo School of Medicine, Federal University of São Paulo (UNIFESP), São Paulo 04023, SP, Brazil
- Post-Graduate Program in Structural and Functional Biology, UNIFESP, São Paulo 04023, SP, Brazil
| | - Fernando L. Melo
- Laboratory of Baculoviruses, University of Brasilia, Brasilia 70910, DF, Brazil
| | - Bergmann M. Ribeiro
- Laboratory of Baculoviruses, University of Brasilia, Brasilia 70910, DF, Brazil
| | - Jaime Henrique Amorim
- Center of Biological Sciences and Health, Federal University of Western Bahia, Barreiras 47805, BA, Brazil
- Department of Biological Sciences, State University of Santa Cruz, Ilhéus 45662, BA, Brazil
- Correspondence: ; Tel.: +5577-3614-3218
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7
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Nunes DR, Braconi CT, Ludwig-Begall LF, Arns CW, Durães-Carvalho R. Deep phylogenetic-based clustering analysis uncovers new and shared mutations in SARS-CoV-2 variants as a result of directional and convergent evolution. PLoS One 2022; 17:e0268389. [PMID: 35609034 PMCID: PMC9129020 DOI: 10.1371/journal.pone.0268389] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2021] [Accepted: 04/28/2022] [Indexed: 02/06/2023] Open
Abstract
Nearly two decades after the last epidemic caused by a severe acute respiratory syndrome coronavirus (SARS-CoV), newly emerged SARS-CoV-2 quickly spread in 2020 and precipitated an ongoing global public health crisis. Both the continuous accumulation of point mutations, owed to the naturally imposed genomic plasticity of SARS-CoV-2 evolutionary processes, as well as viral spread over time, allow this RNA virus to gain new genetic identities, spawn novel variants and enhance its potential for immune evasion. Here, through an in-depth phylogenetic clustering analysis of upwards of 200,000 whole-genome sequences, we reveal the presence of previously unreported and hitherto unidentified mutations and recombination breakpoints in Variants of Concern (VOC) and Variants of Interest (VOI) from Brazil, India (Beta, Eta and Kappa) and the USA (Beta, Eta and Lambda). Additionally, we identify sites with shared mutations under directional evolution in the SARS-CoV-2 Spike-encoding protein of VOC and VOI, tracing a heretofore-undescribed correlation with viral spread in South America, India and the USA. Our evidence-based analysis provides well-supported evidence of similar pathways of evolution for such mutations in all SARS-CoV-2 variants and sub-lineages. This raises two pivotal points: (i) the co-circulation of variants and sub-lineages in close evolutionary environments, which sheds light onto their trajectories into convergent and directional evolution, and (ii) a linear perspective into the prospective vaccine efficacy against different SARS-CoV-2 strains.
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Affiliation(s)
- Danilo Rosa Nunes
- Department of Microbiology, Immunology and Parasitology, Paulista School of Medicine, Federal University of São Paulo, São Paulo, SP, Brazil
| | - Carla Torres Braconi
- Department of Microbiology, Immunology and Parasitology, Paulista School of Medicine, Federal University of São Paulo, São Paulo, SP, Brazil
- * E-mail: (CTB); (RDC)
| | - Louisa F. Ludwig-Begall
- Department of Infectious and Parasitic Diseases, Veterinary Virology and Animal Viral Diseases, FARAH Research Centre, Faculty of Veterinary Medicine, University of Liège, Liège, Belgium
| | - Clarice Weis Arns
- Laboratory of Virology, University of Campinas, Campinas, SP, Brazil
| | - Ricardo Durães-Carvalho
- Department of Microbiology, Immunology and Parasitology, Paulista School of Medicine, Federal University of São Paulo, São Paulo, SP, Brazil
- * E-mail: (CTB); (RDC)
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8
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Andreata-Santos R, Janini LMR, Durães-Carvalho R. From Alpha to Omicron SARS-CoV-2 variants: What their evolutionary signatures can tell us? J Med Virol 2022; 94:1773-1776. [PMID: 34978091 PMCID: PMC9015558 DOI: 10.1002/jmv.27555] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2021] [Revised: 12/24/2021] [Accepted: 12/27/2021] [Indexed: 01/29/2023]
Affiliation(s)
- Robert Andreata-Santos
- Department of Microbiology, Immunology and Parasitology, Federal University of São Paulo, São Paulo, Sao Paulo, Brazil
| | - Luiz M R Janini
- Department of Microbiology, Immunology and Parasitology, Federal University of São Paulo, São Paulo, Sao Paulo, Brazil
| | - Ricardo Durães-Carvalho
- Department of Microbiology, Immunology and Parasitology, Federal University of São Paulo, São Paulo, Sao Paulo, Brazil
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9
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Andrade ACDSP, Campolina-Silva GH, Queiroz-Junior CM, de Oliveira LC, Lacerda LDSB, Pimenta JC, de Souza FRO, de Meira Chaves I, Passos IB, Teixeira DC, Bittencourt-Silva PG, Valadão PAC, Rossi-Oliveira L, Antunes MM, Figueiredo AFA, Wnuk NT, Temerozo JR, Ferreira AC, Cramer A, Oliveira CA, Durães-Carvalho R, Weis Arns C, Guimarães PPG, Costa GMJ, de Menezes GB, Guatimosim C, da Silva GSF, Souza TML, Barrioni BR, Pereira MDM, de Sousa LP, Teixeira MM, Costa VV. A Biosafety Level 2 Mouse Model for Studying Betacoronavirus-Induced Acute Lung Damage and Systemic Manifestations. J Virol 2021; 95:e0127621. [PMID: 34495692 PMCID: PMC8549505 DOI: 10.1128/jvi.01276-21] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2021] [Accepted: 09/01/2021] [Indexed: 12/29/2022] Open
Abstract
The emergence of life-threatening zoonotic diseases caused by betacoronaviruses, including the ongoing coronavirus disease 19 (COVID-19) pandemic, has highlighted the need for developing preclinical models mirroring respiratory and systemic pathophysiological manifestations seen in infected humans. Here, we showed that C57BL/6J wild-type mice intranasally inoculated with the murine betacoronavirus murine hepatitis coronavirus 3 (MHV-3) develop a robust inflammatory response leading to acute lung injuries, including alveolar edema, hemorrhage, and fibrin thrombi. Although such histopathological changes seemed to resolve as the infection advanced, they efficiently impaired respiratory function, as the infected mice displayed restricted lung distention and increased respiratory frequency and ventilation. Following respiratory manifestation, the MHV-3 infection became systemic, and a high virus burden could be detected in multiple organs along with morphological changes. The systemic manifestation of MHV-3 infection was also marked by a sharp drop in the number of circulating platelets and lymphocytes, besides the augmented concentration of the proinflammatory cytokines interleukin 1 beta (IL-1β), IL-6, IL-12, gamma interferon (IFN-γ), and tumor necrosis factor (TNF), thereby mirroring some clinical features observed in moderate and severe cases of COVID-19. Importantly, both respiratory and systemic changes triggered by MHV-3 infection were greatly prevented by blocking TNF signaling, either via genetic or pharmacologic approaches. In line with this, TNF blockage also diminished the infection-mediated release of proinflammatory cytokines and virus replication of human epithelial lung cells infected with severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). Collectively, results show that MHV-3 respiratory infection leads to a large range of clinical manifestations in mice and may constitute an attractive, lower-cost, biosafety level 2 (BSL2) in vivo platform for evaluating the respiratory and multiorgan involvement of betacoronavirus infections. IMPORTANCE Mouse models have long been used as valuable in vivo platforms to investigate the pathogenesis of viral infections and effective countermeasures. The natural resistance of mice to the novel betacoronavirus SARS-CoV-2, the causative agent of COVID-19, has launched a race toward the characterization of SARS-CoV-2 infection in other animals (e.g., hamsters, cats, ferrets, bats, and monkeys), as well as adaptation of the mouse model, by modifying either the host or the virus. In the present study, we utilized a natural pathogen of mice, MHV, as a prototype to model betacoronavirus-induced acute lung injure and multiorgan involvement under biosafety level 2 conditions. We showed that C57BL/6J mice intranasally inoculated with MHV-3 develops severe disease, which includes acute lung damage and respiratory distress that precede systemic inflammation and death. Accordingly, the proposed animal model may provide a useful tool for studies regarding betacoronavirus respiratory infection and related diseases.
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Affiliation(s)
| | - Gabriel Henrique Campolina-Silva
- Department of Biochemistry and Immunology, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | - Celso Martins Queiroz-Junior
- Department of Morphology, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | - Leonardo Camilo de Oliveira
- Department of Morphology, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | | | - Jordane C Pimenta
- Department of Morphology, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | | | - Ian de Meira Chaves
- Department of Morphology, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | - Ingredy Beatriz Passos
- Department of Microbiology, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | - Danielle Cunha Teixeira
- Department of Morphology, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | - Paloma Graziele Bittencourt-Silva
- Department of Physiology and Biophysics, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | | | - Leonardo Rossi-Oliveira
- Department of Morphology, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | - Maisa Mota Antunes
- Department of Morphology, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | - André Felipe Almeida Figueiredo
- Department of Morphology, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | - Natália Teixeira Wnuk
- Department of Morphology, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | - Jairo R. Temerozo
- Laboratory on Thymus Research, Oswaldo Cruz Institute, Fiocruz, Rio de Janeiro, RJ, Brazil
- National Institute for Science and Technology on Neuroimmunomodulation, Oswaldo Cruz Foundation (Fiocruz), Rio de Janeiro, RJ, Brazil
| | - André Costa Ferreira
- National Institute for Science and Technology on Innovation on Diseases of Neglected Populations (INCT/IDNP), Center for Technological Development in Health (CDTS), Oswaldo Cruz Foundation (Fiocruz), Rio de Janeiro, RJ, Brazil
- Immunopharmacology Laboratory, Oswaldo Cruz Foundation (Fiocruz), Rio de Janeiro, RJ, Brazil
- Laboratório de Pesquisas Pré-clínicas, Universidade Iguaçu (UNIG), Rio de Janeiro, RJ, Brazil
| | - Allysson Cramer
- Department of Biochemistry and Immunology, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | - Cleida Aparecida Oliveira
- Department of Morphology, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | | | - Clarice Weis Arns
- Laboratory of Virology, Universidade Estadual de Campinas (UNICAMP), Campinas, SP, Brazil
| | - Pedro Pires Goulart Guimarães
- Department of Physiology and Biophysics, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | - Guilherme Mattos Jardim Costa
- Department of Morphology, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | - Gustavo Batista de Menezes
- Department of Morphology, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | - Cristina Guatimosim
- Department of Morphology, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | - Glauber Santos Ferreira da Silva
- Department of Physiology and Biophysics, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | - Thiago Moreno L. Souza
- National Institute for Science and Technology on Innovation on Diseases of Neglected Populations (INCT/IDNP), Center for Technological Development in Health (CDTS), Oswaldo Cruz Foundation (Fiocruz), Rio de Janeiro, RJ, Brazil
- Immunopharmacology Laboratory, Oswaldo Cruz Foundation (Fiocruz), Rio de Janeiro, RJ, Brazil
| | - Breno Rocha Barrioni
- Department of Metallurgical Engineering and Materials, Federal University of Minas Gerais, School of Engineering, Belo Horizonte, Brazil
| | - Marivalda de Magalhães Pereira
- Department of Metallurgical Engineering and Materials, Federal University of Minas Gerais, School of Engineering, Belo Horizonte, Brazil
| | - Lirlândia Pires de Sousa
- Department of Clinical and Toxicological Analysis, Faculty of Pharmacy, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | - Mauro Martins Teixeira
- Department of Biochemistry and Immunology, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
| | - Vivian Vasconcelos Costa
- Department of Morphology, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
- Department of Biochemistry and Immunology, Institute of Biological Sciences, Universidade Federal de Minas Gerais, Belo Horizonte, MG, Brazil
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10
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Loeffler FF, Viana IFT, Fischer N, Coêlho DF, Silva CS, Purificação AF, Araújo CMCS, Leite BHS, Durães-Carvalho R, Magalhães T, Morais CNL, Cordeiro MT, Lins RD, Marques ETA, Jaenisch T. Identification of a Zika NS2B epitope as a biomarker for severe clinical phenotypes. RSC Med Chem 2021; 12:1525-1539. [PMID: 34671736 DOI: 10.1039/d1md00124h] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2021] [Accepted: 06/17/2021] [Indexed: 01/04/2023] Open
Abstract
The identification of specific biomarkers for Zika infection and its clinical complications is fundamental to mitigate the infection spread, which has been associated with a broad range of neurological sequelae. We present the characterization of antibody responses in serum samples from individuals infected with Zika, presenting non-severe (classical) and severe (neurological disease) phenotypes, with high-density peptide arrays comprising the Zika NS1 and NS2B proteins. The data pinpoints one strongly IgG-targeted NS2B epitope in non-severe infections, which is absent in Zika patients, where infection progressed to the severe phenotype. This differential IgG profile between the studied groups was confirmed by multivariate data analysis. Molecular dynamics simulations and circular dichroism have shown that the peptide in solution presents itself in a sub-optimal conformation for antibody recognition, which led us to computationally engineer an artificial protein able to stabilize the NS2B epitope structure. The engineered protein was used to interrogate paired samples from mothers and their babies presenting Zika-associated microcephaly and confirmed the absence of NS2B IgG response in those samples. These findings suggest that the assessment of antibody responses to the herein identified NS2B epitope is a strong candidate biomarker for the diagnosis and prognosis of Zika-associated neurological disease.
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Affiliation(s)
- Felix F Loeffler
- Max Planck Institute of Colloids and Interfaces, Department of Biomolecular Systems Potsdam Germany
| | - Isabelle F T Viana
- Department of Virology, Aggeu Magalhães Institute, Oswaldo Cruz Foundation Recife PE Brazil
| | - Nico Fischer
- Section Clinical Tropical Medicine, Department of Infectious Diseases, Heidelberg University Hospital Germany
| | - Danilo F Coêlho
- Department of Virology, Aggeu Magalhães Institute, Oswaldo Cruz Foundation Recife PE Brazil.,Department of Fundamental Chemistry, Federal University of Pernambuco Recife PE Brazil
| | - Carolina S Silva
- Department of Chemical Engineering, Federal University of Pernambuco Recife PE Brazil
| | - Antônio F Purificação
- Department of Virology, Aggeu Magalhães Institute, Oswaldo Cruz Foundation Recife PE Brazil
| | - Catarina M C S Araújo
- Department of Virology, Aggeu Magalhães Institute, Oswaldo Cruz Foundation Recife PE Brazil
| | - Bruno H S Leite
- Department of Virology, Aggeu Magalhães Institute, Oswaldo Cruz Foundation Recife PE Brazil
| | | | - Tereza Magalhães
- Department of Virology, Aggeu Magalhães Institute, Oswaldo Cruz Foundation Recife PE Brazil
| | - Clarice N L Morais
- Department of Virology, Aggeu Magalhães Institute, Oswaldo Cruz Foundation Recife PE Brazil
| | - Marli T Cordeiro
- Department of Virology, Aggeu Magalhães Institute, Oswaldo Cruz Foundation Recife PE Brazil
| | - Roberto D Lins
- Department of Virology, Aggeu Magalhães Institute, Oswaldo Cruz Foundation Recife PE Brazil
| | - Ernesto T A Marques
- Department of Virology, Aggeu Magalhães Institute, Oswaldo Cruz Foundation Recife PE Brazil.,Department of Infectious Diseases and Microbiology, University of Pittsburgh Pittsburgh PA USA
| | - Thomas Jaenisch
- Section Clinical Tropical Medicine, Department of Infectious Diseases, Heidelberg University Hospital Germany .,German Centre for Infection Research (DZIF) Heidelberg Site Heidelberg Germany
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11
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Escalante-Maldonado O, Vidal-Anzardo M, Donaires F, Solis-Sanchez G, Gallesi I, Pampa-Espinoza L, Huaringa M, Rojas-Serrano N, García C, Angles-Yanqui E, Gavilán RG, Durães-Carvalho R, Mendez-Rico J, Cabezas C, Marques-Simas PV. Standardization and validation of an in house RT-LAMP molecular test for the diagnosis of SARS-CoV-2. Rev Peru Med Exp Salud Publica 2021; 38:7-16. [PMID: 34190927 DOI: 10.17843/rpmesp.2021.381.7154] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Subscribe] [Scholar Register] [Received: 01/20/2021] [Accepted: 02/24/2021] [Indexed: 11/06/2022]
Abstract
OBJECTIVES To standardize and validate an in-house RT-LAMP test for the detection of SARS-CoV-2, based on laboratory and field assays using samples from COVID-19 suspected patients. MATERIALS AND METHODS An in-house SARS-CoV-2 RT-LAMP molecular test was standardized, establishing the detection limit with Vero cells of isolated Peruvian strains of SARS-CoV-2, and the robustness to various concentrations of primers. The laboratory validation was performed with 384 nasal and pharyngeal swab samples (UFH) obtained between March and July 2020. The field validation was performed with 383 UFH obtained from COVID-19 suspected symptomatic cases. All samples were tested by RT-LAMP and RT-qPCR. The RT-qPCR was considered as the reference standard test. The concordance measures and diagnostic performance were calculated. RESULTS The detection limit was consistent in cases with Ct <30 in both tests, showing efficiency to detect up to 1000 copies/μL of the target gene. Robustness was evidenced with half of the primer concentrations and 20 μL of final volume. Absence of amplification was identified for other HCoVs. Concordance showed a kappa index of 0.88 (95% CI: 0.83-0.93) and 0.89 (95% CI: 0.84 - 0.94) in laboratory and field settings, respectively. The sensitivity value in the laboratory was 87.4% (95% CI: 80.8 - 92.4) and 88.1% in the field (95% CI: 81.6 - 92.9). The specificity value in both settings was 98.8% (95% CI: 96.4-99.7). CONCLUSIONS The in-house SARS-CoV-2 RT-LAMP test was successfully validated based on its adequate robustness, no cross-reactions, good concordance, and diagnostic performance compared to RT-qPCR.
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Affiliation(s)
| | | | - Fernando Donaires
- Centro Nacional de Salud Pública, Instituto Nacional de Salud, Lima, Perú
| | - Gilmer Solis-Sanchez
- Oficina General de Investigación y Transferencia Tecnológica, Instituto Nacional de Salud, Lima, Perú
| | - Italo Gallesi
- Centro Nacional de Salud Pública, Instituto Nacional de Salud, Lima, Perú
| | | | - Maribel Huaringa
- Centro Nacional de Salud Pública, Instituto Nacional de Salud, Lima, Perú
| | | | | | - Eddie Angles-Yanqui
- Hospital Nacional Arzobispo Loayza, Lima, Perú.,Universidad Peruana Cayetano Heredia, Lima, Perú
| | | | | | - Jairo Mendez-Rico
- Organización Panamericana de la Salud, Organización Mundial de la Salud, Washington DC, Estados Unidos de América
| | - César Cabezas
- Centro Nacional de Salud Pública, Instituto Nacional de Salud, Lima, Perú
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12
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Elbadry MA, Durães-Carvalho R, Blohm GM, Stephenson CJ, Loeb JC, White SK, Telisma T, Chavannes S, Beau De Rochars VM, Salemi M, Morris JG, Lednicky JA. Orthobunyaviruses in the Caribbean: Melao and Oropouche virus infections in school children in Haiti in 2014. PLoS Negl Trop Dis 2021; 15:e0009494. [PMID: 34133422 PMCID: PMC8238191 DOI: 10.1371/journal.pntd.0009494] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2020] [Revised: 06/28/2021] [Accepted: 05/21/2021] [Indexed: 12/05/2022] Open
Abstract
We report the identification of two orthobunyaviruses, Melao virus (MELV) and Oropouche virus (OROV), in plasma specimens from Haitian children with acute febrile illness who presented during outbreaks caused by alpha- and flaviviruses in 2014. Heretofore not described as a human pathogen, MELV was isolated in cell culture from the plasma of five case patients. OROV RNA was detected in the plasma of an additional child, using an unbiased sequencing approach, with phylogenetic inference suggesting a close relationship with strains from Brazil. Abdominal pain was reported by four case patients with MELV infections, with lymphadenopathy noted in two cases. Our findings document the occurrence of these orthobunyaviruses within the Caribbean region and highlight the critical importance of surveillance with viral genome sequence analyses to identify outbreaks caused by these and other emerging viruses. Melao and Oropuche virus infections were detected in Haitian children who developed acute febrile illnesses in year 2014. As these viruses were not previously known to circulate in Haiti, our findings highlight the critical importance of surveillance to identify outbreaks caused by these and other emerging viruses.
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Affiliation(s)
- Maha A. Elbadry
- Department of Environmental and Global Health, College of Public Health and Health Professions, University of Florida, Gainesville, Florida, United States of America
- Emerging Pathogens Institute, University of Florida, Gainesville, Florida, United States of America
| | | | - Gabriela M. Blohm
- Department of Environmental and Global Health, College of Public Health and Health Professions, University of Florida, Gainesville, Florida, United States of America
- Emerging Pathogens Institute, University of Florida, Gainesville, Florida, United States of America
| | - Caroline J. Stephenson
- Department of Environmental and Global Health, College of Public Health and Health Professions, University of Florida, Gainesville, Florida, United States of America
- Emerging Pathogens Institute, University of Florida, Gainesville, Florida, United States of America
| | - Julia C. Loeb
- Department of Environmental and Global Health, College of Public Health and Health Professions, University of Florida, Gainesville, Florida, United States of America
- Emerging Pathogens Institute, University of Florida, Gainesville, Florida, United States of America
| | - Sarah K. White
- Department of Environmental and Global Health, College of Public Health and Health Professions, University of Florida, Gainesville, Florida, United States of America
- Emerging Pathogens Institute, University of Florida, Gainesville, Florida, United States of America
| | | | | | - Valery M. Beau De Rochars
- Emerging Pathogens Institute, University of Florida, Gainesville, Florida, United States of America
- Department of Health Service Research, Management and Policy, College of Public Health and Health Professions, University of Florida, Gainesville, Florida, United States of America
| | - Marco Salemi
- Emerging Pathogens Institute, University of Florida, Gainesville, Florida, United States of America
- Department of Pathology, College of Medicine, University of Florida, Gainesville, Florida, United States of America
| | - J. Glenn Morris
- Emerging Pathogens Institute, University of Florida, Gainesville, Florida, United States of America
- Department of Medicine, College of Medicine, University of Florida, Gainesville, Florida, United States of America
| | - John A. Lednicky
- Department of Environmental and Global Health, College of Public Health and Health Professions, University of Florida, Gainesville, Florida, United States of America
- Emerging Pathogens Institute, University of Florida, Gainesville, Florida, United States of America
- * E-mail:
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13
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do Nascimento IDS, Pastor AF, Lopes TRR, Farias PCS, Gonçales JP, do Carmo RF, Durães-Carvalho R, da Silva CS, Silva Júnior JVJ. Retrospective cross-sectional observational study on the epidemiological profile of dengue cases in Pernambuco state, Brazil, between 2015 and 2017. BMC Public Health 2020; 20:923. [PMID: 32532240 PMCID: PMC7291711 DOI: 10.1186/s12889-020-09047-z] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2019] [Accepted: 06/04/2020] [Indexed: 12/31/2022] Open
Abstract
BACKGROUND The spread of Dengue virus (DENV) infections, as well as their signs and symptoms, are the result of a complex interaction between several factors. In Brazil, especially in the Northeastern, dengue is an important public health problem. Here, we report an epidemiological analysis of dengue cases in Pernambuco state, Northeastern Brazil, during 2015-2017. METHODS This work is a retrospective cross-sectional observational study on the epidemiological profile of all dengue cases confirmed and reported to the Health Secretary of Pernambuco between 2015 and 2017. These data cover all municipalities of Pernambuco, except Fernando de Noronha. DENV-positive individuals were classified according to the dengue type (without and with warning signs, or severe dengue), age, gender, ethnicity and intermediate geographic region of residence (Recife, Caruaru, Serra Talhada or Petrolina). The distribution of cases over the years was assessed by χ2 test. Temperature and rainfall data were evaluated by Unpaired t-test. p-value < 0.05 and CI 95% were considered in all analyses. RESULTS Most dengue cases was without warning signs. The most observed characteristics in the less severe dengue phenotypes were: female, mulatto ethnicity and age between 20 and 39 years old; this profile was more clearly observed in 2015. In 2016 and 2017, however, the numbers of dengue without and with warning signs were more evenly distributed and the difference in cases within groups decreased significantly. Regarding severe dengue, mulattoes were the most affected, but it is possible to note a trend towards a more uniform distribution between the genders and ages. Recife was the region with the highest numbers of both total cases and incidence rates and the highest rainfall levels. Overall, over the years, there has been a decrease in dengue cases in all regions of Pernambuco. CONCLUSIONS We identified the epidemiological profile of dengue in Pernambuco, Brazil, reporting the gender, age, ethnicity and regions most affected by different dengue types. In addition, we observed that these cases were probably more influenced by rainfall than by temperature. Finally, we believe that this epidemiological knowledge is important to direct public health policies to the reality of each population.
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Affiliation(s)
| | - André Filipe Pastor
- Federal Institute of Education, Science and Technology of Sertão Pernambucano, Floresta, Pernambuco, Brazil
| | - Thaísa Regina Rocha Lopes
- Virology Sector, Laboratory of Immunopathology Keizo Asami, Federal University of Pernambuco, Recife, Pernambuco, Brazil
| | | | - Juliana Prado Gonçales
- Virology Sector, Laboratory of Immunopathology Keizo Asami, Federal University of Pernambuco, Recife, Pernambuco, Brazil
| | - Rodrigo Feliciano do Carmo
- Collegiate of Pharmaceutical Sciences, Federal University of Vale do São Francisco, Petrolina, Pernambuco, Brazil
| | | | - Caroline Simões da Silva
- Department of Virology, Aggeu Magalhães Institute, Oswaldo Cruz Foundation, Recife, Pernambuco, Brazil
| | - José Valter Joaquim Silva Júnior
- Virology Sector, Laboratory of Immunopathology Keizo Asami, Federal University of Pernambuco, Recife, Pernambuco, Brazil.
- Virology Sector, Department of Preventive Veterinary Medicine, Federal University of Santa Maria, Av. Roraima, Camobi, Santa Maria, Rio Grande do Sul, 97105-900, Brazil.
- Department of Microbiology and Parasitology, Federal University of Santa Maria, Santa Maria, Rio Grande do Sul, Brazil.
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14
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Durães-Carvalho R, Ludwig-Begall LF, Salemi M, Lins RD, Marques ETA. Influence of directional positive Darwinian selection-driven evolution on arboviruses Dengue and Zika virulence and pathogenesis. Mol Phylogenet Evol 2019; 140:106607. [PMID: 31473337 DOI: 10.1016/j.ympev.2019.106607] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2019] [Revised: 08/14/2019] [Accepted: 08/29/2019] [Indexed: 12/25/2022]
Abstract
Dengue (DENV) and Zika (ZIKV) viruses are antigenically and evolutionarily related; immunological cross-reactions between them have been associated to both cross-protection and infection-enhanced mechanisms. Here, DENV-1-4 and ZIKV were investigated through Bayesian coalescent-based approaches and selection-driven Darwinian evolution methods using robust datasets. Our findings show that both DENV and ZIKV, driven essentially by directional positive selection, have undergone evolution and diversification and that their entire polyproteins are subject to an intense directional evolution. Interestingly, positively selected codons mapped here are directly associated to DENV-1-2 virulence as well as the ZIKV burgeoning 2015-16 outbreak in the Americas, therefore, having impact on the pathogenesis of these viruses. Biochemical prediction analysis focusing on markers involved in virulence and viral transmission dynamics identified alterations in N-Glycosylation-, Phosphorylation- and Palmitoylation-sites in ZIKV sampled from different countries, hosts and isolation sources. Taking into account both DENV-ZIKV co-circulation either into and/or out of flavivirus-endemic regions, as well as recombination and quasispecies scenarios, these results indicate the action of a selection-driven evolution affecting the biology, virulence and pathogenesis of these pathogens in a non-randomized environment.
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Affiliation(s)
- Ricardo Durães-Carvalho
- Department of Virology, Aggeu Magalhães Institute, Oswaldo Cruz Foundation (FIOCRUZ), Recife, PE 50740-465, Brazil.
| | - Louisa F Ludwig-Begall
- Veterinary Virology and Animal Viral Diseases, Department of Infectious and Parasitic Diseases, FARAH Research Centre, Faculty of Veterinary Medicine, University of Liège, Belgium
| | - Marco Salemi
- Emerging Pathogens Institute, University of Florida, Gainesville, FL 32608, United States
| | - Roberto D Lins
- Department of Virology, Aggeu Magalhães Institute, Oswaldo Cruz Foundation (FIOCRUZ), Recife, PE 50740-465, Brazil
| | - Ernesto T A Marques
- Department of Virology, Aggeu Magalhães Institute, Oswaldo Cruz Foundation (FIOCRUZ), Recife, PE 50740-465, Brazil; Center for Vaccine Research, University of Pittsburgh, Pittsburgh, PA 15261, United States
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15
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Oliveira-Filho EFD, Dos Santos DR, Durães-Carvalho R, da Silva A, de Lima GB, Batista Filho AFB, Pena LJ, Gil LH. Evolutionary study of potentially zoonotic hepatitis E virus genotype 3 from swine in Northeast Brazil. Mem Inst Oswaldo Cruz 2019; 114:e180585. [PMID: 31166480 PMCID: PMC6547807 DOI: 10.1590/0074-02760180585] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2018] [Accepted: 05/10/2019] [Indexed: 12/27/2022] Open
Abstract
Hepatitis E virus (HEV), an emerging virus associated with acute hepatic disease, leads to thousands of deaths worldwide. HEV has already been reported in Brazil; however, there is a lack of epidemiological and molecular information on the genetic variability, taxonomy, and evolution of HEV. It is thus unclear whether hepatitis E is a neglected disease in Brazil or it has low relevance for public health in this country. Here, for the first time, we report the presence of HEV in Northeast Brazil. A total of 119 swine faecal samples were screened for the presence of HEV RNA using real-time polymerase chain reaction (RT-PCR) and further confirmed by conventional RT-PCR; among these, two samples were identified as positive. Molecular evolution analyses based on capsid sequences revealed that the samples had close proximities to HEV sequences belonging to genotype 3 and were genetically related to subtype 3f isolated in humans. Parsimony ancestral states analysis indicated gene flow events from HEV cross-species infection, suggesting an important role of pig hosts in viral spillover. HEV’s ability for zoonotic transmission by inter-species host switching as well as its possible adaptation to new animal species remain important issues for human health.
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Affiliation(s)
- Edmilson Ferreira de Oliveira-Filho
- Fundação Oswaldo Cruz-Fiocruz, Instituto Aggeu Magalhães, Departamento de Virologia, Recife, PE, Brasil.,Charité-Universitätsmedizin Berlin, Corporate Member of Freie Universität Berlin, Humboldt-Universität zu Berlin, and Berlin Institute of Health, Institute of Virology, Berlin, Germany
| | - Debora Rl Dos Santos
- Universidade Federal Rural do Rio de Janeiro, Instituto de Veterinária, Seropédica, RJ, Brasil
| | - Ricardo Durães-Carvalho
- Fundação Oswaldo Cruz-Fiocruz, Instituto Aggeu Magalhães, Departamento de Virologia, Recife, PE, Brasil
| | - Adalúcia da Silva
- Fundação Oswaldo Cruz-Fiocruz, Instituto Aggeu Magalhães, Departamento de Virologia, Recife, PE, Brasil
| | - Gustavo Barbosa de Lima
- Fundação Oswaldo Cruz-Fiocruz, Instituto Aggeu Magalhães, Departamento de Microbiologia, Recife, PE, Brasil
| | | | - Lindomar J Pena
- Fundação Oswaldo Cruz-Fiocruz, Instituto Aggeu Magalhães, Departamento de Virologia, Recife, PE, Brasil
| | - Laura Hvg Gil
- Fundação Oswaldo Cruz-Fiocruz, Instituto Aggeu Magalhães, Departamento de Virologia, Recife, PE, Brasil
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16
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Silva JVJ, Ludwig-Begall LF, Oliveira-Filho EFD, Oliveira RAS, Durães-Carvalho R, Lopes TRR, Silva DEA, Gil LHVG. A scoping review of Chikungunya virus infection: epidemiology, clinical characteristics, viral co-circulation complications, and control. Acta Trop 2018; 188:213-224. [PMID: 30195666 PMCID: PMC7092809 DOI: 10.1016/j.actatropica.2018.09.003] [Citation(s) in RCA: 62] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2018] [Revised: 09/02/2018] [Accepted: 09/03/2018] [Indexed: 02/07/2023]
Abstract
Chikungunya fever is a mosquito-borne viral illness characterized by a sudden onset of fever associated with joint pains. It was first described in the 1950s during a Chikungunya virus (CHIKV) outbreak in southern Tanzania and has since (re-) emerged and spread to several other geographical areas, reaching large populations and causing massive epidemics. In recent years, CHIKV has gained considerable attention due to its quick spread to the Caribbean and then in the Americas, with many cases reported between 2014 and 2017. CHIKV has further garnered attention due to the clinical diagnostic difficulties when Zika (ZIKV) and dengue (DENV) viruses are simultaneously present. In this review, topical CHIKV-related issues, such as epidemiology and transmission, are examined. The different manifestations of infection (acute, chronic and atypical) are described and a particular focus is placed upon the diagnostic handling in the case of ZIKV and DENV co-circulating. Natural and synthetic compounds under evaluation for treatment of chikungunya disease, including drugs already licensed for other purposes, are also discussed. Finally, previous and current vaccine strategies, as well as the control of the CHIKV transmission through an integrated vector management, are reviewed in some detail.
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Affiliation(s)
- José V J Silva
- Oswaldo Cruz Foundation, Aggeu Magalhães Institute, Department of Virology, Recife, PE, Brazil; Federal University of Santa Maria, Department of Preventive Veterinary Medicine, Virology Section, Santa Maria, RS, Brazil.
| | - Louisa F Ludwig-Begall
- Liège University, Faculty of Veterinary Medicine, Department of Infectious and Parasitic Diseases, Belgium
| | | | - Renato A S Oliveira
- Federal University of Paraíba, Department of Fisiology and Pathology, João Pessoa, PB, Brazil
| | - Ricardo Durães-Carvalho
- Oswaldo Cruz Foundation, Aggeu Magalhães Institute, Department of Virology, Recife, PE, Brazil
| | - Thaísa R R Lopes
- Federal University of Pernambuco, Laboratory of Immunopathology Keizo Asami, Virology Section, Recife, PE, Brazil
| | - Daisy E A Silva
- Oswaldo Cruz Foundation, Aggeu Magalhães Institute, Department of Virology, Recife, PE, Brazil
| | - Laura H V G Gil
- Oswaldo Cruz Foundation, Aggeu Magalhães Institute, Department of Virology, Recife, PE, Brazil.
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17
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Silva JV, Lopes TR, Oliveira-Filho EFD, Oliveira RA, Durães-Carvalho R, Gil LH. Current status, challenges and perspectives in the development of vaccines against yellow fever, dengue, Zika and chikungunya viruses. Acta Trop 2018; 182:257-263. [PMID: 29551394 DOI: 10.1016/j.actatropica.2018.03.009] [Citation(s) in RCA: 40] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2017] [Revised: 02/27/2018] [Accepted: 03/10/2018] [Indexed: 02/06/2023]
Abstract
Emerging and re-emerging viral infections transmitted by insect vectors (arthopode-borne viruses, arbovirus) are a serious threat to global public health. Among them, yellow fever (YFV), dengue (DENV), chikungunya (CHIKV) and Zika (ZIKV) viruses are particularly important in tropical and subtropical regions. Although vector control is one of the most used prophylactic measures against arboviruses, it often faces obstacles, such as vector diversity, uncontrolled urbanization and increasing resistance to insecticides. In this context, vaccines may be the best control strategy for arboviral diseases. Here, we provide a general overview about licensed vaccines and the most advanced vaccine candidates against YFV, DENV, CHIKV and ZIKV. In particular, we highlight vaccine difficulties, the current status of the most advanced strategies and discuss how the molecular characteristics of each virus can influence the choice of the different vaccine formulations.
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18
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Martini MC, Caserta LC, Dos Santos MMAB, Barnabé ACS, Durães-Carvalho R, Padilla MA, Simão RM, Rizotto LS, Simas PVM, Bastos JCS, Cardoso TC, Felippe PAN, Ferreira HL, Arns CW. Avian coronavirus isolated from a pigeon sample induced clinical disease, tracheal ciliostasis, and a high humoral response in day-old chicks. Avian Pathol 2018. [PMID: 29517348 DOI: 10.1080/03079457.2018.1442557] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
The detection of avian coronaviruses (AvCoV) in wild birds and the emergence of new AvCoV have increased in the past few years. In the present study, the pathogenicity of three AvCoV isolates was investigated in day-old chicks. One AvCoV isolated from a pigeon, which clustered with the Massachusetts vaccine serotype, and two AvCoV isolated from chickens, which grouped with a Brazilian genotype lineage, were used. Clinical signs, gross lesions, histopathological changes, ciliary activity, viral RNA detection, and serology were evaluated during 42 days post infection. All AvCoV isolates induced clinical signs, gross lesions in the trachea, moderate histopathological changes in the respiratory tract, and mild changes in other tissues. AvCoV isolated from the pigeon sample caused complete tracheal ciliostasis over a longer time span. Specific viral RNA was detected in all tissues, but the highest RNA loads were detected in the digestive tract (cloacal swabs and ileum). The highest antibody levels were also detected in the group infected with an isolate from the pigeon. These results confirm the pathogenicity of Brazilian variants, which can cause disease and induce gross lesions and histopathological changes in chickens. Our results suggest that non-Galliformes birds can also play a role in the ecology of AvCoV.
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Affiliation(s)
- Matheus C Martini
- a Laboratory of Animal Virology , Institute of Biology, University of Campinas-UNICAMP , Campinas , SP , Brazil
| | - Leonardo C Caserta
- a Laboratory of Animal Virology , Institute of Biology, University of Campinas-UNICAMP , Campinas , SP , Brazil
| | | | - Ana C S Barnabé
- a Laboratory of Animal Virology , Institute of Biology, University of Campinas-UNICAMP , Campinas , SP , Brazil
| | - Ricardo Durães-Carvalho
- a Laboratory of Animal Virology , Institute of Biology, University of Campinas-UNICAMP , Campinas , SP , Brazil
| | - Marina A Padilla
- a Laboratory of Animal Virology , Institute of Biology, University of Campinas-UNICAMP , Campinas , SP , Brazil
| | - Raphael M Simão
- c Postgraduate Program in Experimental Epidemiology of Zoonoses, Faculty of Veterinary Medicine and Animal Science , University of Sao Paulo (FMVZ-USP) , Sao Paulo , SP , Brazil
| | - Laís S Rizotto
- c Postgraduate Program in Experimental Epidemiology of Zoonoses, Faculty of Veterinary Medicine and Animal Science , University of Sao Paulo (FMVZ-USP) , Sao Paulo , SP , Brazil
| | - Paulo V M Simas
- a Laboratory of Animal Virology , Institute of Biology, University of Campinas-UNICAMP , Campinas , SP , Brazil
| | - Juliana C S Bastos
- a Laboratory of Animal Virology , Institute of Biology, University of Campinas-UNICAMP , Campinas , SP , Brazil
| | - Tereza C Cardoso
- e DAPSA Department, Laboratory of Animal Virology and Cell Culture , College of Veterinary Medicine, Universidade Estadual Paulista , Araçatuba , SP , Brazil
| | - Paulo A N Felippe
- a Laboratory of Animal Virology , Institute of Biology, University of Campinas-UNICAMP , Campinas , SP , Brazil
| | - Helena L Ferreira
- b Department of Veterinary Medicine, Faculty of Animal Science and Food Engineering , University of Sao Paulo (FZEA-USP) , Pirassununga , SP , Brazil.,c Postgraduate Program in Experimental Epidemiology of Zoonoses, Faculty of Veterinary Medicine and Animal Science , University of Sao Paulo (FMVZ-USP) , Sao Paulo , SP , Brazil
| | - Clarice W Arns
- a Laboratory of Animal Virology , Institute of Biology, University of Campinas-UNICAMP , Campinas , SP , Brazil
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Durães-Carvalho R, Salemi M. In-depth phylodynamics, evolutionary analysis and in silico predictions of universal epitopes of Influenza A subtypes and Influenza B viruses. Mol Phylogenet Evol 2018; 121:174-182. [PMID: 29355604 DOI: 10.1016/j.ympev.2018.01.008] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2017] [Revised: 12/26/2017] [Accepted: 01/10/2018] [Indexed: 12/11/2022]
Abstract
This study applied High-Performance Computing to explore the high-resolution phylodynamics and the evolutionary dynamics of Influenza viruses (IVs) A and B and their subtypes in-depth to identify peptide-based candidates for broad-spectrum vaccine targets. For this purpose, we collected all the available Hemagglutinin (HA) and Neuraminidase (NA) nucleotide and amino acid sequences (more than 100,000) of IVs isolated from all the reservoirs and intermediate hosts species, from all geographic ranges and from different isolation sources, covering a period of almost one century of sampling years. We highlight that despite the constant changes in Influenza evolutionary dynamics over time, which are responsible for the generation of novel strains, our study identified the presence of highly conserved peptides distributed in all the HA and NA found in H1-H18 and N1-N11 IAV subtypes and IBVs. Additionally, predictions through computational methods showed that these peptides could have a strong affinity to bind to HLA-A∗02:01/HLA-DRB1∗01:01 major histocompatibility complex (MHC) class I and II molecules, therefore acting as a double ligand. Moreover, epitope prediction in antigens from pathogens responsible for secondary bacterial infection was also studied. These findings show that the regions mapped here may potentially be explored as universal epitope-based candidates to develop therapies leading to a broader response against the infection induced by all circulating IAVs, IBVs and Influenza-associated bacterial infections.
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Affiliation(s)
- Ricardo Durães-Carvalho
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139, United States.
| | - Marco Salemi
- Emerging Pathogens Institute, Department of Pathology, Immunology and Laboratory Medicine, University of Florida, Gainesville, FL 32610, United States
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Barry AF, Durães-Carvalho R, Oliveira-Filho EF, Alfieri AA, Van der Poel WHM. High-resolution phylogeny providing insights towards the epidemiology, zoonotic aspects and taxonomy of sapoviruses. Infect Genet Evol 2017; 56:8-13. [PMID: 28951203 DOI: 10.1016/j.meegid.2017.09.024] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/23/2017] [Revised: 09/18/2017] [Accepted: 09/19/2017] [Indexed: 10/18/2022]
Abstract
The evolution, epidemiology and zoonotic aspects of Sapoviruses (SaV) are still not well explored. In this study, we applied high-resolution phylogeny to investigate the epidemiological and zoonotic origins as well as taxonomic classification of animal and human SaV. Bayesian framework analyses showed an increase in porcine SaV (PoSaV) population dynamics and genetic diversity between 1975 and 1982, resulting in a SaV gene flow and generation of new strains among porcine and human populations. Our results also show the contribution of different animal populations involved in SaV epidemiology and highlight zoonotic aspects, as exemplified by the crucial role that swine, dogs, mink and humans play in SaV spread. Additionally, phylogenetic analysis suggests that bats may play key role in SaV epidemiology. According to our hypothesis, these animals may act as reservoirs or intermediate host species, contributing to viral spread in zoonotic and other epidemiological scenarios and facilitating the generation of new SaV genogroups and genotypes through recombination events. Data from large-scale phylogeny partition based on patristic distance, did not show a correlation between transmission clusters on generation of SaV genogroups, nevertheless we present both important findings about SaV taxonomy and important considerations useful for further taxonomical studies.
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Affiliation(s)
- A F Barry
- Laboratory of Animal Virology, Department of Preventive Veterinary Medicine, Universidade Estadual de Londrina, Campus Universitário, PO Box 6001, 86051-990 Londrina, Paraná, Brazil
| | - R Durães-Carvalho
- Department of Virology, Aggeu Magalhães Institute, Oswaldo Cruz Foundation (FIOCRUZ), Av. Professor Moraes Rego s/n, Cidade Universitária, Recife, PE 50740-465, Brazil.
| | - E F Oliveira-Filho
- Department of Virology, Aggeu Magalhães Institute, Oswaldo Cruz Foundation (FIOCRUZ), Av. Professor Moraes Rego s/n, Cidade Universitária, Recife, PE 50740-465, Brazil
| | - A A Alfieri
- Laboratory of Animal Virology, Department of Preventive Veterinary Medicine, Universidade Estadual de Londrina, Campus Universitário, PO Box 6001, 86051-990 Londrina, Paraná, Brazil
| | - W H M Van der Poel
- Wageningen Bioveterinary Research, Wageningen University and Research, Department of Virology, P.O. Box 65, 8200 AB Lelystad, Edelhertweg 15, 8219 PH Lelystad, The Netherlands
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Alvin Bernedo-Navarro R, Durães-Carvalho R, Rabelo de Souza A, Mayele Miyachiro M, Francisco Sampaio Bonafe C, Yano T. INACTIVATION OF SHIGA-TOXIN PRODUCING Escherichia coli (STEC) O157:H7 IN MILK BY COMBINED TREATMENT WITH HIGH HYDROSTATIC PRESSURE AND AQUEOUS POMEGRANATE EXTRACT. J microb biotech food sci 2016. [DOI: 10.15414/jmbfs.2016.6.1.636-640] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022] Open
Abstract
The aim of this work was to evaluate the synergistic effect of combined treatment with high hydrostatic pressure (HHP) and an aqueous extract of Punica granatum (pomegranate) peels on the survival of Shiga toxin-producing Escherichia coli (STEC). Our results showed that HHP (250 MPa, 60 min, 25 ºC) reduced the STEC bacterial load in milk and tryptic soy broth culture medium by about 2.5 and 3.5 logs, respectively. Under these conditions, HHP did not alter the cytotoxicity of Shiga toxins in Vero and human umbilical vein endothelial cells. Treatment with up to 30 mg of pomegranate extract/mL caused negligible inactivation, but a combination of HHP and pomegranate extract (3 mg/mL) produced bacterial inactivation from 109 CFU/mL to undetectable levels of viable bacteria. These findings suggest that a combination of HHP and pomegranate extract may be potentially effective in bacterial inactivation during food processing, particularly in the elimination of important foodborne pathogens such as STEC. a
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Simas PVM, Barnabé ACDS, Durães-Carvalho R, Neto DFDL, Caserta LC, Artacho L, Jacomassa FAF, Martini MC, Bianchi Dos Santos MMA, Felippe PAN, Ferreira HL, Arns CW. Bat coronavirus in Brazil related to appalachian ridge and porcine epidemic diarrhea viruses. Emerg Infect Dis 2015; 21:729-31. [PMID: 25811911 PMCID: PMC4378475 DOI: 10.3201/eid2104.141783] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022] Open
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23
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Durães-Carvalho R, Caserta LC, Barnabé ACS, Martini MC, Simas PVM, Santos MMB, Salemi M, Arns CW. Phylogenetic and phylogeographic mapping of the avian coronavirus spike protein-encoding gene in wild and synanthropic birds. Virus Res 2015; 201:101-12. [PMID: 25771408 PMCID: PMC7114359 DOI: 10.1016/j.virusres.2015.03.002] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/10/2015] [Revised: 03/02/2015] [Accepted: 03/04/2015] [Indexed: 12/21/2022]
Abstract
The evolution and population dynamics of avian coronaviruses (AvCoVs) remain underexplored. In the present study, in-depth phylogenetic and Bayesian phylogeographic studies were conducted to investigate the evolutionary dynamics of AvCoVs detected in wild and synanthropic birds. A total of 500 samples, including tracheal and cloacal swabs collected from 312 wild birds belonging to 42 species, were analysed using molecular assays. A total of 65 samples (13%) from 22 bird species were positive for AvCoV. Molecular evolution analyses revealed that the sequences from samples collected in Brazil did not cluster with any of the AvCoV S1 gene sequences deposited in the GenBank database. Bayesian framework analysis estimated an AvCoV strain from Sweden (1999) as the most recent common ancestor of the AvCoVs detected in this study. Furthermore, the analysis inferred an increase in the AvCoV dynamic demographic population in different wild and synanthropic bird species, suggesting that birds may be potential new hosts responsible for spreading this virus.
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Affiliation(s)
- Ricardo Durães-Carvalho
- Laboratory of Virology, Department of Genetics, Evolution and Bioagents, University of Campinas (UNICAMP), São Paulo, Brazil; Emerging Pathogens Institute & Department of Pathology, Immunology and Laboratory Medicine, University of Florida, Gainesville, FL, USA.
| | - Leonardo C Caserta
- Laboratory of Virology, Department of Genetics, Evolution and Bioagents, University of Campinas (UNICAMP), São Paulo, Brazil
| | - Ana C S Barnabé
- Laboratory of Virology, Department of Genetics, Evolution and Bioagents, University of Campinas (UNICAMP), São Paulo, Brazil
| | - Matheus C Martini
- Laboratory of Virology, Department of Genetics, Evolution and Bioagents, University of Campinas (UNICAMP), São Paulo, Brazil
| | - Paulo V M Simas
- Laboratory of Virology, Department of Genetics, Evolution and Bioagents, University of Campinas (UNICAMP), São Paulo, Brazil
| | - Márcia M B Santos
- Department of Biological Sciences, Federal University of Juiz de Fora, Minas Gerais, Brazil
| | - Marco Salemi
- Emerging Pathogens Institute & Department of Pathology, Immunology and Laboratory Medicine, University of Florida, Gainesville, FL, USA
| | - Clarice W Arns
- Laboratory of Virology, Department of Genetics, Evolution and Bioagents, University of Campinas (UNICAMP), São Paulo, Brazil.
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Durães-Carvalho R, Souza AR, Martins LM, Sprogis ACS, Bispo JAC, Bonafe CFS, Yano T. Effect of High Hydrostatic Pressure on Aeromonas hydrophila AH 191 Growth in Milk. J Food Sci 2012; 77:M417-24. [DOI: 10.1111/j.1750-3841.2012.02819.x] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
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