1
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Bardossy ES, Volpe S, Suzuki Y, Merwaiss F, Faraj S, Montes M, Saleh MC, Alvarez DE, Filomatori CV. Molecular basis of RNA recombination in the 3'UTR of chikungunya virus genome. Nucleic Acids Res 2024:gkae650. [PMID: 39051569 DOI: 10.1093/nar/gkae650] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2023] [Accepted: 07/12/2024] [Indexed: 07/27/2024] Open
Abstract
Chikungunya virus (CHIKV) is a rapidly spreading re-emergent virus transmitted from mosquitoes to humans. The emergence of epidemic variants has been associated with changes in the viral genome, such as the duplication of repeated sequences in the 3' untranslated region (UTR). Indeed, blocks of repeated sequences seemingly favor RNA recombination, providing the virus with a unique ability to continuously change the 3'UTR architecture during host switching. In this work, we provide experimental data on the molecular mechanism of RNA recombination and describe specific sequence and structural elements in the viral 3'UTR that favor template switching of the viral RNA-dependent RNA polymerase on the 3'UTR. Furthermore, we found that a 3'UTR deletion mutant that exhibits markedly delayed replication in mosquito cells and impaired transmission in vivo, recombines in reference laboratory strains of mosquitoes. Altogether, our data provide novel experimental evidence indicating that RNA recombination can act as a nucleic acid repair mechanism to add repeated sequences that are associated to high viral fitness in mosquito during chikungunya virus replication.
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Affiliation(s)
- Eugenia S Bardossy
- Escuela de Bio y Nanotecnología, Universidad de San Martín - CONICET, Buenos Aires, Argentina
- Institut Pasteur, Université Paris Cité, CNRS UMR3569, Viruses and RNA Interference Unit, 75015 Paris, France
| | - Sebastiano Volpe
- Escuela de Bio y Nanotecnología, Universidad de San Martín - CONICET, Buenos Aires, Argentina
- Instituto de Química y Fisicoquímica Biológicas "Prof. Alejandro C. Paladini" (IQUIFIB), Universidad de Buenos Aires - CONICET, Buenos Aires, Argentina
| | - Yasutsugu Suzuki
- Institut Pasteur, Université Paris Cité, CNRS UMR3569, Viruses and RNA Interference Unit, 75015 Paris, France
- Center for Marine Environmental Studies (CMES), Ehime University, Matsuyama, Japan
| | - Fernando Merwaiss
- Institut Pasteur, Université Paris Cité, CNRS UMR3569, Viruses and RNA Interference Unit, 75015 Paris, France
- Instituto de Biología Molecular y Celular de Plantas (CSIC-Universitat Politècnica de València), 46022 Valencia, Spain
| | - Santiago Faraj
- Instituto de Química y Fisicoquímica Biológicas "Prof. Alejandro C. Paladini" (IQUIFIB), Universidad de Buenos Aires - CONICET, Buenos Aires, Argentina
| | - Mónica Montes
- Instituto de Química y Fisicoquímica Biológicas "Prof. Alejandro C. Paladini" (IQUIFIB), Universidad de Buenos Aires - CONICET, Buenos Aires, Argentina
| | - Maria-Carla Saleh
- Institut Pasteur, Université Paris Cité, CNRS UMR3569, Viruses and RNA Interference Unit, 75015 Paris, France
| | - Diego E Alvarez
- Escuela de Bio y Nanotecnología, Universidad de San Martín - CONICET, Buenos Aires, Argentina
| | - Claudia V Filomatori
- Escuela de Bio y Nanotecnología, Universidad de San Martín - CONICET, Buenos Aires, Argentina
- Instituto de Química y Fisicoquímica Biológicas "Prof. Alejandro C. Paladini" (IQUIFIB), Universidad de Buenos Aires - CONICET, Buenos Aires, Argentina
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2
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Xie L, Wu Y, Jiang J, Zhou H. An improved alphaviruses-specific RT-qPCR facilitates monitoring and prevention of alphaviruses. J Med Virol 2024; 96:e29788. [PMID: 38982767 DOI: 10.1002/jmv.29788] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2024] [Revised: 06/06/2024] [Accepted: 07/02/2024] [Indexed: 07/11/2024]
Abstract
Molecular surveillance is vital for monitoring arboviruses, often employing genus-specific quantitative reverse-transcription polymerase chain reaction (RT-qPCR). Despite this, an overlooked chikungunya fever outbreak occurred in Yunnan province, China, in 2019 and false negatives are commonly encountered during alphaviruses screening practice, highlighting the need for improved detection methods. In this study, we developed an improved alphaviruses-specific RT-qPCR capable of detecting chikungunya virus, eastern equine encephalitis virus, western equine encephalitis virus, Venezuelan equine encephalitis virus, Sindbis virus, Mayaro virus, and Ross River virus with high sensitivity and specificity. The assay identified three chikungunya virus-positive cases out of 188 sera retrospectively. Later genetic characterization suggested that imported cases from neighboring countries may be responsible for the neglected chikungunya fever outbreak of 2019 in Yunnan. Our findings underscore the value of improved alphaviruses-specific RT-qPCR in bolstering alphaviruses surveillance and informing preventive strategies.
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Affiliation(s)
- Lyu Xie
- Institute of Basic Medical Sciences, Chinese Academy of Medical Sciences, School of Basic Medicine, Peking Union Medical College, Beijing, China
| | - YanQin Wu
- Yunnan International Joint Laboratory of Tropical Infectious Diseases & Key Laboratory of Insect-borne Infectious Diseases Control in Yunnan Province of Yunnan Institute of Parasitic Diseases, Yunnan, China
- Yunnan Institute of Parasitic Diseases, Yunnan, China
| | - JinYong Jiang
- Yunnan International Joint Laboratory of Tropical Infectious Diseases & Key Laboratory of Insect-borne Infectious Diseases Control in Yunnan Province of Yunnan Institute of Parasitic Diseases, Yunnan, China
- Yunnan Institute of Parasitic Diseases, Yunnan, China
| | - HongNing Zhou
- Yunnan International Joint Laboratory of Tropical Infectious Diseases & Key Laboratory of Insect-borne Infectious Diseases Control in Yunnan Province of Yunnan Institute of Parasitic Diseases, Yunnan, China
- Yunnan Institute of Parasitic Diseases, Yunnan, China
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3
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Xavier J, Alcantara LCJ, Fonseca V, Lima M, Castro E, Fritsch H, Oliveira C, Guimarães N, Adelino T, Evaristo M, Rodrigues ES, Santos EV, de La-Roque D, de Moraes L, Tosta S, Neto A, Rosewell A, Mendonça AF, Leite A, Vasconcelos A, Silva de Mello AL, Vasconcelos B, Montalbano CA, Zanluca C, Freitas C, de Albuquerque CFC, Duarte Dos Santos CN, Santos CS, Dos Santos CA, Gonçalves CCM, Teixeira D, Neto DFL, Cabral D, de Oliveira EC, Noia Maciel EL, Pereira FM, Iani F, de Carvalho FP, Andrade G, Bezerra G, de Castro Lichs GG, Pereira GC, Barroso H, Franz HCF, Ferreira H, Gomes I, Riediger IN, Rodrigues I, de Siqueira IC, Silva J, Rico JM, Lima J, Abrantes J, do Nascimento JPM, Wasserheit JN, Pastor J, de Magalhães JJF, Luz KG, Lima Neto LG, Frutuoso LCV, da Silva LB, Sena L, de Sousa LAF, Pereira LA, Demarchi L, Câmara MCB, Astete MG, Almiron M, Lima M, Umaki Zardin MCS, Presibella MM, Falcão MB, Gale M, Freire N, Marques N, de Moura NFO, Almeida Da Silva PE, Rabinowitz P, da Cunha RV, Trinta KS, do Carmo Said RF, Kato R, Stabeli R, de Jesus R, Hans Santos R, Kashima S, Slavov SN, Andrade T, Rocha T, Carneiro T, Nardy V, da Silva V, Carvalho WG, Van Voorhis WC, Araujo WN, de Filippis AMB, Giovanetti M. Increased interregional virus exchange and nucleotide diversity outline the expansion of chikungunya virus in Brazil. Nat Commun 2023; 14:4413. [PMID: 37479700 PMCID: PMC10362057 DOI: 10.1038/s41467-023-40099-y] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2023] [Accepted: 07/12/2023] [Indexed: 07/23/2023] Open
Abstract
The emergence and reemergence of mosquito-borne diseases in Brazil such as yellow fever, zika, chikungunya, and dengue have had serious impacts on public health. Concerns have been raised due to the rapid dissemination of the chikungunya virus across the country since its first detection in 2014 in Northeast Brazil. In this work, we carried out on-site training activities in genomic surveillance in partnership with the National Network of Public Health Laboratories that have led to the generation of 422 chikungunya virus genomes from 12 Brazilian states over the past two years (2021-2022), a period that has seen more than 312 thousand chikungunya fever cases reported in the country. These genomes increased the amount of available data and allowed a more comprehensive characterization of the dispersal dynamics of the chikungunya virus East-Central-South-African lineage in Brazil. Tree branching patterns revealed the emergence and expansion of two distinct subclades. Phylogeographic analysis indicated that the northeast region has been the leading hub of virus spread towards other regions. Increased frequency of C > T transitions among the new genomes suggested that host restriction factors from the immune system such as ADAR and AID/APOBEC deaminases might be driving the genetic diversity of the chikungunya virus in Brazil.
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Affiliation(s)
- Joilson Xavier
- Instituto René Rachou, Fundação Oswaldo Cruz, Belo Horizonte, Brazil
- Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | - Luiz Carlos Junior Alcantara
- Instituto René Rachou, Fundação Oswaldo Cruz, Belo Horizonte, Brazil.
- Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil.
| | - Vagner Fonseca
- Organização Pan-Americana da Saúde, Organização Mundial da Saúde, Brasília, Brazil
| | - Mauricio Lima
- Instituto René Rachou, Fundação Oswaldo Cruz, Belo Horizonte, Brazil
- Laboratório Central de Saúde Pública de Minas Gerais, Fundação Ezequiel Dias, Belo Horizonte, Brazil
| | - Emerson Castro
- Instituto René Rachou, Fundação Oswaldo Cruz, Belo Horizonte, Brazil
- Laboratório Central de Saúde Pública de Minas Gerais, Fundação Ezequiel Dias, Belo Horizonte, Brazil
| | - Hegger Fritsch
- Instituto René Rachou, Fundação Oswaldo Cruz, Belo Horizonte, Brazil
- Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | - Carla Oliveira
- Instituto Oswaldo Cruz, Fundação Oswaldo Cruz, Rio de Janeiro, Brazil
| | - Natalia Guimarães
- Laboratório Central de Saúde Pública de Minas Gerais, Fundação Ezequiel Dias, Belo Horizonte, Brazil
| | - Talita Adelino
- Laboratório Central de Saúde Pública de Minas Gerais, Fundação Ezequiel Dias, Belo Horizonte, Brazil
| | | | | | | | | | - Laise de Moraes
- Instituto Gonçalo Moniz, Fundação Oswaldo Cruz, Salvador, Brazil
| | - Stephane Tosta
- Instituto René Rachou, Fundação Oswaldo Cruz, Belo Horizonte, Brazil
- Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | - Adelino Neto
- Laboratório Central de Saúde Pública do Piaui, Piauí, Brazil
| | - Alexander Rosewell
- Organização Pan-Americana da Saúde, Organização Mundial da Saúde, Brasília, Brazil
| | | | - Anderson Leite
- Laboratório Central de Saúde Pública de Alagoas, Maceió, Brazil
| | | | | | | | | | - Camila Zanluca
- Instituto Carlos Chagas, Fundação Oswaldo Cruz, Curitiba, Brazil
| | - Carla Freitas
- Coordenação Geral dos Laboratórios de Saúde Pública, Ministério da Saúde, Brasília, Brazil
| | | | | | - Cleiton S Santos
- Instituto Gonçalo Moniz, Fundação Oswaldo Cruz, Salvador, Brazil
| | | | | | - Dalane Teixeira
- Laboratório Central de Saúde Pública da Paraíba, João Pessoa, Brazil
| | - Daniel F L Neto
- Coordenação Geral dos Laboratórios de Saúde Pública, Ministério da Saúde, Brasília, Brazil
| | - Diego Cabral
- Laboratório Central de Saúde Pública de Pernambuco, Natal, Brazil
| | | | - Ethel L Noia Maciel
- Secretaria de Vigilância em Saúde e Ambiente, Ministério da Saúde, Brasília, Brazil
| | | | - Felipe Iani
- Laboratório Central de Saúde Pública de Minas Gerais, Fundação Ezequiel Dias, Belo Horizonte, Brazil
| | | | | | - Gabriela Bezerra
- Laboratório Central de Saúde Pública de Sergipe, Aracaju, Brazil
| | | | - Glauco Carvalho Pereira
- Laboratório Central de Saúde Pública de Minas Gerais, Fundação Ezequiel Dias, Belo Horizonte, Brazil
| | - Haline Barroso
- Laboratório Central de Saúde Pública da Paraíba, João Pessoa, Brazil
| | | | - Hivylla Ferreira
- Laboratório Central de Saúde Pública do Maranhão, São Luís, Brazil
| | - Iago Gomes
- Laboratório Central de Saúde Pública do Rio Grande do Norte, Natal, Brazil
| | | | | | | | - Jacilane Silva
- Laboratório Central de Saúde Pública de Pernambuco, Natal, Brazil
| | | | - Jaqueline Lima
- Laboratório Central de Saúde Pública da Bahia, Salvador, Brazil
| | - Jayra Abrantes
- Laboratório Central de Saúde Pública do Rio Grande do Norte, Natal, Brazil
| | | | - Judith N Wasserheit
- Department of Global Health and Medicine, University of Washington, Washington, USA
| | - Julia Pastor
- Laboratório Central de Saúde Pública de Pernambuco, Natal, Brazil
| | - Jurandy J F de Magalhães
- Laboratório Central de Saúde Pública de Pernambuco, Natal, Brazil
- Universidade de Pernambuco, Serra Talhada, Brazil
| | | | | | - Livia C V Frutuoso
- Coordenação Geral das Arboviroses, Ministério da Saúde, Brasília, Brazil
| | | | - Ludmila Sena
- Laboratório Central de Saúde Pública de Sergipe, Aracaju, Brazil
| | | | | | - Luiz Demarchi
- Laboratório Central de Saúde Pública do Mato Grosso do Sul, Campo Grande, Brazil
| | - Magaly C B Câmara
- Laboratório Central de Saúde Pública do Rio Grande do Norte, Natal, Brazil
| | | | | | - Maricelia Lima
- Universidade Estadual de Feira de Santana, Feira de Santana, Brazil
| | | | | | - Melissa B Falcão
- Secretaria de Saúde de Feira de Santana, Feira de Santana, Brazil
| | - Michael Gale
- Department of Immunology, University of Washington, Washington, USA
| | - Naishe Freire
- Laboratório Central de Saúde Pública de Pernambuco, Natal, Brazil
| | - Nelson Marques
- Laboratório Central de Saúde Pública do Paraná, Paraná, Brazil
| | - Noely F O de Moura
- Coordenação Geral das Arboviroses, Ministério da Saúde, Brasília, Brazil
| | | | - Peter Rabinowitz
- Department of Environmental and Occupational Health Sciences, University of Washington, Washington, USA
| | - Rivaldo V da Cunha
- Fundação Oswaldo Cruz, Instituto de Tecnologia em Imunobiológicos, Rio de Janeiro, Brazil
| | - Karen S Trinta
- Fundação Oswaldo Cruz, Instituto de Tecnologia em Imunobiológicos, Rio de Janeiro, Brazil
| | | | - Rodrigo Kato
- Coordenação Geral dos Laboratórios de Saúde Pública, Ministério da Saúde, Brasília, Brazil
| | - Rodrigo Stabeli
- Organização Pan-Americana da Saúde, Organização Mundial da Saúde, Brasília, Brazil
| | - Ronaldo de Jesus
- Coordenação Geral dos Laboratórios de Saúde Pública, Ministério da Saúde, Brasília, Brazil
| | | | - Simone Kashima
- Fundação Hemocentro de Ribeirão Preto, Ribeirão Preto, Brazil
| | - Svetoslav N Slavov
- Fundação Hemocentro de Ribeirão Preto, Ribeirão Preto, Brazil
- Center for Research Development, CDC, Butantan Institute, São Paulo, Brazil
| | - Tamires Andrade
- Laboratório Central de Saúde Pública da Paraíba, João Pessoa, Brazil
| | - Themis Rocha
- Laboratório Central de Saúde Pública do Rio Grande do Norte, Natal, Brazil
| | - Thiago Carneiro
- Laboratório Central de Saúde Pública da Paraíba, João Pessoa, Brazil
| | - Vanessa Nardy
- Laboratório Central de Saúde Pública da Bahia, Salvador, Brazil
| | | | | | | | | | | | - Marta Giovanetti
- Instituto René Rachou, Fundação Oswaldo Cruz, Belo Horizonte, Brazil.
- Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil.
- Sciences and Technologies for Sustainable Development and One Health, University of Campus Bio-Medico, Rome, Italy.
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4
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Lambrechts L. Does arbovirus emergence in humans require adaptation to domestic mosquitoes? Curr Opin Virol 2023; 60:101315. [PMID: 36996522 DOI: 10.1016/j.coviro.2023.101315] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2022] [Revised: 02/01/2023] [Accepted: 02/23/2023] [Indexed: 03/30/2023]
Abstract
In the last few decades, several mosquito-borne arboviruses of zoonotic origin have established large-scale epidemic transmission cycles in the human population. It is often considered that arbovirus emergence is driven by adaptive evolution, such as virus adaptation for transmission by 'domestic' mosquito vector species that live in close association with humans. Here, I argue that although arbovirus adaptation to domestic mosquito vectors has been observed for several emerging arboviruses, it was generally not directly responsible for their initial emergence. Secondary adaptation to domestic mosquitoes often amplified epidemic transmission, however, this was more likely a consequence than a cause of arbovirus emergence. Considering that emerging arboviruses are generally 'preadapted' for transmission by domestic mosquito vectors may help to enhance preparedness toward future arbovirus emergence events.
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5
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Xavier J, Alcantara L, Fonseca V, Lima M, Castro E, Fritsch H, Oliveira C, Guimarães N, Adelino T, Evaristo M, Rodrigues ES, Santos EV, de La-Roque D, de Moraes L, Tosta S, Neto A, Rosewell A, Mendonça AF, Leite A, Vasconcelos A, Silva de Mello AL, Vasconcelos B, Montalbano CA, Zanluca C, Freitas C, de Albuquerque CFC, Duarte dos Santos CN, Santos CS, dos Santos CA, Maymone Gonçalves CC, Teixeira D, Neto DFL, Cabral D, de Oliveira EC, Noia Maciel EL, Pereira FM, Iani F, de Carvalho FP, Andrade G, Bezerra G, de Castro Lichs GG, Pereira GC, Barroso H, Ferreira Franz HC, Ferreira H, Gomes I, Riediger IN, Rodrigues I, de Siqueira IC, Silva J, Rico JM, Lima J, Abrantes J, do Nascimento JPM, Wasserheit JN, Pastor J, de Magalhães JJF, Luz KG, Lima Neto LG, Frutuoso LCV, da Silva LB, Sena L, de Sousa LAF, Pereira LA, Demarchi L, Câmara MCB, Astete MG, Almiron M, Lima M, Umaki Zardin MCS, Presibella MM, Falcão MB, Gale M, Freire N, Marques N, de Moura NFO, Almeida Da Silva PE, Rabinowitz P, da Cunha RV, Trinta KS, do Carmo Said RF, Kato R, Stabeli R, de Jesus R, Santos RH, Haddad SK, Slavov SN, Andrade T, Rocha T, Carneiro T, Nardy V, da Silva V, Carvalho WG, Van Voorhis WC, Araujo WN, de Filippis AM, Giovanetti M. Increased interregional virus exchange and nucleotide diversity outline the expansion of the chikungunya virus ECSA lineage in Brazil. MEDRXIV : THE PREPRINT SERVER FOR HEALTH SCIENCES 2023:2023.03.28.23287733. [PMID: 37034611 PMCID: PMC10081416 DOI: 10.1101/2023.03.28.23287733] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 04/30/2023]
Abstract
The emergence and reemergence of mosquito-borne diseases in Brazil such as Yellow Fever, Zika, Chikungunya, and Dengue have had serious impacts on public health. Concerns have been raised due to the rapid dissemination of the chikungunya virus (CHIKV) across the country since its first detection in 2014 in Northeast Brazil. Faced with this scenario, on-site training activities in genomic surveillance carried out in partnership with the National Network of Public Health Laboratories have led to the generation of 422 CHIKV genomes from 12 Brazilian states over the past two years (2021-2022), a period that has seen more than 312 thousand chikungunya fever cases reported in the country. These new genomes increased the amount of available data and allowed a more comprehensive characterization of the dispersion dynamics of the CHIKV East-Central-South-African (ECSA) lineage in Brazil. Tree branching patterns revealed the emergence and expansion of two distinct subclades. Phylogeographic analysis indicated that the northeast region has been the leading hub of virus spread towards other regions. Increased frequency of C>T transitions among the new genomes suggested that host restriction factors from the immune system such as ADAR and AID/APOBEC deaminases might be driving CHIKV ECSA lineage genetic diversity in Brazil.
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Affiliation(s)
- Joilson Xavier
- Instituto Rene Rachou, Fundação Oswaldo Cruz, Minas Gerais, Brazil
- Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Brazil
| | - Luiz Alcantara
- Instituto Rene Rachou, Fundação Oswaldo Cruz, Minas Gerais, Brazil
- Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Brazil
- Correspondence: , &
| | - Vagner Fonseca
- Organização Pan-Americana da Saúde, Organização Mundial da Saúde, Brazil
| | - Mauricio Lima
- Instituto Rene Rachou, Fundação Oswaldo Cruz, Minas Gerais, Brazil
- Laboratório Central de Saúde Pública de Minas Gerais, Fundação Ezequiel Dias, Brazil
| | - Emerson Castro
- Instituto Rene Rachou, Fundação Oswaldo Cruz, Minas Gerais, Brazil
- Laboratório Central de Saúde Pública de Minas Gerais, Fundação Ezequiel Dias, Brazil
| | - Hegger Fritsch
- Instituto Rene Rachou, Fundação Oswaldo Cruz, Minas Gerais, Brazil
- Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Brazil
| | - Carla Oliveira
- Instituto Oswaldo Cruz, Fundação Oswaldo Cruz, Rio de Janeiro, Brazil
| | - Natalia Guimarães
- Laboratório Central de Saúde Pública de Minas Gerais, Fundação Ezequiel Dias, Brazil
| | - Talita Adelino
- Laboratório Central de Saúde Pública de Minas Gerais, Fundação Ezequiel Dias, Brazil
| | | | | | | | | | - Laise de Moraes
- Instituto Gonçalo Moniz, Fundação Oswaldo Cruz, Bahia, Brazil
| | - Stephane Tosta
- Instituto Rene Rachou, Fundação Oswaldo Cruz, Minas Gerais, Brazil
- Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Brazil
| | - Adelino Neto
- Laboratório Central de Saúde Pública do Piaui, Brazil
| | - Alexander Rosewell
- Organização Pan-Americana da Saúde, Organização Mundial da Saúde, Brazil
| | | | | | | | | | | | | | - Camila Zanluca
- Instituto Carlos Chagas, Fundação Oswaldo Cruz, Paraná, Brazil
| | - Carla Freitas
- Coordenação Geral dos Laboratórios de Saúde Pública, Ministério da Saúde, Brazil
| | | | | | | | | | | | | | - Daniel F. L. Neto
- Coordenação Geral dos Laboratórios de Saúde Pública, Ministério da Saúde, Brazil
| | - Diego Cabral
- Laboratório Central de Saúde Pública de Pernambuco, Brazil
| | | | | | | | - Felipe Iani
- Laboratório Central de Saúde Pública de Minas Gerais, Fundação Ezequiel Dias, Brazil
| | | | | | | | | | | | | | | | | | - Iago Gomes
- Laboratório Central de Saúde Pública do Rio Grande do Norte, Brazil
| | | | | | | | - Jacilane Silva
- Laboratório Central de Saúde Pública de Pernambuco, Brazil
| | | | | | - Jayra Abrantes
- Laboratório Central de Saúde Pública do Rio Grande do Norte, Brazil
| | | | | | - Julia Pastor
- Laboratório Central de Saúde Pública de Pernambuco, Brazil
| | - Jurandy J. F. de Magalhães
- Laboratório Central de Saúde Pública de Pernambuco, Brazil
- Universidade de Pernambuco Campus Serra Talhada
| | | | | | | | | | - Ludmila Sena
- Laboratório Central de Saúde Pública de Sergipe, Brazil
| | | | | | - Luiz Demarchi
- Laboratório Central de Saúde Pública do Mato Grosso do Sul, Brazil
| | | | | | | | | | | | | | - Melissa B. Falcão
- Secretaria de Saúde de Feira de Santana, Feira de Santana, Bahia, Brazil
| | - Michael Gale
- Department of Immunology, University of Washington, USA
| | - Naishe Freire
- Laboratório Central de Saúde Pública de Pernambuco, Brazil
| | | | | | | | - Peter Rabinowitz
- Department of Environmental and Occupational Health Sciences, University of Washington, USA
| | | | - Karen S. Trinta
- Fundação Oswaldo Cruz, Instituto de Tecnologia em Imunobiológicos, Brazil
| | | | - Rodrigo Kato
- Coordenação Geral dos Laboratórios de Saúde Pública, Ministério da Saúde, Brazil
| | - Rodrigo Stabeli
- Organização Pan-Americana da Saúde, Organização Mundial da Saúde, Brazil
| | - Ronaldo de Jesus
- Coordenação Geral dos Laboratórios de Saúde Pública, Ministério da Saúde, Brazil
| | | | | | - Svetoslav N. Slavov
- Fundação Hemocentro de Ribeirão Preto, Brazil
- Center for Research Development, CDC, Butantan Institute, Brazil
| | | | - Themis Rocha
- Laboratório Central de Saúde Pública do Rio Grande do Norte, Brazil
| | | | - Vanessa Nardy
- Laboratório Central de Saúde Pública da Bahia, Brazil
| | | | | | | | | | - Ana M.B. de Filippis
- Instituto Oswaldo Cruz, Fundação Oswaldo Cruz, Rio de Janeiro, Brazil
- Correspondence: , &
| | - Marta Giovanetti
- Instituto Rene Rachou, Fundação Oswaldo Cruz, Minas Gerais, Brazil
- Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Brazil
- Sciences and Technologies for Sustainable Development and One Health, University of Campus Bio-Medico, Italy
- Correspondence: , &
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Lin HC, Chiao DJ, Shu PY, Lin HT, Hsiung CC, Lin CC, Kuo SC. Development of a Novel Chikungunya Virus-Like Replicon Particle for Rapid Quantification and Screening of Neutralizing Antibodies and Antivirals. Microbiol Spectr 2023; 11:e0485422. [PMID: 36856407 PMCID: PMC10101068 DOI: 10.1128/spectrum.04854-22] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2022] [Accepted: 02/09/2023] [Indexed: 03/02/2023] Open
Abstract
Chikungunya fever is a mosquito-transmitted infectious disease that induces rash, myalgia, and persistent incapacitating arthralgia. At present, no vaccines or antiviral therapies specific to Chikungunya virus (CHIKV) infection have been approved, and research is currently restricted to biosafety level 3 containment. CHIKV-like replicon particles (VRPs) are single-cycle infectious particles containing viral structure proteins, as well as a defective genome to provide a safe surrogate for living CHIKV to facilitate the testing of vaccines and antivirals. However, inefficient RNA transfection and the potential emergence of the competent virus through recombination in mammalian cells limit VRP usability. This study describes a transfection-free system for the safe packaging of CHIK VRP with all necessary components via transduction of mosquito cell lines using a single baculovirus vector. We observed the release of substantial quantities of mosquito cell-derived CHIK VRP (mos-CHIK VRP) from baculovirus-transduced mosquito cell lines. The VRPs were shown to recapitulate viral replication and subgenomic dual reporter expression (enhanced green fluorescent protein [eGFP] and luciferase) in infected host cells. Interestingly, the rapid expression kinetics of the VRP-expressing luciferase reporter (6 h) makes it possible to use mos-CHIK VRPs for the rapid quantification of VRP infection. Treatment with antivirals (suramin or 6-azauridine) or neutralizing antibodies (monoclonal antibodies [MAbs] or patient sera) was shown to inhibit mos-CHIK VRP infection in a dose-dependent manner. Ease of manufacture, safety, scalability, and high throughput make mos-CHIK VRPs a highly valuable vehicle for the study of CHIKV biology, the detection of neutralizing (NT) antibody activity, and the screening of antivirals against CHIKV. IMPORTANCE This study proposes a transfection-free system that enables the safe packaging of CHIK VRPs with all necessary components via baculovirus transduction. Those mosquito cell-derived CHIK VRP (mos-CHIK VRPs) were shown to recapitulate viral replication and subgenomic dual reporter (enhanced green fluorescent protein [eGFP] and luciferase) expression in infected host cells. Rapid expression kinetics of the VRP-expressing luciferase reporter (within hours) opens the door to using mos-CHIK VRPs for the rapid quantification of neutralizing antibody and antiviral activity against CHIKV. To the best of our knowledge, this is the first study to report a mosquito cell-derived alphavirus VRP system. Note that this system could also be applied to other arboviruses to model the earliest event in arboviral infection in vertebrates.
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Affiliation(s)
- Hui-Chung Lin
- Graduate Institute of Medical Sciences, National Defense Medical Center, Taipei, Taiwan
- Institute of Preventive Medicine, National Defense Medical Center, Taipei, Taiwan
| | - Der-Jiang Chiao
- Institute of Preventive Medicine, National Defense Medical Center, Taipei, Taiwan
| | - Pei-Yun Shu
- Center for Diagnostics and Vaccine Development, Centers for Disease Control, Ministry of Health and Welfare, Taipei, Taiwan
| | - Hui-Tsu Lin
- Institute of Preventive Medicine, National Defense Medical Center, Taipei, Taiwan
| | - Chia-Chu Hsiung
- Institute of Preventive Medicine, National Defense Medical Center, Taipei, Taiwan
| | - Chang-Chi Lin
- Institute of Preventive Medicine, National Defense Medical Center, Taipei, Taiwan
- Department and Graduate Institute of Microbiology and Immunology, National Defense Medical Center, Taipei, Taiwan
| | - Szu-Cheng Kuo
- Institute of Preventive Medicine, National Defense Medical Center, Taipei, Taiwan
- Department and Graduate Institute of Microbiology and Immunology, National Defense Medical Center, Taipei, Taiwan
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Jebali A, Sanchez MR, Hanschen ER, Starkenburg SR, Corcoran AA. Trait drift in microalgae and applications for strain improvement. Biotechnol Adv 2022; 60:108034. [PMID: 36089253 DOI: 10.1016/j.biotechadv.2022.108034] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2022] [Revised: 08/06/2022] [Accepted: 09/05/2022] [Indexed: 11/29/2022]
Abstract
Microalgae are increasingly used to generate a wide range of commercial products, and there is growing evidence that microalgae-based products can be produced sustainably. However, industrial production of microalgal biomass is not as developed as other biomanufacturing platform technologies. In addition, results of bench-scale research often fail to translate to large-scale or mass production systems. This disconnect may result from trait drift and evolution occurring, through time, in response to unique drivers in each environment, such as cultivation regimes, weather, and pests. Moreover, outdoor and indoor cultivation of microalgae has the potential to impose negative selection pressures, which makes the maintenance of desired traits a challenge. In this context, this review sheds the light on our current understanding of trait drift and evolution in microalgae. We delineate the basics of phenotype plasticity and evolution, with a focus on how microalgae respond under various conditions. In addition, we review techniques that exploit phenotypic plasticity and evolution for strain improvement in view of industrial commercial applications, highlighting associated advantages and shortcomings. Finally, we suggest future research directions and recommendations to overcome unwanted trait drift and evolution in microalgae cultivation.
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Affiliation(s)
- Ahlem Jebali
- New Mexico Consortium, 4200 W. Jemez Road, Los Alamos, NM 87544, USA.
| | - Monica R Sanchez
- Los Alamos National Laboratory, P.O. Box 1663, Los Alamos, NM 87545, USA
| | - Erik R Hanschen
- Los Alamos National Laboratory, P.O. Box 1663, Los Alamos, NM 87545, USA
| | | | - Alina A Corcoran
- New Mexico Consortium, 4200 W. Jemez Road, Los Alamos, NM 87544, USA
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Genomic Epidemiology Reveals the Circulation of the Chikungunya Virus East/Central/South African Lineage in Tocantins State, North Brazil. Viruses 2022; 14:v14102311. [PMID: 36298867 PMCID: PMC9611869 DOI: 10.3390/v14102311] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2022] [Accepted: 10/19/2022] [Indexed: 11/05/2022] Open
Abstract
The chikungunya virus (CHIKV) is a mosquito-borne virus of the family Togaviridae transmitted to humans by Aedes spp. mosquitoes. In Brazil, imported cases have been reported since June 2014 through two independent introductions, one caused by Asian Lineage in Oiapoque, Amapá state, North Region, and another caused by East/Central/South African (ECSA) in Feira de Santana, Bahia state, Northeast Region. Moreover, there is still limited information about the genomic epidemiology of the CHIKV from surveillance studies. The Tocantins state, located in Northern Brazil, reported an increase in the number of CHIKV cases at the end of 2021 and the beginning of 2022. Thus, to better understand the dispersion dynamics of this viral pathogen in the state, we generated 27 near-complete CHIKV genome sequences from four cities, obtained from clinical samples. Our results showed that the newly CHIKV genomes from Tocantins belonged to the ECSA lineage. Phylogenetic reconstruction revealed that Tocantins' strains formed a single well-supported clade, which appear to be closely related to isolates from the Rio Grande do Norte state (Northeast Brazil) and the Rio de Janeiro state (Southeast Brazil), that experienced an explosive ECSA epidemic between 2016-2019. Mutation analyses showed eleven frequent non-synonymous mutations in the structural and non-structural proteins, indicating the autochthonous transmission of the CHIKV in the state. None of the genomes recovered within the Tocantins samples carry the A226V mutation in the E1 protein associated with increased transmission in A. albopictus. The study presented here highlights the importance of continued genomic surveillance to provide information not only on recording mutations along the viral genome but as a molecular surveillance tool to trace virus spread within the country, to predict events of likely occurrence of new infections, and, as such, contribute to an improved public health service.
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Calvez E, Bounmany P, Somlor S, Xaybounsou T, Viengphouthong S, Keosenhom S, Brey PT, Lacoste V, Grandadam M. Multiple chikungunya virus introductions in Lao PDR from 2014 to 2020. PLoS One 2022; 17:e0271439. [PMID: 35839218 PMCID: PMC9286254 DOI: 10.1371/journal.pone.0271439] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2021] [Accepted: 06/30/2022] [Indexed: 12/04/2022] Open
Abstract
The first documented chikungunya virus (CHIKV) outbreak in Lao People’s Democratic Republic (Lao PDR) occurred in 2012–2013. Since then, several imported and a few autochthonous cases were identified by the national arbovirus surveillance network. The present study aimed to summarize the main genetic features of the CHIKV strains detected in Lao PDR between 2014 and 2020. Samples from Lao patients presenting symptoms compatible with a CHIKV infection were centralized in Vientiane Capital city for real-time RT-PCR screening. Molecular epidemiology was performed by sequencing the E2-6K-E1 region. From 2014 to 2020, two Asian lineage isolates (e.g. French Polynesia; Indonesia), one ECSA-IOL lineage isolate (e.g. Thailand) and one unclassified (e.g. Myanmar) were imported in Vientiane Capital city. Sequences from the autochthonous cases recorded in the Central and Southern parts of the country between July and September 2020 belonged to the ECSA-IOL lineage and clustered with CHIKV strains recently detected in neighboring countries. These results demonstrate the multiple CHIKV introductions in Lao PDR since 2014 and provide evidence for sporadic and time-limited circulation of CHIKV in the country. Even if the circulation of CHIKV seems to be geographically and temporally limited in Lao PDR, the development of international tourism and trade may cause future outbreaks of CHIKV in the country and at the regional level.
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Affiliation(s)
- Elodie Calvez
- Arbovirus and Emerging Viral Diseases Laboratory, Institut Pasteur du Laos, Vientiane, Lao People’s Democratic Republic
- * E-mail:
| | - Phaithong Bounmany
- Arbovirus and Emerging Viral Diseases Laboratory, Institut Pasteur du Laos, Vientiane, Lao People’s Democratic Republic
| | - Somphavanh Somlor
- Arbovirus and Emerging Viral Diseases Laboratory, Institut Pasteur du Laos, Vientiane, Lao People’s Democratic Republic
| | - Thonglakhone Xaybounsou
- Arbovirus and Emerging Viral Diseases Laboratory, Institut Pasteur du Laos, Vientiane, Lao People’s Democratic Republic
| | - Souksakhone Viengphouthong
- Arbovirus and Emerging Viral Diseases Laboratory, Institut Pasteur du Laos, Vientiane, Lao People’s Democratic Republic
| | - Sitsana Keosenhom
- Arbovirus and Emerging Viral Diseases Laboratory, Institut Pasteur du Laos, Vientiane, Lao People’s Democratic Republic
| | - Paul T. Brey
- Medical Entomology and Vector-Borne Disease Unit, Institut Pasteur du Laos, Vientiane, Lao People’s Democratic Republic
| | - Vincent Lacoste
- Arbovirus and Emerging Viral Diseases Laboratory, Institut Pasteur du Laos, Vientiane, Lao People’s Democratic Republic
| | - Marc Grandadam
- Arbovirus and Emerging Viral Diseases Laboratory, Institut Pasteur du Laos, Vientiane, Lao People’s Democratic Republic
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de Oliveira Ribeiro G, Gill DE, do Socorro Foro Ramos E, Villanova F, Soares D’Athaide Ribeiro E, Monteiro FJC, Morais VS, Rego MODS, Araújo ELL, Pandey RP, Raj VS, Deng X, Delwart E, da Costa AC, Leal É. Chikungunya Virus Asian Lineage Infection in the Amazon Region Is Maintained by Asiatic and Caribbean-Introduced Variants. Viruses 2022; 14:v14071445. [PMID: 35891427 PMCID: PMC9319912 DOI: 10.3390/v14071445] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2022] [Revised: 06/22/2022] [Accepted: 06/25/2022] [Indexed: 02/04/2023] Open
Abstract
The simultaneous transmission of two lineages of the chikungunya virus (CHIKV) was discovered after the pathogen’s initial arrival in Brazil. In Oiapoque (Amapá state, north Brazil), the Asian lineage (CHIKV-Asian) was discovered, while in Bahia state, the East-Central-South-African lineage (CHIKV-ECSA) was discovered (northeast Brazil). Since then, the CHIKV-Asian lineage has been restricted to the Amazon region (mostly in the state of Amapá), whereas the ECSA lineage has expanded across the country. Despite the fact that the Asian lineage was already present in the Amazon region, the ECSA lineage brought from the northeast caused a large outbreak in the Amazonian state of Roraima (north Brazil) in 2017. Here, CHIKV spread in the Amazon region was studied by a Zika–Dengue–Chikungunya PCR assay in 824 serum samples collected between 2013 and 2016 from individuals with symptoms of viral infection in the Amapá state. We found 11 samples positive for CHIKV-Asian, and, from these samples, we were able to retrieve 10 full-length viral genomes. A comprehensive phylogenetic study revealed that nine CHIKV sequences came from a local transmission cluster related to Caribbean strains, whereas one sequence was related to sequences from the Philippines. These findings imply that CHIKV spread in different ways in Roraima and Amapá, despite the fact that both states had similar climatic circumstances and mosquito vector frequencies.
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Affiliation(s)
- Geovani de Oliveira Ribeiro
- Laboratório de Diversidade Viral, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belem 66075-000, Brazil; (G.d.O.R.); (E.d.S.F.R.); (F.V.)
| | - Danielle Elise Gill
- Instituto de Medicina Tropical da Faculdade de Medicina da Universidade de São Paulo, São Paulo 05403-000, Brazil; (D.E.G.); (V.S.M.); (A.C.d.C.)
| | - Endrya do Socorro Foro Ramos
- Laboratório de Diversidade Viral, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belem 66075-000, Brazil; (G.d.O.R.); (E.d.S.F.R.); (F.V.)
| | - Fabiola Villanova
- Laboratório de Diversidade Viral, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belem 66075-000, Brazil; (G.d.O.R.); (E.d.S.F.R.); (F.V.)
| | - Edcelha Soares D’Athaide Ribeiro
- Public Health Laboratory of Amapa-LACEN/AP, Health Surveillance Superintendence of Amapa, Macapa 68905-230, Brazil; (E.S.D.R.); (F.J.C.M.); (M.O.d.S.R.)
| | - Fred Julio Costa Monteiro
- Public Health Laboratory of Amapa-LACEN/AP, Health Surveillance Superintendence of Amapa, Macapa 68905-230, Brazil; (E.S.D.R.); (F.J.C.M.); (M.O.d.S.R.)
| | - Vanessa S. Morais
- Instituto de Medicina Tropical da Faculdade de Medicina da Universidade de São Paulo, São Paulo 05403-000, Brazil; (D.E.G.); (V.S.M.); (A.C.d.C.)
| | - Marlisson Octavio da S. Rego
- Public Health Laboratory of Amapa-LACEN/AP, Health Surveillance Superintendence of Amapa, Macapa 68905-230, Brazil; (E.S.D.R.); (F.J.C.M.); (M.O.d.S.R.)
| | - Emerson Luiz Lima Araújo
- General Coordination of Public Health, Laboratories of the Strategic Articulation, Department of the Health Surveillance Secretariat of the Ministry of Health (CGLAB/DAEVS/SVS-MS), Brasília 70719-040, Brazil;
| | - Ramendra Pati Pandey
- Centre for Drug Design Discovery and Development (C4D), SRM University, Delhi-NCR, Rajiv Gandhi Education City, Sonepat 131029, Haryana, India; (R.P.P.); (V.S.R.); (E.D.)
| | - V. Samuel Raj
- Centre for Drug Design Discovery and Development (C4D), SRM University, Delhi-NCR, Rajiv Gandhi Education City, Sonepat 131029, Haryana, India; (R.P.P.); (V.S.R.); (E.D.)
| | - Xutao Deng
- Vitalant Research Institute, 270 Masonic Avenue, San Francisco, CA 94118, USA;
- Department Laboratory Medicine, University of California San Francisco, San Francisco, CA 94118, USA
| | - Eric Delwart
- Centre for Drug Design Discovery and Development (C4D), SRM University, Delhi-NCR, Rajiv Gandhi Education City, Sonepat 131029, Haryana, India; (R.P.P.); (V.S.R.); (E.D.)
- Vitalant Research Institute, 270 Masonic Avenue, San Francisco, CA 94118, USA;
| | - Antonio Charlys da Costa
- Instituto de Medicina Tropical da Faculdade de Medicina da Universidade de São Paulo, São Paulo 05403-000, Brazil; (D.E.G.); (V.S.M.); (A.C.d.C.)
| | - Élcio Leal
- Laboratório de Diversidade Viral, Instituto de Ciências Biológicas, Universidade Federal do Pará, Belem 66075-000, Brazil; (G.d.O.R.); (E.d.S.F.R.); (F.V.)
- Correspondence:
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