A Multiplex Nanopore Sequencing Approach for the Detection of Multiple Arboviral Species
The emergence and continued geographic expansion of arboviruses and the growing number of infected people have highlighted the need to develop and improve multiplex methods for rapid and specific detection of pathogens. Sequencing technologies are promising tools that can help in the laboratory diag...
| Main Authors: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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MDPI AG
2023-12-01
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| Series: | Viruses |
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| Online Access: | https://www.mdpi.com/1999-4915/16/1/23 |
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| author | Joilson Xavier Vagner Fonseca Talita Adelino Felipe C. M. Iani Glauco C. Pereira Myrian M. Duarte Mauricio Lima Emerson Castro Carla Oliveira Hegger Fritsch Natalia Guimarães Ludmila O. Lamounier Fernanda Khouri Barreto Camilo M. M. Braga de Oliveira Crhistinne C. Maymone Gonçalves Danielle Malta Lima Elaine C. de Oliveira Gislene G. de Castro Lichs Iago Gomes Janaina Mazaro Janete T. N. Rodrigues Jayra Abrantes Jeová K. B. Colares Kleber G. Luz Luana Barbosa da Silva Luiz Demarchi Magaly C. B. Câmara Marina C. S. Umaki Zardin Rafaela Sabatini Mello Pinheiro Rutilene Barbosa Souza Simone K. Haddad Stephanni Figueiredo da Silva Svetoslav N. Slavov Themis Rocha Noelia Morel Hector Chiparelli Analía Burgueño Victoria Bórmida María N. Cortinas Rosario S. Martín Allan C. Pereira Marcelo F. dos Santos Walter André Júnior Jairo Mendez Rico Leticia Franco Alexander Rosewell Rodrigo F. do Carmo Said Carlos F. C. de Albuquerque Ethel L. Noia Maciel Marília Santini de Oliveira Rivaldo Venâncio da Cunha Livia C. Vinhal Frutuoso Ana M. B. de Filippis Marta Giovanetti Luiz Carlos Junior Alcantara |
| author_facet | Joilson Xavier Vagner Fonseca Talita Adelino Felipe C. M. Iani Glauco C. Pereira Myrian M. Duarte Mauricio Lima Emerson Castro Carla Oliveira Hegger Fritsch Natalia Guimarães Ludmila O. Lamounier Fernanda Khouri Barreto Camilo M. M. Braga de Oliveira Crhistinne C. Maymone Gonçalves Danielle Malta Lima Elaine C. de Oliveira Gislene G. de Castro Lichs Iago Gomes Janaina Mazaro Janete T. N. Rodrigues Jayra Abrantes Jeová K. B. Colares Kleber G. Luz Luana Barbosa da Silva Luiz Demarchi Magaly C. B. Câmara Marina C. S. Umaki Zardin Rafaela Sabatini Mello Pinheiro Rutilene Barbosa Souza Simone K. Haddad Stephanni Figueiredo da Silva Svetoslav N. Slavov Themis Rocha Noelia Morel Hector Chiparelli Analía Burgueño Victoria Bórmida María N. Cortinas Rosario S. Martín Allan C. Pereira Marcelo F. dos Santos Walter André Júnior Jairo Mendez Rico Leticia Franco Alexander Rosewell Rodrigo F. do Carmo Said Carlos F. C. de Albuquerque Ethel L. Noia Maciel Marília Santini de Oliveira Rivaldo Venâncio da Cunha Livia C. Vinhal Frutuoso Ana M. B. de Filippis Marta Giovanetti Luiz Carlos Junior Alcantara |
| author_sort | Joilson Xavier |
| collection | DOAJ |
| description | The emergence and continued geographic expansion of arboviruses and the growing number of infected people have highlighted the need to develop and improve multiplex methods for rapid and specific detection of pathogens. Sequencing technologies are promising tools that can help in the laboratory diagnosis of conditions that share common symptoms, such as pathologies caused by emerging arboviruses. In this study, we integrated nanopore sequencing and the advantages of reverse transcription polymerase chain reaction (RT-PCR) to develop a multiplex RT-PCR protocol for the detection of Chikungunya virus (CHIKV) and several orthoflaviviruses (such as dengue (<i>Orthoflavivirus dengue</i>), Zika (<i>Orthoflavivirus zikaense</i>), yellow fever (<i>Orthoflavivirus flavi</i>), and West Nile (<i>Orthoflavivirus nilense</i>) viruses) in a single reaction, which provides data for sequence-based differentiation of arbovirus lineages. |
| first_indexed | 2024-03-08T10:33:14Z |
| format | Article |
| id | doaj.art-34f7f735dc114ed5992ec69c2c0fc9d0 |
| institution | Directory Open Access Journal |
| issn | 1999-4915 |
| language | English |
| last_indexed | 2024-03-08T10:33:14Z |
| publishDate | 2023-12-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Viruses |
| spelling | doaj.art-34f7f735dc114ed5992ec69c2c0fc9d02024-01-26T18:46:58ZengMDPI AGViruses1999-49152023-12-011612310.3390/v16010023A Multiplex Nanopore Sequencing Approach for the Detection of Multiple Arboviral SpeciesJoilson Xavier0Vagner Fonseca1Talita Adelino2Felipe C. M. Iani3Glauco C. Pereira4Myrian M. Duarte5Mauricio Lima6Emerson Castro7Carla Oliveira8Hegger Fritsch9Natalia Guimarães10Ludmila O. Lamounier11Fernanda Khouri Barreto12Camilo M. M. Braga de Oliveira13Crhistinne C. Maymone Gonçalves14Danielle Malta Lima15Elaine C. de Oliveira16Gislene G. de Castro Lichs17Iago Gomes18Janaina Mazaro19Janete T. N. Rodrigues20Jayra Abrantes21Jeová K. B. Colares22Kleber G. Luz23Luana Barbosa da Silva24Luiz Demarchi25Magaly C. B. Câmara26Marina C. S. Umaki Zardin27Rafaela Sabatini Mello Pinheiro28Rutilene Barbosa Souza29Simone K. Haddad30Stephanni Figueiredo da Silva31Svetoslav N. Slavov32Themis Rocha33Noelia Morel34Hector Chiparelli35Analía Burgueño36Victoria Bórmida37María N. Cortinas38Rosario S. Martín39Allan C. Pereira40Marcelo F. dos Santos41Walter André Júnior42Jairo Mendez Rico43Leticia Franco44Alexander Rosewell45Rodrigo F. do Carmo Said46Carlos F. C. de Albuquerque47Ethel L. Noia Maciel48Marília Santini de Oliveira49Rivaldo Venâncio da Cunha50Livia C. Vinhal Frutuoso51Ana M. B. de Filippis52Marta Giovanetti53Luiz Carlos Junior Alcantara54Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte 31270-901, BrazilOrganização Pan-Americana da Saúde, Organização Mundial da Saúde, Brasília 70800-400, BrazilLaboratorio Central de Saúde Pública do Estado de Minas Gerais, Fundação Ezequiel Dias, Belo Horizonte 30510-010, BrazilLaboratorio Central de Saúde Pública do Estado de Minas Gerais, Fundação Ezequiel Dias, Belo Horizonte 30510-010, BrazilLaboratorio Central de Saúde Pública do Estado de Minas Gerais, Fundação Ezequiel Dias, Belo Horizonte 30510-010, BrazilLaboratorio Central de Saúde Pública do Estado de Minas Gerais, Fundação Ezequiel Dias, Belo Horizonte 30510-010, BrazilInstituto Rene Rachou, Fundação Oswaldo Cruz, Belo Horizonte 30190-002, BrazilInstituto Rene Rachou, Fundação Oswaldo Cruz, Belo Horizonte 30190-002, Brazillnstituto Oswaldo Cruz, Fundação Oswaldo Cruz, Rio de Janeiro 21040-900, BrazilInstituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte 31270-901, BrazilLaboratorio Central de Saúde Pública do Estado de Minas Gerais, Fundação Ezequiel Dias, Belo Horizonte 30510-010, BrazilLaboratorio Central de Saúde Pública do Estado de Minas Gerais, Fundação Ezequiel Dias, Belo Horizonte 30510-010, BrazilInstituto Multidisciplinar em Saúde, Universidade Federal da Bahia, Vitória da Conquista 45029-094, BrazilLaboratório Central de Saúde Pública do Acre, Rio Branco 69900-604, BrazilSecretaria de Saúde do estado do Mato Grosso do Sul, Campo Grande 79031-350, BrazilFaculty of the Graduate Program in Biotechnology (Renorbio), Universidade de Fortaleza, Fortaleza 60811-905, BrazilLaboratorio Central de Saúde Pública do Mato Grosso, Cuiabá 78060-628, BrazilLaboratorio Central de Saúde Pública do Mato Grosso do Sul, Campo Grande 79074-460, BrazilLaboratório Central de Saúde Pública do Rio Grande do Norte, Natal 59037-170, BrazilSecretaria Estadual de Saúde do estado do Acre, Rio Branco 69900-064, BrazilLaboratório Central de Saúde Pública do Acre, Rio Branco 69900-604, BrazilLaboratório Central de Saúde Pública do Rio Grande do Norte, Natal 59037-170, BrazilFaculty of the Graduate Program in Biotechnology (Renorbio), Universidade de Fortaleza, Fortaleza 60811-905, BrazilDepartment of Infectious Diseases, Universidade Federal do Rio Grande do Norte, Natal 59078-900, BrazilLaboratorio Central de Saúde Pública do Mato Grosso, Cuiabá 78060-628, BrazilLaboratorio Central de Saúde Pública do Mato Grosso do Sul, Campo Grande 79074-460, BrazilLaboratório Central de Saúde Pública do Rio Grande do Norte, Natal 59037-170, BrazilLaboratorio Central de Saúde Pública do Mato Grosso do Sul, Campo Grande 79074-460, BrazilLaboratório de Citogenética, Universidade Federal do Acre, Rio Branco 69920-900, BrazilLaboratório Central de Saúde Pública do Acre, Rio Branco 69900-604, BrazilFundação Hemocentro de Ribeirão Preto, Ribeirão Preto 14051-140, BrazilLaboratorio Central de Saúde Pública do Mato Grosso, Cuiabá 78060-628, BrazilFundação Hemocentro de Ribeirão Preto, Ribeirão Preto 14051-140, BrazilLaboratório Central de Saúde Pública do Rio Grande do Norte, Natal 59037-170, BrazilDepartamento de Laboratorios de Salud Pública, Ministerio de Salud Pública, Montevideo 11200, UruguayDepartamento de Laboratorios de Salud Pública, Ministerio de Salud Pública, Montevideo 11200, UruguayDepartamento de Laboratorios de Salud Pública, Ministerio de Salud Pública, Montevideo 11200, UruguayDepartamento de Laboratorios de Salud Pública, Ministerio de Salud Pública, Montevideo 11200, UruguayDepartamento de Laboratorios de Salud Pública, Ministerio de Salud Pública, Montevideo 11200, UruguayDepartamento de Laboratorios de Salud Pública, Ministerio de Salud Pública, Montevideo 11200, UruguayLaboratório de Fronteira Tabatinga, Tabatinga 69640-000, BrazilLaboratório de Fronteira Tabatinga, Tabatinga 69640-000, BrazilLaboratório de Fronteira Tabatinga, Tabatinga 69640-000, BrazilPan American Health Organization, Washington, DC 20037, USAPan American Health Organization, Washington, DC 20037, USAOrganização Pan-Americana da Saúde, Organização Mundial da Saúde, Brasília 70800-400, BrazilOrganização Pan-Americana da Saúde, Organização Mundial da Saúde, Brasília 70800-400, BrazilOrganização Pan-Americana da Saúde, Organização Mundial da Saúde, Brasília 70800-400, BrazilSecretaria de Vigilância em Saúde e Ambiente, Ministério da Saúde, Brasília 70058-900, BrazilCoordenação Geral dos Laboratórios de Saúde Pública, Ministério da Saúde, Brasília 70058-900, BrazilFundação Oswaldo Cruz, Instituto de Tecnologia em Imunobiológicos, Rio de Janeiro 21040-090, BrazilCoordenação Geral das Arboviroses, Ministério da Saúde, Brasília 70058-900, Brazillnstituto Oswaldo Cruz, Fundação Oswaldo Cruz, Rio de Janeiro 21040-900, BrazilInstituto Rene Rachou, Fundação Oswaldo Cruz, Belo Horizonte 30190-002, BrazilInstituto Rene Rachou, Fundação Oswaldo Cruz, Belo Horizonte 30190-002, BrazilThe emergence and continued geographic expansion of arboviruses and the growing number of infected people have highlighted the need to develop and improve multiplex methods for rapid and specific detection of pathogens. Sequencing technologies are promising tools that can help in the laboratory diagnosis of conditions that share common symptoms, such as pathologies caused by emerging arboviruses. In this study, we integrated nanopore sequencing and the advantages of reverse transcription polymerase chain reaction (RT-PCR) to develop a multiplex RT-PCR protocol for the detection of Chikungunya virus (CHIKV) and several orthoflaviviruses (such as dengue (<i>Orthoflavivirus dengue</i>), Zika (<i>Orthoflavivirus zikaense</i>), yellow fever (<i>Orthoflavivirus flavi</i>), and West Nile (<i>Orthoflavivirus nilense</i>) viruses) in a single reaction, which provides data for sequence-based differentiation of arbovirus lineages.https://www.mdpi.com/1999-4915/16/1/23nanopore sequencingarbovirusChikungunya virusorthoflavivirusesgenotyping |
| spellingShingle | Joilson Xavier Vagner Fonseca Talita Adelino Felipe C. M. Iani Glauco C. Pereira Myrian M. Duarte Mauricio Lima Emerson Castro Carla Oliveira Hegger Fritsch Natalia Guimarães Ludmila O. Lamounier Fernanda Khouri Barreto Camilo M. M. Braga de Oliveira Crhistinne C. Maymone Gonçalves Danielle Malta Lima Elaine C. de Oliveira Gislene G. de Castro Lichs Iago Gomes Janaina Mazaro Janete T. N. Rodrigues Jayra Abrantes Jeová K. B. Colares Kleber G. Luz Luana Barbosa da Silva Luiz Demarchi Magaly C. B. Câmara Marina C. S. Umaki Zardin Rafaela Sabatini Mello Pinheiro Rutilene Barbosa Souza Simone K. Haddad Stephanni Figueiredo da Silva Svetoslav N. Slavov Themis Rocha Noelia Morel Hector Chiparelli Analía Burgueño Victoria Bórmida María N. Cortinas Rosario S. Martín Allan C. Pereira Marcelo F. dos Santos Walter André Júnior Jairo Mendez Rico Leticia Franco Alexander Rosewell Rodrigo F. do Carmo Said Carlos F. C. de Albuquerque Ethel L. Noia Maciel Marília Santini de Oliveira Rivaldo Venâncio da Cunha Livia C. Vinhal Frutuoso Ana M. B. de Filippis Marta Giovanetti Luiz Carlos Junior Alcantara A Multiplex Nanopore Sequencing Approach for the Detection of Multiple Arboviral Species Viruses nanopore sequencing arbovirus Chikungunya virus orthoflaviviruses genotyping |
| title | A Multiplex Nanopore Sequencing Approach for the Detection of Multiple Arboviral Species |
| title_full | A Multiplex Nanopore Sequencing Approach for the Detection of Multiple Arboviral Species |
| title_fullStr | A Multiplex Nanopore Sequencing Approach for the Detection of Multiple Arboviral Species |
| title_full_unstemmed | A Multiplex Nanopore Sequencing Approach for the Detection of Multiple Arboviral Species |
| title_short | A Multiplex Nanopore Sequencing Approach for the Detection of Multiple Arboviral Species |
| title_sort | multiplex nanopore sequencing approach for the detection of multiple arboviral species |
| topic | nanopore sequencing arbovirus Chikungunya virus orthoflaviviruses genotyping |
| url | https://www.mdpi.com/1999-4915/16/1/23 |
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