SARS-CoV-2 genomes recovered by long amplicon tiling multiplex approach using nanopore sequencing and applicable to other sequencing platforms

Detalhes bibliográficos
Autor(a) principal: Resende, Paola Cristina
Data de Publicação: 2020
Outros Autores: Motta, Fernando Couto, Roy, Sunando, Appolinario, Luciana Reis, Fabri, Allison, Xavier, Joilson, Harris, Kathryn, Matos, Aline Rocha, Caetano, Braulia, Orgeswalska, Maria, Miranda, Milene, Garcia, Cristiana, Abreu, Andre Luiz de, Williams, Rachel, Breuer, Judith, Siqueira, Marilda Agudo Mendonça Teixeira de
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Institucional da FIOCRUZ (ARCA)
Texto Completo: https://www.arca.fiocruz.br/handle/icict/41481
Resumo: Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Vírus Respiratório e do Sarampo. Rio de Janeiro, RJ, Brasil / University College of London. United Kingdom / Great Ormond Street Hospital. United Kingdom.
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spelling Resende, Paola CristinaMotta, Fernando CoutoRoy, SunandoAppolinario, Luciana ReisFabri, AllisonXavier, JoilsonHarris, KathrynMatos, Aline RochaCaetano, BrauliaOrgeswalska, MariaMiranda, MileneGarcia, CristianaAbreu, Andre Luiz deWilliams, RachelBreuer, JudithSiqueira, Marilda Agudo Mendonça Teixeira de2020-06-02T13:42:59Z2020-06-02T13:42:59Z2020RESENDE, Paola Cristina et al. SARS-CoV-2 genomes recovered by long amplicon tiling multiplex approach using nanopore sequencing and applicable to other sequencing platforms. bioRxiv, p. 1-11p, May 2020.https://www.arca.fiocruz.br/handle/icict/4148110.1101/2020.04.30.069039engBioRixCoronavirusSARS-CoV-2NanoporoGenoma inteiroCOVID-19CoronavirusNanoporeGridIONMinIONIlluminaHighpthroughput sequencingLong readsWhole genomeSARS-CoV-2COVID-19SARS-CoV-2 genomes recovered by long amplicon tiling multiplex approach using nanopore sequencing and applicable to other sequencing platformsinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleFundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Vírus Respiratório e do Sarampo. Rio de Janeiro, RJ, Brasil / University College of London. United Kingdom / Great Ormond Street Hospital. United Kingdom.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Vírus Respiratório e do Sarampo. Rio de Janeiro, RJ, Brasil.University College London. United Kingdom.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Vírus Respiratório e do Sarampo. Rio de Janeiro, RJ, Brasil / Instituto Nacional de Ciência e Tecnologia para Entomologia Molecular. Rio de Janeiro, RJ Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Flavivírus. Rio de Janeiro, RJ, Brasil.Universidade Federal de Minas Gerais. ICB. Laboratório de Genética Celular e Molecular. Belo Horizonte, MG, Brasil.Great Ormond Street Hospital. United Kingdom.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Vírus Respiratório e do Sarampo. Rio de Janeiro, RJ, Brasil. Rio de Janeiro, RJ, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Vírus Respiratório e do Sarampo. Rio de Janeiro, RJ, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Vírus Respiratório e do Sarampo. Rio de Janeiro, RJ, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Vírus Respiratório e do Sarampo. Rio de Janeiro, RJ, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Vírus Respiratório e do Sarampo. Rio de Janeiro, RJ, Brasil.Ministério da Saúde. Coordenação Nacional de Laboratórios. Brasília, DF, Brasil.University College London. United Kingdom / University College London. Pathogen Genomics Unit. United Kingdom.University College London. United Kingdom / Great Ormond Street Hospital. United Kingdom / Pathogen Genomics Unit. United Kingdom.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Vírus Respiratório e do Sarampo. Rio de Janeiro, RJ, Brasil.Genomic surveillance has become a useful tool for better understanding virus pathogenicity, origin and spread. Obtaining accurately assembled, complete viral genomes directly from clinical samples is still a challenging. Here, we describe three protocols using a unique primer set designed to recover long reads of SARS-CoV-2 directly from total RNA extracted from clinical samples. This protocol is useful, accessible and adaptable to laboratories with varying resources and access to distinct sequencing methods: Nanopore, Illumina and/or Sanger.info:eu-repo/semantics/openAccessreponame:Repositório Institucional da FIOCRUZ (ARCA)instname:Fundação Oswaldo Cruz (FIOCRUZ)instacron:FIOCRUZLICENSElicense.txtlicense.txttext/plain; charset=utf-82991https://www.arca.fiocruz.br/bitstream/icict/41481/1/license.txt5a560609d32a3863062d77ff32785d58MD51ORIGINALMarildaSiqueira_AlineMatos_etal_IOC_2020.pdfMarildaSiqueira_AlineMatos_etal_IOC_2020.pdfapplication/pdf862289https://www.arca.fiocruz.br/bitstream/icict/41481/2/MarildaSiqueira_AlineMatos_etal_IOC_2020.pdfbf8b556b0b59f9b48c3740c1e6ceb693MD52TEXTMarildaSiqueira_AlineMatos_etal_IOC_2020.pdf.txtMarildaSiqueira_AlineMatos_etal_IOC_2020.pdf.txtExtracted texttext/plain20405https://www.arca.fiocruz.br/bitstream/icict/41481/3/MarildaSiqueira_AlineMatos_etal_IOC_2020.pdf.txt5ff41ed44c845c4db668c58bc9d30cddMD53icict/414812022-03-23 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dc.title.pt_BR.fl_str_mv SARS-CoV-2 genomes recovered by long amplicon tiling multiplex approach using nanopore sequencing and applicable to other sequencing platforms
title SARS-CoV-2 genomes recovered by long amplicon tiling multiplex approach using nanopore sequencing and applicable to other sequencing platforms
spellingShingle SARS-CoV-2 genomes recovered by long amplicon tiling multiplex approach using nanopore sequencing and applicable to other sequencing platforms
Resende, Paola Cristina
Coronavirus
SARS-CoV-2
Nanoporo
Genoma inteiro
COVID-19
Coronavirus
Nanopore
GridION
MinION
Illumina
Highpthroughput sequencing
Long reads
Whole genome
SARS-CoV-2
COVID-19
title_short SARS-CoV-2 genomes recovered by long amplicon tiling multiplex approach using nanopore sequencing and applicable to other sequencing platforms
title_full SARS-CoV-2 genomes recovered by long amplicon tiling multiplex approach using nanopore sequencing and applicable to other sequencing platforms
title_fullStr SARS-CoV-2 genomes recovered by long amplicon tiling multiplex approach using nanopore sequencing and applicable to other sequencing platforms
title_full_unstemmed SARS-CoV-2 genomes recovered by long amplicon tiling multiplex approach using nanopore sequencing and applicable to other sequencing platforms
title_sort SARS-CoV-2 genomes recovered by long amplicon tiling multiplex approach using nanopore sequencing and applicable to other sequencing platforms
author Resende, Paola Cristina
author_facet Resende, Paola Cristina
Motta, Fernando Couto
Roy, Sunando
Appolinario, Luciana Reis
Fabri, Allison
Xavier, Joilson
Harris, Kathryn
Matos, Aline Rocha
Caetano, Braulia
Orgeswalska, Maria
Miranda, Milene
Garcia, Cristiana
Abreu, Andre Luiz de
Williams, Rachel
Breuer, Judith
Siqueira, Marilda Agudo Mendonça Teixeira de
author_role author
author2 Motta, Fernando Couto
Roy, Sunando
Appolinario, Luciana Reis
Fabri, Allison
Xavier, Joilson
Harris, Kathryn
Matos, Aline Rocha
Caetano, Braulia
Orgeswalska, Maria
Miranda, Milene
Garcia, Cristiana
Abreu, Andre Luiz de
Williams, Rachel
Breuer, Judith
Siqueira, Marilda Agudo Mendonça Teixeira de
author2_role author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
dc.contributor.author.fl_str_mv Resende, Paola Cristina
Motta, Fernando Couto
Roy, Sunando
Appolinario, Luciana Reis
Fabri, Allison
Xavier, Joilson
Harris, Kathryn
Matos, Aline Rocha
Caetano, Braulia
Orgeswalska, Maria
Miranda, Milene
Garcia, Cristiana
Abreu, Andre Luiz de
Williams, Rachel
Breuer, Judith
Siqueira, Marilda Agudo Mendonça Teixeira de
dc.subject.other.pt_BR.fl_str_mv Coronavirus
SARS-CoV-2
Nanoporo
Genoma inteiro
COVID-19
topic Coronavirus
SARS-CoV-2
Nanoporo
Genoma inteiro
COVID-19
Coronavirus
Nanopore
GridION
MinION
Illumina
Highpthroughput sequencing
Long reads
Whole genome
SARS-CoV-2
COVID-19
dc.subject.en.pt_BR.fl_str_mv Coronavirus
Nanopore
GridION
MinION
Illumina
Highpthroughput sequencing
Long reads
Whole genome
SARS-CoV-2
COVID-19
description Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Vírus Respiratório e do Sarampo. Rio de Janeiro, RJ, Brasil / University College of London. United Kingdom / Great Ormond Street Hospital. United Kingdom.
publishDate 2020
dc.date.accessioned.fl_str_mv 2020-06-02T13:42:59Z
dc.date.available.fl_str_mv 2020-06-02T13:42:59Z
dc.date.issued.fl_str_mv 2020
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.citation.fl_str_mv RESENDE, Paola Cristina et al. SARS-CoV-2 genomes recovered by long amplicon tiling multiplex approach using nanopore sequencing and applicable to other sequencing platforms. bioRxiv, p. 1-11p, May 2020.
dc.identifier.uri.fl_str_mv https://www.arca.fiocruz.br/handle/icict/41481
dc.identifier.doi.none.fl_str_mv 10.1101/2020.04.30.069039
identifier_str_mv RESENDE, Paola Cristina et al. SARS-CoV-2 genomes recovered by long amplicon tiling multiplex approach using nanopore sequencing and applicable to other sequencing platforms. bioRxiv, p. 1-11p, May 2020.
10.1101/2020.04.30.069039
url https://www.arca.fiocruz.br/handle/icict/41481
dc.language.iso.fl_str_mv eng
language eng
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.publisher.none.fl_str_mv BioRix
publisher.none.fl_str_mv BioRix
dc.source.none.fl_str_mv reponame:Repositório Institucional da FIOCRUZ (ARCA)
instname:Fundação Oswaldo Cruz (FIOCRUZ)
instacron:FIOCRUZ
instname_str Fundação Oswaldo Cruz (FIOCRUZ)
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