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Sequencing and analysis of globally obtained human parainfluenza viruses 1 and 3 genomes

Human Parainfluenza viruses (HPIV) type 1 and 3 are important causes of respiratory tract infections in young children globally. HPIV infections do not confer complete protective immunity so reinfections occur throughout life. Since no effective vaccine is available for the two virus subtypes, compr...

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Autores principales: Bose, Michael E., Shrivastava, Susmita, He, Jie, Nelson, Martha I., Bera, Jayati, Fedorova, Nadia, Halpin, Rebecca, Town, Christopher D., Lorenzi, Hernan A., Amedeo, Paolo, Gupta, Neha, Noyola, Daniel E., Videla, Cristina, Kok, Tuckweng, Buys, Amelia, Venter, Marietjie, Vabret, Astrid, Cordey, Samuel, Henrickson, Kelly J.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6638977/
https://www.ncbi.nlm.nih.gov/pubmed/31318956
http://dx.doi.org/10.1371/journal.pone.0220057
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author Bose, Michael E.
Shrivastava, Susmita
He, Jie
Nelson, Martha I.
Bera, Jayati
Fedorova, Nadia
Halpin, Rebecca
Town, Christopher D.
Lorenzi, Hernan A.
Amedeo, Paolo
Gupta, Neha
Noyola, Daniel E.
Videla, Cristina
Kok, Tuckweng
Buys, Amelia
Venter, Marietjie
Vabret, Astrid
Cordey, Samuel
Henrickson, Kelly J.
author_facet Bose, Michael E.
Shrivastava, Susmita
He, Jie
Nelson, Martha I.
Bera, Jayati
Fedorova, Nadia
Halpin, Rebecca
Town, Christopher D.
Lorenzi, Hernan A.
Amedeo, Paolo
Gupta, Neha
Noyola, Daniel E.
Videla, Cristina
Kok, Tuckweng
Buys, Amelia
Venter, Marietjie
Vabret, Astrid
Cordey, Samuel
Henrickson, Kelly J.
author_sort Bose, Michael E.
collection PubMed
description Human Parainfluenza viruses (HPIV) type 1 and 3 are important causes of respiratory tract infections in young children globally. HPIV infections do not confer complete protective immunity so reinfections occur throughout life. Since no effective vaccine is available for the two virus subtypes, comprehensive understanding of HPIV-1 and HPIV-3 genetic and epidemic features is important for diagnosis, prevention, and treatment of HPIV-1 and HPIV-3 infections. Relatively few whole genome sequences are available for both HPIV-1 and HPIV-3 viruses, so our study sought to provide whole genome sequences from multiple countries to further the understanding of the global diversity of HPIV at a whole-genome level. We collected HPIV-1 and HPIV-3 samples and isolates from Argentina, Australia, France, Mexico, South Africa, Switzerland, and USA from the years 2003–2011 and sequenced the genomes of 40 HPIV-1 and 75 HPIV-3 viruses with Sanger and next-generation sequencing with the Ion Torrent, Illumina, and 454 platforms. Phylogenetic analysis showed that the HPIV-1 genome is evolving at an estimated rate of 4.97 × 10(−4) mutations/site/year (95% highest posterior density 4.55 × 10(−4) to 5.38 × 10(−4)) and the HPIV-3 genome is evolving at a similar rate (3.59 × 10(−4) mutations/site/year, 95% highest posterior density 3.26 × 10(−4) to 3.94 × 10(−4)). There were multiple genetically distinct lineages of both HPIV-1 and 3 circulating on a global scale. Further surveillance and whole-genome sequencing are greatly needed to better understand the spatial dynamics of these important respiratory viruses in humans.
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spelling pubmed-66389772019-07-25 Sequencing and analysis of globally obtained human parainfluenza viruses 1 and 3 genomes Bose, Michael E. Shrivastava, Susmita He, Jie Nelson, Martha I. Bera, Jayati Fedorova, Nadia Halpin, Rebecca Town, Christopher D. Lorenzi, Hernan A. Amedeo, Paolo Gupta, Neha Noyola, Daniel E. Videla, Cristina Kok, Tuckweng Buys, Amelia Venter, Marietjie Vabret, Astrid Cordey, Samuel Henrickson, Kelly J. PLoS One Research Article Human Parainfluenza viruses (HPIV) type 1 and 3 are important causes of respiratory tract infections in young children globally. HPIV infections do not confer complete protective immunity so reinfections occur throughout life. Since no effective vaccine is available for the two virus subtypes, comprehensive understanding of HPIV-1 and HPIV-3 genetic and epidemic features is important for diagnosis, prevention, and treatment of HPIV-1 and HPIV-3 infections. Relatively few whole genome sequences are available for both HPIV-1 and HPIV-3 viruses, so our study sought to provide whole genome sequences from multiple countries to further the understanding of the global diversity of HPIV at a whole-genome level. We collected HPIV-1 and HPIV-3 samples and isolates from Argentina, Australia, France, Mexico, South Africa, Switzerland, and USA from the years 2003–2011 and sequenced the genomes of 40 HPIV-1 and 75 HPIV-3 viruses with Sanger and next-generation sequencing with the Ion Torrent, Illumina, and 454 platforms. Phylogenetic analysis showed that the HPIV-1 genome is evolving at an estimated rate of 4.97 × 10(−4) mutations/site/year (95% highest posterior density 4.55 × 10(−4) to 5.38 × 10(−4)) and the HPIV-3 genome is evolving at a similar rate (3.59 × 10(−4) mutations/site/year, 95% highest posterior density 3.26 × 10(−4) to 3.94 × 10(−4)). There were multiple genetically distinct lineages of both HPIV-1 and 3 circulating on a global scale. Further surveillance and whole-genome sequencing are greatly needed to better understand the spatial dynamics of these important respiratory viruses in humans. Public Library of Science 2019-07-18 /pmc/articles/PMC6638977/ /pubmed/31318956 http://dx.doi.org/10.1371/journal.pone.0220057 Text en https://creativecommons.org/publicdomain/zero/1.0/ This is an open access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 (https://creativecommons.org/publicdomain/zero/1.0/) public domain dedication.
spellingShingle Research Article
Bose, Michael E.
Shrivastava, Susmita
He, Jie
Nelson, Martha I.
Bera, Jayati
Fedorova, Nadia
Halpin, Rebecca
Town, Christopher D.
Lorenzi, Hernan A.
Amedeo, Paolo
Gupta, Neha
Noyola, Daniel E.
Videla, Cristina
Kok, Tuckweng
Buys, Amelia
Venter, Marietjie
Vabret, Astrid
Cordey, Samuel
Henrickson, Kelly J.
Sequencing and analysis of globally obtained human parainfluenza viruses 1 and 3 genomes
title Sequencing and analysis of globally obtained human parainfluenza viruses 1 and 3 genomes
title_full Sequencing and analysis of globally obtained human parainfluenza viruses 1 and 3 genomes
title_fullStr Sequencing and analysis of globally obtained human parainfluenza viruses 1 and 3 genomes
title_full_unstemmed Sequencing and analysis of globally obtained human parainfluenza viruses 1 and 3 genomes
title_short Sequencing and analysis of globally obtained human parainfluenza viruses 1 and 3 genomes
title_sort sequencing and analysis of globally obtained human parainfluenza viruses 1 and 3 genomes
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6638977/
https://www.ncbi.nlm.nih.gov/pubmed/31318956
http://dx.doi.org/10.1371/journal.pone.0220057
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