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An unusually high substitution rate in transplant-associated BK polyomavirus in vivo is further concentrated in HLA-C-bound viral peptides
Infection with human BK polyomavirus, a small double-stranded DNA virus, potentially results in severe complications in immunocompromised patients. Here, we describe the in vivo variability and evolution of the BK polyomavirus by deep sequencing. Our data reveal the highest genomic evolutionary rate...
Autores principales: | , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6207329/ https://www.ncbi.nlm.nih.gov/pubmed/30335851 http://dx.doi.org/10.1371/journal.ppat.1007368 |
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author | Domingo-Calap, Pilar Schubert, Benjamin Joly, Mélanie Solis, Morgane Untrau, Meiggie Carapito, Raphael Georgel, Philippe Caillard, Sophie Fafi-Kremer, Samira Paul, Nicodème Kohlbacher, Oliver González-Candelas, Fernando Bahram, Seiamak |
author_facet | Domingo-Calap, Pilar Schubert, Benjamin Joly, Mélanie Solis, Morgane Untrau, Meiggie Carapito, Raphael Georgel, Philippe Caillard, Sophie Fafi-Kremer, Samira Paul, Nicodème Kohlbacher, Oliver González-Candelas, Fernando Bahram, Seiamak |
author_sort | Domingo-Calap, Pilar |
collection | PubMed |
description | Infection with human BK polyomavirus, a small double-stranded DNA virus, potentially results in severe complications in immunocompromised patients. Here, we describe the in vivo variability and evolution of the BK polyomavirus by deep sequencing. Our data reveal the highest genomic evolutionary rate described in double-stranded DNA viruses, i.e., 10(−3)–10(−5) substitutions per nucleotide site per year. High mutation rates in viruses allow their escape from immune surveillance and adaptation to new hosts. By combining mutational landscapes across viral genomes with in silico prediction of viral peptides, we demonstrate the presence of significantly more coding substitutions within predicted cognate HLA-C-bound viral peptides than outside. This finding suggests a role for HLA-C in antiviral immunity, perhaps through the action of killer cell immunoglobulin-like receptors. The present study provides a comprehensive view of viral evolution and immune escape in a DNA virus. |
format | Online Article Text |
id | pubmed-6207329 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-62073292018-11-19 An unusually high substitution rate in transplant-associated BK polyomavirus in vivo is further concentrated in HLA-C-bound viral peptides Domingo-Calap, Pilar Schubert, Benjamin Joly, Mélanie Solis, Morgane Untrau, Meiggie Carapito, Raphael Georgel, Philippe Caillard, Sophie Fafi-Kremer, Samira Paul, Nicodème Kohlbacher, Oliver González-Candelas, Fernando Bahram, Seiamak PLoS Pathog Research Article Infection with human BK polyomavirus, a small double-stranded DNA virus, potentially results in severe complications in immunocompromised patients. Here, we describe the in vivo variability and evolution of the BK polyomavirus by deep sequencing. Our data reveal the highest genomic evolutionary rate described in double-stranded DNA viruses, i.e., 10(−3)–10(−5) substitutions per nucleotide site per year. High mutation rates in viruses allow their escape from immune surveillance and adaptation to new hosts. By combining mutational landscapes across viral genomes with in silico prediction of viral peptides, we demonstrate the presence of significantly more coding substitutions within predicted cognate HLA-C-bound viral peptides than outside. This finding suggests a role for HLA-C in antiviral immunity, perhaps through the action of killer cell immunoglobulin-like receptors. The present study provides a comprehensive view of viral evolution and immune escape in a DNA virus. Public Library of Science 2018-10-18 /pmc/articles/PMC6207329/ /pubmed/30335851 http://dx.doi.org/10.1371/journal.ppat.1007368 Text en © 2018 Domingo-Calap et al http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. |
spellingShingle | Research Article Domingo-Calap, Pilar Schubert, Benjamin Joly, Mélanie Solis, Morgane Untrau, Meiggie Carapito, Raphael Georgel, Philippe Caillard, Sophie Fafi-Kremer, Samira Paul, Nicodème Kohlbacher, Oliver González-Candelas, Fernando Bahram, Seiamak An unusually high substitution rate in transplant-associated BK polyomavirus in vivo is further concentrated in HLA-C-bound viral peptides |
title | An unusually high substitution rate in transplant-associated BK polyomavirus in vivo is further concentrated in HLA-C-bound viral peptides |
title_full | An unusually high substitution rate in transplant-associated BK polyomavirus in vivo is further concentrated in HLA-C-bound viral peptides |
title_fullStr | An unusually high substitution rate in transplant-associated BK polyomavirus in vivo is further concentrated in HLA-C-bound viral peptides |
title_full_unstemmed | An unusually high substitution rate in transplant-associated BK polyomavirus in vivo is further concentrated in HLA-C-bound viral peptides |
title_short | An unusually high substitution rate in transplant-associated BK polyomavirus in vivo is further concentrated in HLA-C-bound viral peptides |
title_sort | unusually high substitution rate in transplant-associated bk polyomavirus in vivo is further concentrated in hla-c-bound viral peptides |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6207329/ https://www.ncbi.nlm.nih.gov/pubmed/30335851 http://dx.doi.org/10.1371/journal.ppat.1007368 |
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