Computational analysis of a species D human adenovirus provides evidence of a novel virus
Resumen:
A human adenovirus (HAdV) species D, was isolated from a hospitalised child with severe lower respiratory infection. It was initially detected in the nasopharyngeal aspirate of the child followed by conventional PCR amplification of the hexon, penton base, and fibre genes. Sanger DNA sequencing and phylogenetic analyses showed characteristics of a recombinant genome not described before. Next Generation Sequencing analysis was performed to reconstruct its complete DNA genome after viral isolation in adenocarcinoma human cell line (A549). A complete genomic sequence of 35.2 kb in length, with a G +C content of 57 % was obtained, related to HAdV-D29 (96 % identity). Imputed serology analysis demonstrated its novel type with a nucleotide sequence identity of 95.3 % (hexon loop 1) and 96 % (hexon loop 2) to HAdV-D9. The penton base gene showed a novel sequence, distantly related to HAdV-D44. The E3 and E4 regions evolved significantly from their ancestors. The fibre gene was almost identical to the knob region of HAdV-D15 but showed an unrelated shaft sequence. In conclusion the genomics of this novel HAdV, designated the HAdV-D83 [P83H9F15] prototype and bearing a new penton base gene, supports the importance of viral evolution to understand modified tissue tropism, nhanced transmission, or altered virulence.
2017 | |
Adenovirus Recombination DNA sequencing Bioinformatics |
|
Inglés | |
Universidad de la República | |
COLIBRI | |
https://hdl.handle.net/20.500.12008/34077 | |
Acceso abierto | |
Licencia Creative Commons Atribución (CC - By 4.0) |
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---|---|
author | Espínola, Emilio E. |
author2 | Barrios, Julio C. Russomando, Graciela Mirazo, Santiago Arbiza, Juan |
author2_role | author author author author |
author_facet | Espínola, Emilio E. Barrios, Julio C. Russomando, Graciela Mirazo, Santiago Arbiza, Juan |
author_role | author |
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collection | COLIBRI |
dc.contributor.filiacion.none.fl_str_mv | Espínola Emilio E. Barrios Julio C. Russomando Graciela Mirazo Santiago, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Biología. Arbiza Juan, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Biología. |
dc.creator.none.fl_str_mv | Espínola, Emilio E. Barrios, Julio C. Russomando, Graciela Mirazo, Santiago Arbiza, Juan |
dc.date.accessioned.none.fl_str_mv | 2022-10-11T13:03:39Z |
dc.date.available.none.fl_str_mv | 2022-10-11T13:03:39Z |
dc.date.issued.none.fl_str_mv | 2017 |
dc.description.abstract.none.fl_txt_mv | A human adenovirus (HAdV) species D, was isolated from a hospitalised child with severe lower respiratory infection. It was initially detected in the nasopharyngeal aspirate of the child followed by conventional PCR amplification of the hexon, penton base, and fibre genes. Sanger DNA sequencing and phylogenetic analyses showed characteristics of a recombinant genome not described before. Next Generation Sequencing analysis was performed to reconstruct its complete DNA genome after viral isolation in adenocarcinoma human cell line (A549). A complete genomic sequence of 35.2 kb in length, with a G +C content of 57 % was obtained, related to HAdV-D29 (96 % identity). Imputed serology analysis demonstrated its novel type with a nucleotide sequence identity of 95.3 % (hexon loop 1) and 96 % (hexon loop 2) to HAdV-D9. The penton base gene showed a novel sequence, distantly related to HAdV-D44. The E3 and E4 regions evolved significantly from their ancestors. The fibre gene was almost identical to the knob region of HAdV-D15 but showed an unrelated shaft sequence. In conclusion the genomics of this novel HAdV, designated the HAdV-D83 [P83H9F15] prototype and bearing a new penton base gene, supports the importance of viral evolution to understand modified tissue tropism, nhanced transmission, or altered virulence. |
dc.format.extent.es.fl_str_mv | 11 h. |
dc.format.mimetype.es.fl_str_mv | application/pdf |
dc.identifier.citation.es.fl_str_mv | Espínola, E, Barrios, J, Russomando, G. [y otros autores]. "Computational analysis of a species D human adenovirus provides evidence of a novel virus". Journal of General Virology. [en línea] 2017, 98, 2810–2820. 11 h. |
dc.identifier.doi.none.fl_str_mv | 10.1099/jgv.0.000947 |
dc.identifier.issn.none.fl_str_mv | 0022-1317 |
dc.identifier.uri.none.fl_str_mv | https://hdl.handle.net/20.500.12008/34077 |
dc.language.iso.none.fl_str_mv | en_US eng |
dc.publisher.es.fl_str_mv | Microbiology Society |
dc.relation.ispartof.es.fl_str_mv | Journal of General Virology, 2017, 98: 2810–2820. |
dc.rights.license.none.fl_str_mv | Licencia Creative Commons Atribución (CC - By 4.0) |
dc.rights.none.fl_str_mv | info:eu-repo/semantics/openAccess |
dc.rights.uri.*.fl_str_mv | An error occurred getting the license - uri. |
dc.source.none.fl_str_mv | reponame:COLIBRI instname:Universidad de la República instacron:Universidad de la República |
dc.subject.es.fl_str_mv | Adenovirus Recombination DNA sequencing Bioinformatics |
dc.title.none.fl_str_mv | Computational analysis of a species D human adenovirus provides evidence of a novel virus |
dc.type.es.fl_str_mv | Artículo |
dc.type.none.fl_str_mv | info:eu-repo/semantics/article |
dc.type.version.none.fl_str_mv | info:eu-repo/semantics/publishedVersion |
description | A human adenovirus (HAdV) species D, was isolated from a hospitalised child with severe lower respiratory infection. It was initially detected in the nasopharyngeal aspirate of the child followed by conventional PCR amplification of the hexon, penton base, and fibre genes. Sanger DNA sequencing and phylogenetic analyses showed characteristics of a recombinant genome not described before. Next Generation Sequencing analysis was performed to reconstruct its complete DNA genome after viral isolation in adenocarcinoma human cell line (A549). A complete genomic sequence of 35.2 kb in length, with a G +C content of 57 % was obtained, related to HAdV-D29 (96 % identity). Imputed serology analysis demonstrated its novel type with a nucleotide sequence identity of 95.3 % (hexon loop 1) and 96 % (hexon loop 2) to HAdV-D9. The penton base gene showed a novel sequence, distantly related to HAdV-D44. The E3 and E4 regions evolved significantly from their ancestors. The fibre gene was almost identical to the knob region of HAdV-D15 but showed an unrelated shaft sequence. In conclusion the genomics of this novel HAdV, designated the HAdV-D83 [P83H9F15] prototype and bearing a new penton base gene, supports the importance of viral evolution to understand modified tissue tropism, nhanced transmission, or altered virulence. |
eu_rights_str_mv | openAccess |
format | article |
id | COLIBRI_e2c6637e3e7c12c93f332b76434d1f0e |
identifier_str_mv | Espínola, E, Barrios, J, Russomando, G. [y otros autores]. "Computational analysis of a species D human adenovirus provides evidence of a novel virus". Journal of General Virology. [en línea] 2017, 98, 2810–2820. 11 h. 0022-1317 10.1099/jgv.0.000947 |
instacron_str | Universidad de la República |
institution | Universidad de la República |
instname_str | Universidad de la República |
language | eng |
language_invalid_str_mv | en_US |
network_acronym_str | COLIBRI |
network_name_str | COLIBRI |
oai_identifier_str | oai:colibri.udelar.edu.uy:20.500.12008/34077 |
publishDate | 2017 |
reponame_str | COLIBRI |
repository.mail.fl_str_mv | mabel.seroubian@seciu.edu.uy |
repository.name.fl_str_mv | COLIBRI - Universidad de la República |
repository_id_str | 4771 |
rights_invalid_str_mv | An error occurred getting the license - uri. Licencia Creative Commons Atribución (CC - By 4.0) |
spelling | Espínola Emilio E.Barrios Julio C.Russomando GracielaMirazo Santiago, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Biología.Arbiza Juan, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Biología.2022-10-11T13:03:39Z2022-10-11T13:03:39Z2017Espínola, E, Barrios, J, Russomando, G. [y otros autores]. "Computational analysis of a species D human adenovirus provides evidence of a novel virus". Journal of General Virology. [en línea] 2017, 98, 2810–2820. 11 h.0022-1317https://hdl.handle.net/20.500.12008/3407710.1099/jgv.0.000947A human adenovirus (HAdV) species D, was isolated from a hospitalised child with severe lower respiratory infection. It was initially detected in the nasopharyngeal aspirate of the child followed by conventional PCR amplification of the hexon, penton base, and fibre genes. Sanger DNA sequencing and phylogenetic analyses showed characteristics of a recombinant genome not described before. Next Generation Sequencing analysis was performed to reconstruct its complete DNA genome after viral isolation in adenocarcinoma human cell line (A549). A complete genomic sequence of 35.2 kb in length, with a G +C content of 57 % was obtained, related to HAdV-D29 (96 % identity). Imputed serology analysis demonstrated its novel type with a nucleotide sequence identity of 95.3 % (hexon loop 1) and 96 % (hexon loop 2) to HAdV-D9. The penton base gene showed a novel sequence, distantly related to HAdV-D44. The E3 and E4 regions evolved significantly from their ancestors. The fibre gene was almost identical to the knob region of HAdV-D15 but showed an unrelated shaft sequence. In conclusion the genomics of this novel HAdV, designated the HAdV-D83 [P83H9F15] prototype and bearing a new penton base gene, supports the importance of viral evolution to understand modified tissue tropism, nhanced transmission, or altered virulence.Submitted by Farías Verónica (vfarias@fcien.edu.uy) on 2022-09-27T15:24:39Z No. of bitstreams: 2 license_rdf: 19875 bytes, checksum: 9fdbed07f52437945402c4e70fa4773e (MD5) 10.1099jgv.0.000947.pdf: 1312484 bytes, checksum: 407353c319463bb5a5034bc6f7dcb44b (MD5)Approved for entry into archive by Faget Cecilia (lfaget@fcien.edu.uy) on 2022-10-11T12:54:02Z (GMT) No. of bitstreams: 2 license_rdf: 19875 bytes, checksum: 9fdbed07f52437945402c4e70fa4773e (MD5) 10.1099jgv.0.000947.pdf: 1312484 bytes, checksum: 407353c319463bb5a5034bc6f7dcb44b (MD5)Made available in DSpace by Luna Fabiana (fabiana.luna@seciu.edu.uy) on 2022-10-11T13:03:39Z (GMT). No. of bitstreams: 2 license_rdf: 19875 bytes, checksum: 9fdbed07f52437945402c4e70fa4773e (MD5) 10.1099jgv.0.000947.pdf: 1312484 bytes, checksum: 407353c319463bb5a5034bc6f7dcb44b (MD5) Previous issue date: 201711 h.application/pdfen_USengMicrobiology SocietyJournal of General Virology, 2017, 98: 2810–2820.Las obras depositadas en el Repositorio se rigen por la Ordenanza de los Derechos de la Propiedad Intelectual de la Universidad de la República.(Res. Nº 91 de C.D.C. de 8/III/1994 – D.O. 7/IV/1994) y por la Ordenanza del Repositorio Abierto de la Universidad de la República (Res. Nº 16 de C.D.C. de 07/10/2014)An error occurred getting the license - uri.info:eu-repo/semantics/openAccessLicencia Creative Commons Atribución (CC - By 4.0)AdenovirusRecombinationDNA sequencingBioinformaticsComputational analysis of a species D human adenovirus provides evidence of a novel virusArtículoinfo:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionreponame:COLIBRIinstname:Universidad de la Repúblicainstacron:Universidad de la RepúblicaEspínola, Emilio E.Barrios, Julio C.Russomando, GracielaMirazo, SantiagoArbiza, JuanLICENSElicense.txtlicense.txttext/plain; charset=utf-84267http://localhost:8080/xmlui/bitstream/20.500.12008/34077/5/license.txt6429389a7df7277b72b7924fdc7d47a9MD55CC-LICENSElicense_urllicense_urltext/plain; charset=utf-844http://localhost:8080/xmlui/bitstream/20.500.12008/34077/2/license_urla0ebbeafb9d2ec7cbb19d7137ebc392cMD52license_textlicense_texttext/html; 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- Universidad de la Repúblicafalse |
spellingShingle | Computational analysis of a species D human adenovirus provides evidence of a novel virus Espínola, Emilio E. Adenovirus Recombination DNA sequencing Bioinformatics |
status_str | publishedVersion |
title | Computational analysis of a species D human adenovirus provides evidence of a novel virus |
title_full | Computational analysis of a species D human adenovirus provides evidence of a novel virus |
title_fullStr | Computational analysis of a species D human adenovirus provides evidence of a novel virus |
title_full_unstemmed | Computational analysis of a species D human adenovirus provides evidence of a novel virus |
title_short | Computational analysis of a species D human adenovirus provides evidence of a novel virus |
title_sort | Computational analysis of a species D human adenovirus provides evidence of a novel virus |
topic | Adenovirus Recombination DNA sequencing Bioinformatics |
url | https://hdl.handle.net/20.500.12008/34077 |