Whole genome sequencing in the search for genes associated with the control of SIV infection in the Mauritian macaque model

Mostra el registre complet Registre parcial de l'ítem

  • dc.contributor.author de Manuel, Marc
  • dc.contributor.author Shiina, Takashi
  • dc.contributor.author Suzuki, Shingo
  • dc.contributor.author Dereuddre-Bosquet, Nathalie
  • dc.contributor.author Garchon, Henri-Jean
  • dc.contributor.author Tanaka, Masayuki
  • dc.contributor.author Congy-Jolivet, Nicolas
  • dc.contributor.author Aarnink, Alice
  • dc.contributor.author Le Grand, Roger
  • dc.contributor.author Marquès i Bonet, Tomàs, 1975-
  • dc.contributor.author Blancher, Antoine
  • dc.date.accessioned 2018-11-19T09:19:27Z
  • dc.date.available 2018-11-19T09:19:27Z
  • dc.date.issued 2018
  • dc.description.abstract In the Mauritian macaque experimentally inoculated with SIV, gene polymorphisms potentially associated with the plasma virus load at a set point, approximately 100 days post inoculation, were investigated. Among the 42 animals inoculated with 50 AID50 of the same strain of SIV, none of which received any preventive or curative treatment, nine individuals were selected: three with a plasma virus load (PVL) among the lowest, three with intermediate PVL values and three among the highest PVL values. The complete genomes of these nine animals were then analyzed. Initially, attention was focused on variants with a potential functional impact on protein encoding genes (non-synonymous SNPs (NS-SNPs) and splicing variants). Thus, 424 NS-SNPs possibly associated with PVL were detected. The 424 candidates SNPs were genotyped in these 42 SIV experimentally infected animals (including the nine animals subjected to whole genome sequencing). The genes containing variants most probably associated with PVL at a set time point are analyzed herein.
  • dc.description.sponsorship This work was supported by the “Investissements d’Avenir” programs managed by the ANR under reference ANR-11-INBS-0008 funding the Infectious Disease Models and Innovative Therapies (IDMIT, Fontenay-aux-Roses, France) infrastructure, and ANR-10-EQPX-02-01 funding the FlowCyTech facility (IDMIT, Fontenay-aux-Roses, France). We warmly thank all members of ASW and L2I core lab facility from IDMIT center. TMB is supported by MINECO BFU2014-55090-P (FEDER), U01 MH106874 grant, Howard Hughes International Early Career, Obra Social “La Caixa” and Secretaria d’Universitats i Recerca del Departament d’Economia i Coneixement de la Generalitat de Catalunya.
  • dc.format.mimetype application/pdf
  • dc.identifier.citation de Manuel M, Shiina T, Suzuki S, Dereuddre-Bosquet N, Garchon HJ, Tanaka M et al. Whole genome sequencing in the search for genes associated with the control of SIV infection in the Mauritian macaque model. Sci Rep. 2018;8(1):7131. DOI: 10.1038/s41598-018-25071-x
  • dc.identifier.doi http://dx.doi.org/10.1038/s41598-018-25071-x
  • dc.identifier.issn 2045-2322
  • dc.identifier.uri http://hdl.handle.net/10230/35788
  • dc.language.iso eng
  • dc.publisher Nature Publishing Group
  • dc.relation.ispartof Scientific Reports. 2018;8(1):7131
  • dc.relation.projectID info:eu-repo/grantAgreement/ES/1PE/BFU2014-55090-P
  • dc.rights © The Author(s) 2018. This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
  • dc.rights.accessRights info:eu-repo/semantics/openAccess
  • dc.rights.uri http://creativecommons.org/licenses/by/4.0/
  • dc.subject.keyword Genetic association study
  • dc.subject.keyword Genetics
  • dc.subject.keyword Genome-wide association studies
  • dc.title Whole genome sequencing in the search for genes associated with the control of SIV infection in the Mauritian macaque model
  • dc.type info:eu-repo/semantics/article
  • dc.type.version info:eu-repo/semantics/publishedVersion

Col·leccions

Articles (Departament de Medicina i Ciències de la Vida)
Articles (Center for Genomic Regulation (CRG))