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

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 whic...

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Autores principales:	Marc de Manuel, Takashi Shiina, Shingo Suzuki, Nathalie Dereuddre-Bosquet, Henri-Jean Garchon, Masayuki Tanaka, Nicolas Congy-Jolivet, Alice Aarnink, Roger Le Grand, Tomas Marques-Bonet, Antoine Blancher
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2018
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/96bb7351de3042deb7006dca982c2361
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spelling	oai:doaj.org-article:96bb7351de3042deb7006dca982c23612021-12-02T15:08:43ZWhole genome sequencing in the search for genes associated with the control of SIV infection in the Mauritian macaque model10.1038/s41598-018-25071-x2045-2322https://doaj.org/article/96bb7351de3042deb7006dca982c23612018-05-01T00:00:00Zhttps://doi.org/10.1038/s41598-018-25071-xhttps://doaj.org/toc/2045-2322Abstract 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.Marc de ManuelTakashi ShiinaShingo SuzukiNathalie Dereuddre-BosquetHenri-Jean GarchonMasayuki TanakaNicolas Congy-JolivetAlice AarninkRoger Le GrandTomas Marques-BonetAntoine BlancherNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 8, Iss 1, Pp 1-9 (2018)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Marc de Manuel Takashi Shiina Shingo Suzuki Nathalie Dereuddre-Bosquet Henri-Jean Garchon Masayuki Tanaka Nicolas Congy-Jolivet Alice Aarnink Roger Le Grand Tomas Marques-Bonet Antoine Blancher Whole genome sequencing in the search for genes associated with the control of SIV infection in the Mauritian macaque model
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.
format	article
author	Marc de Manuel Takashi Shiina Shingo Suzuki Nathalie Dereuddre-Bosquet Henri-Jean Garchon Masayuki Tanaka Nicolas Congy-Jolivet Alice Aarnink Roger Le Grand Tomas Marques-Bonet Antoine Blancher
author_facet	Marc de Manuel Takashi Shiina Shingo Suzuki Nathalie Dereuddre-Bosquet Henri-Jean Garchon Masayuki Tanaka Nicolas Congy-Jolivet Alice Aarnink Roger Le Grand Tomas Marques-Bonet Antoine Blancher
author_sort	Marc de Manuel
title	Whole genome sequencing in the search for genes associated with the control of SIV infection in the Mauritian macaque model
title_short	Whole genome sequencing in the search for genes associated with the control of SIV infection in the Mauritian macaque model
title_full	Whole genome sequencing in the search for genes associated with the control of SIV infection in the Mauritian macaque model
title_fullStr	Whole genome sequencing in the search for genes associated with the control of SIV infection in the Mauritian macaque model
title_full_unstemmed	Whole genome sequencing in the search for genes associated with the control of SIV infection in the Mauritian macaque model
title_sort	whole genome sequencing in the search for genes associated with the control of siv infection in the mauritian macaque model
publisher	Nature Portfolio
publishDate	2018
url	https://doaj.org/article/96bb7351de3042deb7006dca982c2361
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Whole genome sequencing in the search for genes associated with the control of SIV infection in the Mauritian macaque model

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