Investigation of the Plasma Virome from Cases of Unexplained Febrile Illness in Tanzania from 2013 to 2014: a Comparative Analysis between Unbiased and VirCapSeq-VERT High-Throughput Sequencing Approaches.

Détails

Ressource 1Télécharger: 30135221_BIB_4DDB5AD7E157.pdf (451.44 [Ko])
Etat: Public
Version: Final published version
Licence: CC BY 4.0
ID Serval
serval:BIB_4DDB5AD7E157
Type
Article: article d'un périodique ou d'un magazine.
Collection
Publications
Institution
Titre
Investigation of the Plasma Virome from Cases of Unexplained Febrile Illness in Tanzania from 2013 to 2014: a Comparative Analysis between Unbiased and VirCapSeq-VERT High-Throughput Sequencing Approaches.
Périodique
mSphere
Auteur(s)
Williams S.H., Cordey S., Bhuva N., Laubscher F., Hartley M.A., Boillat-Blanco N., Mbarack Z., Samaka J., Mlaganile T., Jain K., d'Acremont V., Kaiser L., Lipkin W.I.
ISSN
2379-5042 (Electronic)
ISSN-L
2379-5042
Statut éditorial
Publié
Date de publication
22/08/2018
Peer-reviewed
Oui
Volume
3
Numéro
4
Pages
e00311-18
Langue
anglais
Notes
Publication types: Comparative Study ; Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
Publication Status: epublish
Résumé
High-throughput sequencing can provide insights into epidemiology and medicine through comprehensive surveys of viral genetic sequences in environmental and clinical samples. Here, we characterize the plasma virome of Tanzanian patients with unexplained febrile illness by using two high-throughput sequencing methods: unbiased sequencing and VirCapSeq-VERT (a positive selection system). Sequences from dengue virus 2, West Nile virus, human immunodeficiency virus type 1, human pegivirus, and Epstein-Barr virus were identified in plasma. Both sequencing strategies recovered nearly complete genomes in samples containing multiple viruses. Whereas VirCapSeq-VERT had better sensitivity, unbiased sequencing provided better coverage of genome termini. Together, these data demonstrate the utility of high-throughput sequencing strategies in outbreak investigations. <b>IMPORTANCE</b> Characterization of the viruses found in the blood of febrile patients provides information pertinent to public health and diagnostic medicine. PCR and culture have historically played an important role in clinical microbiology; however, these methods require a targeted approach and may lack the capacity to identify novel or mixed viral infections. High-throughput sequencing can overcome these constraints. As the cost of running multiple samples continues to decrease, the implementation of high-throughput sequencing for diagnostic purposes is becoming more feasible. Here we present a comparative analysis of findings from an investigation of unexplained febrile illness using two strategies: unbiased high-throughput sequencing and VirCapSeq-VERT, a positive selection high-throughput sequencing system.
Mots-clé
Fever/blood, Fever/virology, Genome, Viral, High-Throughput Nucleotide Sequencing/methods, Humans, Plasma/virology, Tanzania, Virus Diseases/diagnosis, Viruses/genetics, UHTS, VirCapSeq-VERT, febrile illness, sequencing, virology
Pubmed
Open Access
Oui
Création de la notice
04/09/2018 12:32
Dernière modification de la notice
20/08/2019 15:03
Données d'usage