About: Metagenomic analysis of viral diversity in respiratory samples from patients with respiratory tract infections in Kuwait

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An Entity of Type : schema:ScholarlyArticle, within Data Space : wasabi.inria.fr associated with source document(s)

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type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
title	Metagenomic analysis of viral diversity in respiratory samples from patients with respiratory tract infections in Kuwait
Creator	Al-Nakib, Widad Madi, Nada Abu, \| Habibi, Nazima Mustafa, Salim
source	Medline; PMC
abstract	A metagenomic approach based on target independent next‐generation sequencing has become a known method for the detection of both known and novel viruses in clinical samples. This study aimed to use the metagenomic sequencing approach to characterize the viral diversity in respiratory samples from patients with respiratory tract infections. We have investigated 86 respiratory samples received from various hospitals in Kuwait between 2015 and 2016 for the diagnosis of respiratory tract infections. A metagenomic approach using the next‐generation sequencer to characterize viruses was used. According to the metagenomic analysis, an average of 145, 019 reads were identified, and 2% of these reads were of viral origin. Also, metagenomic analysis of the viral sequences revealed many known respiratory viruses, which were detected in 30.2% of the clinical samples. Also, sequences of non‐respiratory viruses were detected in 14% of the clinical samples, while sequences of non‐human viruses were detected in 55.8% of the clinical samples. The average genome coverage of the viruses was 12% with the highest genome coverage of 99.2% for respiratory syncytial virus, and the lowest was 1% for torque teno midi virus 2. Our results showed 47.7% agreement between multiplex Real‐Time PCR and metagenomics sequencing in the detection of respiratory viruses in the clinical samples. Though there are some difficulties in using this method to clinical samples such as specimen quality, these observations are indicative of the promising utility of the metagenomic sequencing approach for the identification of respiratory viruses in patients with respiratory tract infections.
has issue date	2017-11-11(xsd:dateTime)
bibo:doi	10.1002/jmv.24984
bibo:pmid	29083040
has license	no-cc
sha1sum (hex)	72df5c13858e70a641dfa8b9d3b25efdc5632003
schema:url	https://doi.org/10.1002/jmv.24984
resource representing a document's title	Metagenomic analysis of viral diversity in respiratory samples from patients with respiratory tract infections in Kuwait
has PubMed Central identifier	PMC7167075
has PubMed identifier	29083040
schema:publication	J Med Virol
resource representing a document's body	covid:72df5c13858e70a641dfa8b9d3b25efdc5632003#body_text
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