About: Metagenomic sequencing complements routine diagnostics in identifying viral pathogens in lung transplant recipients with unknown etiology of respiratory infection

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About: Metagenomic sequencing complements routine diagnostics in identifying viral pathogens in lung transplant recipients with unknown etiology of respiratory infection Goto Sponge NotDistinct Permalink

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

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type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Metagenomic sequencing complements routine diagnostics in identifying viral pathogens in lung transplant recipients with unknown etiology of respiratory infection
Creator	Huber, Michael Trkola, Alexandra Zagordi, Osvaldo Bayard, Cornelia Benden, Christian Capaul, Riccarda Greiner, Michael Zbinden, Andrea Lewandowska, Dagmara Geissberger, Fabienne Mueller, Nicolas Rg Bö Ni, Jü Schreiber, Peter Schuurmans, Macé
Source	Medline; PMC
abstract	BACKGROUND: Lung transplant patients are a vulnerable group of immunosuppressed patients that are prone to frequent respiratory infections. We studied 60 episodes of respiratory symptoms in 71 lung transplant patients. Almost half of these episodes were of unknown infectious etiology despite extensive routine diagnostic testing. METHODS: We re-analyzed respiratory samples of all episodes with undetermined etiology in order to detect potential viral pathogens missed/not accounted for in routine diagnostics. Respiratory samples were enriched for viruses by filtration and nuclease digestion, whole nucleic acids extracted and randomly amplified before high throughput metagenomic virus sequencing. Viruses were identified by a bioinformatic pipeline and confirmed and quantified using specific real-time PCR. RESULTS: In completion of routine diagnostics, we identified and confirmed a viral etiology of infection by our metagenomic approach in four patients (three Rhinovirus A, one Rhinovirus B infection) despite initial negative results in specific multiplex PCR. Notably, the majority of samples were also positive for Torque teno virus (TTV) and Human Herpesvirus 7 (HHV-7). While TTV viral loads increased with immunosuppression in both throat swabs and blood samples, HHV-7 remained at low levels throughout the observation period and was restricted to the respiratory tract. CONCLUSION: This study highlights the potential of metagenomic sequencing for virus diagnostics in cases with previously unknown etiology of infection and in complex diagnostic situations such as in immunocompromised hosts.
has issue date	2017-05-23(xsd:dateTime)
bibo:doi	10.1371/journal.pone.0177340
bibo:pmid	28542207
has license	cc-by
sha1sum (hex)	a7d6aeb7cd27e3f420ae9ca4711ad2ac77651089
schema:url	https://doi.org/10.1371/journal.pone.0177340
resource representing a document's title	Metagenomic sequencing complements routine diagnostics in identifying viral pathogens in lung transplant recipients with unknown etiology of respiratory infection
has PubMed Central identifier	PMC5441588
has PubMed identifier	28542207
schema:publication	PLoS One
resource representing a document's body	covid:a7d6aeb7cd27e3f420ae9ca4711ad2ac77651089#body_text
is schema:about of	named entity 'extensive' named entity 'episodes' named entity 'diagnostic testing' named entity 'complements' named entity 'TRANSPLANT RECIPIENTS' covid:arg/a7d6aeb7cd27e3f420ae9ca4711ad2ac77651089 named entity 'THESE' named entity 'PRONE' named entity 'VIRAL PATHOGENS' named entity 'UNKNOWN ETIOLOGY' named entity 'DIAGNOSTICS' named entity 'ETIOLOGY' named entity 'INFECTIOUS' named entity 'COMPLEMENTS' named entity 'IDENTIFYING' named entity 'METAGENOMIC SEQUENCING' named entity 'ROUTINE' named entity 'GROUP' named entity 'PATIENTS' named entity 'ROUTINE' named entity 'EXTENSIVE' named entity 'EPISODES' named entity 'LUNG TRANSPLANT' named entity 'HALF' named entity 'UNKNOWN' named entity 'ALMOST' named entity 'IMMUNOSUPPRESSED PATIENTS' named entity 'RESPIRATORY SYMPTOMS' named entity 'DIAGNOSTIC TESTING' named entity 'VULNERABLE' named entity 'LUNG TRANSPLANT' named entity 'RESPIRATORY INFECTION' named entity 'FREQUENT RESPIRATORY INFECTIONS' named entity 'immunosuppressed' named entity 'frequent' named entity 'Lung transplant' named entity 'etiology' named entity 'respiratory infection' named entity 'lung transplant' named entity 'respiratory infections' named entity 'Lung transplant' named entity 'respiratory infection' named entity 'lung transplant' named entity 'symptoms' named entity 'infection' named entity 'CMV' named entity 'metagenomic' named entity 'metagenomics' named entity 'infection' named entity 'antifungal prophylaxis' named entity 'airway infection' named entity 'nucleic acids' named entity 'metagenomic analysis' named entity 'upper respiratory tract' named entity 'pathogenicity' named entity 'HHV-7' named entity 'urine' named entity 'primer' named entity 'symptom' named entity 'immunosuppression' named entity 'HHV-7' named entity 'alveolar' named entity 'CMV' named entity 'high-risk' named entity 'follow-up' named entity 'microbial' named entity 'viruses' named entity 'bovine'

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