About: Comparing the yield of oropharyngeal swabs and sputum for detection of 11 common pathogens in hospitalized children with lower respiratory tract infection

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About: Comparing the yield of oropharyngeal swabs and sputum for detection of 11 common pathogens in hospitalized children with lower respiratory tract infection Goto Sponge NotDistinct Permalink

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

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Comparing the yield of oropharyngeal swabs and sputum for detection of 11 common pathogens in hospitalized children with lower respiratory tract infection
Creator	Wang, Le Yang, Shuo Feng, Zhishan Li, Guixia Liu, Teng Yan, Xiaotong
topic	covid:8d94c10b7cac018c7bd1b9c1c58365b78b35b458#this
Source	Medline; PMC
abstract	BACKGROUND: Advances in molecular laboratory techniques are changing the prospects for the diagnosis of viral infectious diseases. Multiplex polymerase chain reaction assay (multiplex-PCR) can detect dozens of pathogens simultaneously, greatly reducing turnaround time (TAT) and improving detection sensitivity. But as a double-edged sword, due to the high sensitivity of PCR, the type of respiratory specimens is critical to diagnosis. In this work, we performed a head-to-head comparison to evaluate the multiplex-PCR yields between two samples, sputum and flocked oropharyngeal swabs (OPS). METHODS: Eleven common respiratory pathogens were tested in hospitalized children< 13 years of age who met the criteria for lower respiratory tract infection by GeXP-based multiplex-PCR of paired OPS and sputum. RESULTS: From January to June 2018, 440 children with paired OPS and sputum were tested. The positive rate was 84% (369/440) for OPS and 88% (386/440) for sputum (p = .007). The frequency of detection of HRV, RSV, Influenza A virus, HMPV, parainfluenza virus, adenovirus, M. pneumoniae, coronavirus, bocavirus and C. pneumoniae in sputa was higher than that of OPSs (all p < .001). Both types of specimens had similarly very good kappa values for most of pathogens, except for Mycoplasma pneumonia (κ = 0.61) and Chlamydia pneumoniae (κ = 0.24). Additionally, 79.3% (349/440) of cases showed consistent results between the two types of samples, and they were significantly younger than patients with inconsistent results (p = .002). CONCLUSIONS: Flocked oropharyngeal swabs and sputum performed similarly for the detection of common respiratory pathogens in hospitalized children by multiplex-PCR, except for Mycoplasma pneumoniae and Chlamydia pneumoniae. Young patients are likely to have consistent results between the two specimens. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1186/s12985-019-1177-x) contains supplementary material, which is available to authorized users.
has issue date	2019-06-24(xsd:dateTime)
bibo:doi	10.1186/s12985-019-1177-x
bibo:pmid	31234918
has license	cc-by
sha1sum (hex)	8d94c10b7cac018c7bd1b9c1c58365b78b35b458
schema:url	https://doi.org/10.1186/s12985-019-1177-x
resource representing a document's title	Comparing the yield of oropharyngeal swabs and sputum for detection of 11 common pathogens in hospitalized children with lower respiratory tract infection
has PubMed Central identifier	PMC6591818
has PubMed identifier	31234918
schema:publication	Virol J
resource representing a document's body	covid:8d94c10b7cac018c7bd1b9c1c58365b78b35b458#body_text
is http://vocab.deri.ie/void#inDataset of	https://covidontheweb.inria.fr:4443/about/id/http/ns.inria.fr/covid19/8d94c10b7cac018c7bd1b9c1c58365b78b35b458
is schema:about of	named entity 'MYCOPLASMA PNEUMONIA' named entity 'POSITIVE RATE' named entity 'MOST OF' named entity 'IMPROVING' named entity 'ADENOVIRUS' named entity 'CHLAMYDIA PNEUMONIAE' named entity 'EVALUATE' named entity 'PATHOGENS' named entity 'AGE' named entity 'VERY GOOD' named entity '28369' named entity 'CONSISTENT' named entity '28P' named entity 'REDUCING' named entity 'YEARS' named entity 'CHILDREN' named entity 'OROPHARYNGEAL' named entity 'SPECIMENS' named entity 'POLYMERASE CHAIN REACTION ASSAY' named entity 'BASED' named entity 'JANUARY' named entity 'CRITERIA' named entity 'BACKGROUND' named entity 'VIRAL INFECTIOUS DISEASES' named entity 'OPS' named entity 'LIKELY' named entity 'SAMPLES' named entity 'SPUTUM' named entity 'COMMON' named entity 'DETECTION' named entity 'types' named entity 'infection' named entity 'detection' named entity 'paired' named entity 'turnaround time' named entity 'diagnosis' named entity 'performed' named entity 'swabs' named entity 'COMPARING' named entity 'YIELD' covid:arg/8d94c10b7cac018c7bd1b9c1c58365b78b35b458 named entity 'MULTIPLEX' named entity 'PCR' named entity 'PERFORMED' named entity 'SWABS' named entity 'LOWER RESPIRATORY TRACT INFECTION' named entity '2018' named entity 'CHANGING' named entity '28386' named entity 'DETECT' named entity 'TYPE' named entity 'FREQUENCY' named entity 'DUE TO' named entity 'RSV' named entity 'PNEUMONIAE' named entity 'WORK' named entity 'HIGH SENSITIVITY' named entity 'SPUTUM' named entity '440' named entity 'SIMULTANEOUSLY' named entity 'CORONAVIRUS' named entity 'EXCEPT FOR' named entity 'CONCLUSIONS' named entity 'DIAGNOSIS' named entity 'HEAD' named entity 'DOUBLE' named entity 'KAPPA' named entity 'SWABS' named entity 'OROPHARYNGEAL' named entity 'LOWER RESPIRATORY TRACT INFECTION' named entity 'HOSPITALIZED CHILDREN' named entity 'PATHOGENS' named entity 'PATIENTS' named entity 'RESPIRATORY'

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