About: Phylogenetic Exploration of Nosocomial Transmission Chains of 2009 Influenza A/H1N1 among Children Admitted at Red Cross War Memorial Children’s Hospital, Cape Town, South Africa in 2011

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About: Phylogenetic Exploration of Nosocomial Transmission Chains of 2009 Influenza A/H1N1 among Children Admitted at Red Cross War Memorial Children’s Hospital, Cape Town, South Africa in 2011 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	Phylogenetic Exploration of Nosocomial Transmission Chains of 2009 Influenza A/H1N1 among Children Admitted at Red Cross War Memorial Children’s Hospital, Cape Town, South Africa in 2011
Creator	Martin, Darren Hsiao, Marvin Nindo, Fredrick Valley-Omar, Ziyaad
Source	PMC
abstract	Traditional modes of investigating influenza nosocomial transmission have entailed a combination of confirmatory molecular diagnostic testing and epidemiological investigation. Common hospital-acquired infections like influenza require a discerning ability to distinguish between viral isolates to accurately identify patient transmission chains. We assessed whether influenza hemagglutinin sequence phylogenies can be used to enrich epidemiological data when investigating the extent of nosocomial transmission over a four-month period within a paediatric Hospital in Cape Town South Africa. Possible transmission chains/channels were initially determined through basic patient admission data combined with Maximum likelihood and time-scaled Bayesian phylogenetic analyses. These analyses suggested that most instances of potential hospital-acquired infections resulted from multiple introductions of Influenza A into the hospital, which included instances where virus hemagglutinin sequences were identical between different patients. Furthermore, a general inability to establish epidemiological transmission linkage of patients/viral isolates implied that identified isolates could have originated from asymptomatic hospital patients, visitors or hospital staff. In contrast, a traditional epidemiological investigation that used no viral phylogenetic analyses, based on patient co-admission into specific wards during a particular time-frame, suggested that multiple hospital acquired infection instances may have stemmed from a limited number of identifiable index viral isolates/patients. This traditional epidemiological analysis by itself could incorrectly suggest linkage between unrelated cases, underestimate the number of unique infections and may overlook the possible diffuse nature of hospital transmission, which was suggested by sequencing data to be caused by multiple unique introductions of influenza A isolates into individual hospital wards. We have demonstrated a functional role for viral sequence data in nosocomial transmission investigation through its ability to enrich traditional, non-molecular observational epidemiological investigation by teasing out possible transmission pathways and working toward more accurately enumerating the number of possible transmission events.
has issue date	2015-11-13(xsd:dateTime)
bibo:doi	10.1371/journal.pone.0141744
bibo:pmid	26565994
has license	cc-by
sha1sum (hex)	ec9faa32c45199e8fec10c7a0d3bae3dd0275744
schema:url	https://doi.org/10.1371/journal.pone.0141744
resource representing a document's title	Phylogenetic Exploration of Nosocomial Transmission Chains of 2009 Influenza A/H1N1 among Children Admitted at Red Cross War Memorial Children’s Hospital, Cape Town, South Africa in 2011
has PubMed Central identifier	PMC4643913
has PubMed identifier	26565994
schema:publication	PLoS One
resource representing a document's body	covid:ec9faa32c45199e8fec10c7a0d3bae3dd0275744#body_text
is schema:about of	named entity 'ADMITTED' named entity 'MEMORIAL' named entity 'enrich' named entity 'contrast' named entity 'hospital-acquired infections' named entity 'phylogenies' named entity 'instances' named entity 'determined' named entity 'paediatric' named entity 'nosocomial' named entity 'Admitted' named entity '27S' named entity 'HOSPITAL' named entity 'FRAME' named entity 'HOSPITAL' named entity 'NOSOCOMIAL TRANSMISSION' named entity 'DIFFERENT' named entity 'INDEX' named entity 'NOSOCOMIAL TRANSMISSION' named entity 'INFLUENZA A' named entity 'HOSPITAL STAFF' named entity 'TRADITIONAL' named entity 'INCLUDED' named entity 'VIRUS' named entity 'BASED' named entity 'EXTENT OF' named entity 'HOSPITAL ACQUIRED INFECTION' named entity 'MONTH' named entity 'DATA' named entity 'INFLUENZA' named entity 'COMMON' named entity 'MOLECULAR' named entity 'ASYMPTOMATIC' named entity 'CONFIRMATORY' named entity 'LIKE' named entity 'BASIC' named entity 'EPIDEMIOLOGICAL' named entity 'CHILDREN' named entity 'RED CROSS' named entity 'SPECIFIC' named entity 'PATIENT' named entity 'MAXIMUM LIKELIHOOD' named entity 'INFECTIONS' named entity 'INVESTIGATING' named entity 'MULTIPLE' named entity 'LINKAGE' named entity 'THESE' named entity 'DIAGNOSTIC TESTING' named entity 'CAPE TOWN' named entity 'NUMBER OF' named entity 'POSSIBLE' named entity 'SCALED' named entity 'INVESTIGATION' named entity 'HOSPITAL PATIENTS' named entity 'COMBINATION' named entity 'TIME' named entity 'PARTICULAR' named entity 'CONTRAST' named entity 'INFLUENZA A' named entity 'SEQUENCES' named entity 'PAEDIATRIC' named entity 'INABILITY' named entity 'PATIENTS' named entity 'POTENTIAL' named entity 'ENRICH' named entity 'INITIALLY' named entity 'WARDS' named entity 'PATIENT ADMISSION' named entity 'HEMAGGLUTININ' named entity 'ACQUIRED' named entity 'IDENTIFY' named entity 'ESTABLISH' named entity 'LIMITED' named entity 'ADMISSION' named entity 'DETERMINED' named entity 'COMBINED' named entity 'IDENTIFIED' named entity 'SEQUENCE'

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