Use of whole-genome sequencing in the molecular investigation of care-associated HCoV-OC43 infections in a hematopoietic stem cell transplant unit.
Details
State: Public
Version: Final published version
License: Not specified
Serval ID
serval:BIB_E7DB575E8BE2
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
Use of whole-genome sequencing in the molecular investigation of care-associated HCoV-OC43 infections in a hematopoietic stem cell transplant unit.
Journal
Journal of clinical virology
ISSN
1873-5967 (Electronic)
ISSN-L
1386-6532
Publication state
Published
Issued date
01/2020
Peer-reviewed
Oui
Volume
122
Pages
104206
Language
english
Notes
Publication types: Journal Article
Publication Status: ppublish
Publication Status: ppublish
Abstract
While respiratory viral infections are recognized as a frequent cause of illness in hematopoietic stem cell transplantation (HSCT) recipients, HCoV-OC43 infections have rarely been investigated as healthcare-associated infections in this population.
In this report, HCoV-OC43 isolates collected from HSCT patients were retrospectively characterized to identify potential clusters of infection that may stand for a hospital transmission.
Whole-genome and S gene sequences were obtained from nasal swabs using next-generation sequencing and phylogenetic trees were constructed. Similar identity matrix and determination of the most common ancestor were used to compare clusters of patient's sequences. Amino acids substitutions were analysed.
Genotypes B, E, F and G were identified. Two clusters of patients were defined from chronological data and phylogenetic trees. Analyses of amino acids substitutions of the S protein sequences identified substitutions specific for genotype F strains circulating among European people.
HCoV-OC43 may be implicated in healthcare-associated infections.
In this report, HCoV-OC43 isolates collected from HSCT patients were retrospectively characterized to identify potential clusters of infection that may stand for a hospital transmission.
Whole-genome and S gene sequences were obtained from nasal swabs using next-generation sequencing and phylogenetic trees were constructed. Similar identity matrix and determination of the most common ancestor were used to compare clusters of patient's sequences. Amino acids substitutions were analysed.
Genotypes B, E, F and G were identified. Two clusters of patients were defined from chronological data and phylogenetic trees. Analyses of amino acids substitutions of the S protein sequences identified substitutions specific for genotype F strains circulating among European people.
HCoV-OC43 may be implicated in healthcare-associated infections.
Keywords
Care-associated infections, Hematopoietic cell transplant, Human coronavirus, Phylogenetic analyses, Whole genome sequencing
Pubmed
Web of science
Open Access
Yes
Create date
04/12/2019 22:27
Last modification date
25/01/2024 7:46
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