Dataset Information

Use of whole-genome sequencing in the molecular investigation of care-associated HCoV-OC43 infections in a hematopoietic stem cell transplant unit.

ABSTRACT:

Background

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.

Objectives

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.

Study design

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.

Results

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.

Conclusions

HCoV-OC43 may be implicated in healthcare-associated infections.

SUBMITTER: Beury D

PROVIDER: S-EPMC7106382 | biostudies-literature | 2020 Jan

REPOSITORIES: biostudies-literature

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Publications

Use of whole-genome sequencing in the molecular investigation of care-associated HCoV-OC43 infections in a hematopoietic stem cell transplant unit.

Beury Delphine D Fléchon Léa L Maurier Florence F Caboche Ségolène S Varré Jean-Stéphane JS Touzet Hélène H Faure Karine K Dubuisson Jean J Hot David D Guery Benoit B Goffard Anne A

Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology 20191116

<h4>Background</h4>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.<h4>Objectives</h4>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.<h4>Study design</h4>Whole- ...[more]

PMID: 31783264

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Dataset Information

Use of whole-genome sequencing in the molecular investigation of care-associated HCoV-OC43 infections in a hematopoietic stem cell transplant unit.

Background

Objectives

Study design

Results

Conclusions

Publications

Use of whole-genome sequencing in the molecular investigation of care-associated HCoV-OC43 infections in a hematopoietic stem cell transplant unit.

Similar Datasets

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