Sequencing and characterization of human bocavirus genomes from patients diagnosed in Southern France between 2017 and 2022.
Humans
Human bocavirus
/ genetics
Genome, Viral
/ genetics
France
/ epidemiology
Phylogeny
Parvoviridae Infections
/ virology
Female
Genotype
High-Throughput Nucleotide Sequencing
Child, Preschool
Male
Child
Adult
Infant
Middle Aged
Coinfection
/ virology
Adolescent
Nasopharynx
/ virology
Young Adult
Aged
Sequence Analysis, DNA
Genetic Variation
DNA, Viral
/ genetics
adenovirus
coinfections
evolution
genome
human bocavirus
Journal
Journal of medical virology
ISSN: 1096-9071
Titre abrégé: J Med Virol
Pays: United States
ID NLM: 7705876
Informations de publication
Date de publication:
Jun 2024
Jun 2024
Historique:
revised:
03
05
2024
received:
07
02
2024
accepted:
13
05
2024
medline:
18
6
2024
pubmed:
18
6
2024
entrez:
18
6
2024
Statut:
ppublish
Résumé
The diversity and evolution of the genomes of human bocavirus (HBoV), which causes respiratory diseases, have been scarcely studied. Here, we aimed to obtain and characterize HBoV genomes from patients's nasopharyngeal samples collected between 2017 and 2022 period (5 years and 7 months). Next-generation sequencing (NGS) used Illumina technology after having implemented using GEMI an in-house multiplex PCR amplification strategy. Genomes were assembled and analyzed with CLC Genomics, Mafft, BioEdit, MeV, Nextclade, MEGA, and iTol. A total of 213 genomes were obtained. Phylogeny classified them all as of Bocavirus 1 (HBoV1) species. Five HBoV1 genotypic clusters determined by hierarchical clustering analysis of 27 variable genome positions were scattered over the study period although with differences in yearly prevalence. A total of 167 amino acid substitutions were detected. Besides, coinfection was observed for 52% of the samples, rhinoviruses then adenoviruses (HAdVs) being the most common viruses. Principal component analysis showed that HBoV1 genotypic cluster α tended to be correlated with HAdV co-infection. Subsequent HAdV typing for HBoV1-positive samples and negative controls demonstrated that HAdVC species predominated but HAdVB was that significantly HBoV1-associated. Overall, we described here the first HBoV1 genomes sequenced for France. HBoV1 and HAdVB association deserves further investigation.
Substances chimiques
DNA, Viral
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
e29706Subventions
Organisme : Agence Nationale de la Recherche
Informations de copyright
© 2024 The Author(s). Journal of Medical Virology published by Wiley Periodicals LLC.
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