Genomic analysis of serologically untypable human enteroviruses in Taiwan.
J Biomed Sci
; 26(1): 49, 2019 Jul 03.
Article
em En
| MEDLINE
| ID: mdl-31266491
ABSTRACT
BACKGROUND:
Human enteroviruses contain over 100 serotypes. We have routinely conducted enterovirus surveillance in northern Taiwan; but about 10% of isolates could not be serotyped using traditional assays. Next-generation sequencing (NGS) is a powerful tool for genome sequencing.METHODS:
In this study, we established an NGS platform to conduct genome sequencing for the serologically untypable enterovirus isolates.RESULTS:
Among 130 serologically untypable isolates, 121 (93%) of them were classified into 29 serotypes using CODEHOP (COnsensus-DEgenerate Hybrid Oligonucleotide Primer)-based RT-PCR to amplify VP1 genes (VP1-CODEHOP). We further selected 52 samples for NGS and identified 59 genome sequences from 51 samples, including 8 samples containing two virus genomes. We also detected 23 genome variants (nucleotide identity < 90% compared with genome sequences in the public domain) which were potential genetic recombination, including 9 inter-serotype recombinants and 14 strains with unknown sources of recombination.CONCLUSIONS:
We successfully integrated VP1-CODEHOP and NGS techniques to conduct genomic analysis of serologically untypable enteroviruses.Palavras-chave
Texto completo:
1
Base de dados:
MEDLINE
Assunto principal:
Genoma Viral
/
Enterovirus
/
Sorogrupo
Limite:
Humans
País como assunto:
Asia
Idioma:
En
Ano de publicação:
2019
Tipo de documento:
Article