dc.contributor.author | Chien, Yeh-Sheng | |
dc.contributor.author | Luo, Shu-Ting | |
dc.contributor.author | Tsao, Kuo-Chien | |
dc.contributor.author | Huang, Yhu-Chering | |
dc.contributor.author | Chung, Wan-Yu | |
dc.contributor.author | Liao, Yu-Chieh | |
dc.contributor.author | Tan, Yi | |
dc.contributor.author | Das, Suman R. | |
dc.contributor.author | Lee, Min-Sh | |
dc.date.accessioned | 2020-04-02T18:52:59Z | |
dc.date.available | 2020-04-02T18:52:59Z | |
dc.date.issued | 2019-07-03 | |
dc.identifier.citation | Chien, Y., Luo, S., Tsao, K. et al. Genomic analysis of serologically untypable human enteroviruses in Taiwan. J Biomed Sci 26, 49 (2019). https://doi.org/10.1186/s12929-019-0541-x | en_US |
dc.identifier.issn | 1021-7770 | |
dc.identifier.uri | https://ir.vanderbilt.edu/xmlui/handle/1803/9874 | |
dc.description.abstract | BackgroundHuman 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.MethodsIn this study, we established an NGS platform to conduct genome sequencing for the serologically untypable enterovirus isolates.ResultsAmong 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.ConclusionsWe successfully integrated VP1-CODEHOP and NGS techniques to conduct genomic analysis of serologically untypable enteroviruses. | en_US |
dc.description.sponsorship | This study was supported by funding from the National Health Research Institutes of Taiwan (06A1-IVPP12-014) and the National Flagship Project (MOST 106-3114-Y404-002). | en_US |
dc.language.iso | en_US | en_US |
dc.publisher | JOURNAL OF BIOMEDICAL SCIENCE | en_US |
dc.subject | Enterovirus | en_US |
dc.subject | Virus surveillance | en_US |
dc.subject | Molecular epidemiology | en_US |
dc.subject | Next-generation | en_US |
dc.subject | sequencing | en_US |
dc.subject | HUMAN PARECHOVIRUS | en_US |
dc.subject | MOUTH-DISEASE | en_US |
dc.subject | EVOLUTIONARY DYNAMICS | en_US |
dc.subject | COXSACKIEVIRUS A2 | en_US |
dc.subject | RECOMBINATION | en_US |
dc.subject | IDENTIFICATION | en_US |
dc.subject | CHILDREN | en_US |
dc.subject | HAND | en_US |
dc.subject | FOOT | en_US |
dc.subject | D68 | en_US |
dc.title | Genomic analysis of serologically untypable human enteroviruses in Taiwan | en_US |
dc.type | Article | en_US |