Comparison of targeted next-generation sequencing for whole- genome sequencing of Hantaan orthohantavirus in Apodemus agrarius lung tissues
DC Field | Value | Language |
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dc.contributor.author | No, Jin Sun | - |
dc.contributor.author | Kim, Won-Keun | - |
dc.contributor.author | Cho, Seungchan | - |
dc.contributor.author | Lee, Seung-Ho | - |
dc.contributor.author | Kim, Jeong-Ah | - |
dc.contributor.author | Lee, Daesang | - |
dc.contributor.author | Song, Dong Hyun | - |
dc.contributor.author | Gu, Se Hun | - |
dc.contributor.author | Jeong, Seong Tae | - |
dc.contributor.author | Wiley, Michael R. | - |
dc.contributor.author | Palacios, Gustavo | - |
dc.contributor.author | Song, Jin-Won | - |
dc.date.accessioned | 2021-08-31T23:32:11Z | - |
dc.date.available | 2021-08-31T23:32:11Z | - |
dc.date.created | 2021-06-18 | - |
dc.date.issued | 2019-11-12 | - |
dc.identifier.issn | 2045-2322 | - |
dc.identifier.uri | https://scholar.korea.ac.kr/handle/2021.sw.korea/61898 | - |
dc.description.abstract | Orthohantaviruses, negative-sense single-strand tripartite RNA viruses, are a global public health threat. In humans, orthohantavirus infection causes hemorrhagic fever with renal syndrome or hantavirus cardiopulmonary syndrome. Whole-genome sequencing of the virus helps in identification and characterization of emerging or re-emerging viruses. Next-generation sequencing (NGS) is a potent method to sequence the viral genome, using molecular enrichment methods, from clinical specimens containing low virus titers. Hence, a comparative study on the target enrichment NGS methods is required for whole-genome sequencing of orthohantavirus in clinical samples. In this study, we used the sequence-independent, single-primer amplification, target capture, and amplicon NGS for whole-genome sequencing of Hantaan orthohantavirus (HTNV) from rodent specimens. We analyzed the coverage of the HTNV genome based on the viral RNA copy number, which is quantified by real-time quantitative PCR. Target capture and amplicon NGS demonstrated a high coverage rate of HTNV in Apodemus agrarius lung tissues containing up to 10(3)-10(4) copies/mu L of HTNV RNA. Furthermore, the amplicon NGS showed a 10-fold (10(2) copies/mu L) higher sensitivity than the target capture NGS. This report provides useful insights into target enrichment NGS for whole-genome sequencing of orthohantaviruses without cultivating the viruses. | - |
dc.language | English | - |
dc.language.iso | en | - |
dc.publisher | NATURE PUBLISHING GROUP | - |
dc.subject | VIRUS | - |
dc.subject | AMPLIFICATION | - |
dc.subject | DIVERSITY | - |
dc.subject | TRANSMISSION | - |
dc.subject | EVOLUTION | - |
dc.subject | INFECTION | - |
dc.subject | ORIGINS | - |
dc.subject | CLONING | - |
dc.subject | ZIKA | - |
dc.title | Comparison of targeted next-generation sequencing for whole- genome sequencing of Hantaan orthohantavirus in Apodemus agrarius lung tissues | - |
dc.type | Article | - |
dc.contributor.affiliatedAuthor | Cho, Seungchan | - |
dc.contributor.affiliatedAuthor | Song, Jin-Won | - |
dc.identifier.doi | 10.1038/s41598-019-53043-2 | - |
dc.identifier.scopusid | 2-s2.0-85074958747 | - |
dc.identifier.wosid | 000495857600085 | - |
dc.identifier.bibliographicCitation | SCIENTIFIC REPORTS, v.9 | - |
dc.relation.isPartOf | SCIENTIFIC REPORTS | - |
dc.citation.title | SCIENTIFIC REPORTS | - |
dc.citation.volume | 9 | - |
dc.type.rims | ART | - |
dc.type.docType | Article | - |
dc.description.journalClass | 1 | - |
dc.description.journalRegisteredClass | scie | - |
dc.description.journalRegisteredClass | scopus | - |
dc.relation.journalResearchArea | Science & Technology - Other Topics | - |
dc.relation.journalWebOfScienceCategory | Multidisciplinary Sciences | - |
dc.subject.keywordPlus | VIRUS | - |
dc.subject.keywordPlus | AMPLIFICATION | - |
dc.subject.keywordPlus | DIVERSITY | - |
dc.subject.keywordPlus | TRANSMISSION | - |
dc.subject.keywordPlus | EVOLUTION | - |
dc.subject.keywordPlus | INFECTION | - |
dc.subject.keywordPlus | ORIGINS | - |
dc.subject.keywordPlus | CLONING | - |
dc.subject.keywordPlus | ZIKA | - |
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