{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,24]],"date-time":"2026-07-24T06:10:03Z","timestamp":1784873403105,"version":"3.55.0"},"reference-count":60,"publisher":"MDPI AG","issue":"5","license":[{"start":{"date-parts":[[2021,5,6]],"date-time":"2021-05-06T00:00:00Z","timestamp":1620259200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100003725","name":"National Research Foundation of Korea","doi-asserted-by":"publisher","award":["NRF-2017M3A9E4061992"],"award-info":[{"award-number":["NRF-2017M3A9E4061992"]}],"id":[{"id":"10.13039\/501100003725","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100003725","name":"National Research Foundation of Korea","doi-asserted-by":"publisher","award":["NRF-2019R1I1A2A01060902"],"award-info":[{"award-number":["NRF-2019R1I1A2A01060902"]}],"id":[{"id":"10.13039\/501100003725","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100005073","name":"Agency for Defense Development","doi-asserted-by":"publisher","award":["UE202026GD"],"award-info":[{"award-number":["UE202026GD"]}],"id":[{"id":"10.13039\/501100005073","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Armed Forces Health Surveillance Branch, Global Emerging Infections Surveillance and Response System","award":["AFHSB-GEIS"],"award-info":[{"award-number":["AFHSB-GEIS"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Viruses"],"abstract":"<jats:p>Whole-genome sequencing of infectious agents enables the identification and characterization of emerging viruses. The MinION device is a portable sequencer that allows real-time sequencing in fields or hospitals. Hantaan orthohantavirus (Hantaan virus, HTNV), harbored by Apodemus agrarius, causes hemorrhagic fever with renal syndrome (HFRS) and poses a critical public health threat worldwide. In this study, we aimed to evaluate the feasibility of using nanopore sequencing for whole-genome sequencing of HTNV from samples having different viral copy numbers. Amplicon-based next-generation sequencing was performed in A. agrarius lung tissues collected from the Republic of Korea. Genomic sequences of HTNV were analyzed based on the viral RNA copy numbers. Amplicon-based nanopore sequencing provided nearly full-length genomic sequences of HTNV and showed sufficient read depth for phylogenetic analysis after 8 h of sequencing. The average identity of the HTNV genome sequences for the nanopore sequencer compared to those of generated from Illumina MiSeq revealed 99.8% (L and M segments) and 99.7% (S segment) identities, respectively. This study highlights the potential of the portable nanopore sequencer for rapid generation of accurate genomic sequences of HTNV for quicker decision making in point-of-care testing of HFRS patients during a hantavirus outbreak.<\/jats:p>","DOI":"10.3390\/v13050847","type":"journal-article","created":{"date-parts":[[2021,5,7]],"date-time":"2021-05-07T22:36:24Z","timestamp":1620426984000},"page":"847","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":27,"title":["Multiplex PCR-Based Nanopore Sequencing and Epidemiological Surveillance of Hantaan orthohantavirus in Apodemus agrarius, Republic of Korea"],"prefix":"10.3390","volume":"13","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-2132-0674","authenticated-orcid":false,"given":"Kyungmin","family":"Park","sequence":"first","affiliation":[{"name":"BK21 Graduate Program, Department of Biomedical Sciences, Korea University College of Medicine, Seoul 02841, Korea"},{"name":"Department of Microbiology, Korea University College of Medicine, Seoul 02841, Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7840-422X","authenticated-orcid":false,"given":"Seung-Ho","family":"Lee","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Korea University College of Medicine, Seoul 02841, Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jongwoo","family":"Kim","sequence":"additional","affiliation":[{"name":"BK21 Graduate Program, Department of Biomedical Sciences, Korea University College of Medicine, Seoul 02841, Korea"},{"name":"Department of Microbiology, Korea University College of Medicine, Seoul 02841, Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6632-6244","authenticated-orcid":false,"given":"Jingyeong","family":"Lee","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Korea University College of Medicine, Seoul 02841, Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Geum-Young","family":"Lee","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Korea University College of Medicine, Seoul 02841, Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Seungchan","family":"Cho","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Korea University College of Medicine, Seoul 02841, Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Seung Ho","family":"Lee","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Korea University College of Medicine, Seoul 02841, Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kkothanahreum","family":"Park","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Korea University College of Medicine, Seoul 02841, Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jin Sun","family":"No","sequence":"additional","affiliation":[{"name":"Division of High-Risk Pathogens, Bureau of Infectious Diseases Diagnosis Control, Korea Disease Control and Prevention Agency, Cheongju 28726, Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5941-1600","authenticated-orcid":false,"given":"Shailesh","family":"Budhathoki","sequence":"additional","affiliation":[{"name":"Department of Microbiology, College of Medicine, Hallym University, Chuncheon 24252, Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yu-Jin","family":"Kim","sequence":"additional","affiliation":[{"name":"Department of Preventive Medicine, Army Headquarters, Gyeryong 32800, Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Young-Su","family":"Kim","sequence":"additional","affiliation":[{"name":"Gangwon Institute of Health and Environment, Infectious Disease Research Department, Chuncheon 24203, Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7167-2045","authenticated-orcid":false,"given":"Heung-Chul","family":"Kim","sequence":"additional","affiliation":[{"name":"Force Health Protection and Preventive Medicine, MEDDAC-Korea, 65th Medical Brigade, Unit 15281, APO AP 96271-5281, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Terry A.","family":"Klein","sequence":"additional","affiliation":[{"name":"Force Health Protection and Preventive Medicine, MEDDAC-Korea, 65th Medical Brigade, Unit 15281, APO AP 96271-5281, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3178-8569","authenticated-orcid":false,"given":"Won-Keun","family":"Kim","sequence":"additional","affiliation":[{"name":"Department of Microbiology, College of Medicine, Hallym University, Chuncheon 24252, Korea"},{"name":"Institute of Medical Research, College of Medicine, Hallym University, Chuncheon 24252, Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jin-Won","family":"Song","sequence":"additional","affiliation":[{"name":"BK21 Graduate Program, Department of Biomedical Sciences, Korea University College of Medicine, Seoul 02841, Korea"},{"name":"Department of Microbiology, Korea University College of Medicine, Seoul 02841, Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2021,5,6]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"35","DOI":"10.1002\/rmv.1722","article-title":"Hantavirus infections in Europe and their impact on public health","volume":"23","author":"Vaheri","year":"2013","journal-title":"Revi. 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