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Web Visualization for Spatiotemporal Genomic Epidemiology, Annotation, and Mutation Dynamics of Orthohantavirus hantanense Using Nextstrain

Kyungmin Park Department of Microbiology, Korea University College of Medicine, Seoul, Republic of Korea;
BK21 Graduate Program, Department of Biomedical Sciences, Korea University College of Medicine, Seoul, Republic of Korea;

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Kijin Kim Centre for Infectious Disease Genomics and One Health, Faculty of Health Sciences, Simon Fraser University, Burnaby, Canada;
Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, Canada;

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Jongwoo Kim Department of Microbiology, Korea University College of Medicine, Seoul, Republic of Korea;
BK21 Graduate Program, Department of Biomedical Sciences, Korea University College of Medicine, Seoul, Republic of Korea;

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Juyoung Noh Department of Microbiology, Korea University College of Medicine, Seoul, Republic of Korea;
BK21 Graduate Program, Department of Biomedical Sciences, Korea University College of Medicine, Seoul, Republic of Korea;

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Seong-Gyu Kim Department of Microbiology, Korea University College of Medicine, Seoul, Republic of Korea;
BK21 Graduate Program, Department of Biomedical Sciences, Korea University College of Medicine, Seoul, Republic of Korea;

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Hee-Kyung Cho Department of Microbiology, Korea University College of Medicine, Seoul, Republic of Korea;
BK21 Graduate Program, Department of Biomedical Sciences, Korea University College of Medicine, Seoul, Republic of Korea;

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Ye-rin Seo Department of Microbiology, Korea University College of Medicine, Seoul, Republic of Korea;

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Jin Il Kim Department of Microbiology, Korea University College of Medicine, Seoul, Republic of Korea;
BK21 Graduate Program, Department of Biomedical Sciences, Korea University College of Medicine, Seoul, Republic of Korea;
Department of Microbiology, Institute for Viral Diseases, College of Medicine, Korea University, Seoul, Republic of Korea;

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Man-Seong Park Department of Microbiology, Korea University College of Medicine, Seoul, Republic of Korea;
BK21 Graduate Program, Department of Biomedical Sciences, Korea University College of Medicine, Seoul, Republic of Korea;
Department of Microbiology, Institute for Viral Diseases, College of Medicine, Korea University, Seoul, Republic of Korea;

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Won-Keun Kim Department of Microbiology, College of Medicine, Hallym University, Chuncheon, Republic of Korea;
Institute of Medical Research, College of Medicine, Hallym University, Chuncheon, Republic of Korea

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Jin-Won Song Department of Microbiology, Korea University College of Medicine, Seoul, Republic of Korea;
BK21 Graduate Program, Department of Biomedical Sciences, Korea University College of Medicine, Seoul, Republic of Korea;

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DOI:
https://doi.org/10.4269/ajtmh.24-0432
Volume/Issue:
Volume 112: Issue 4
Page(s):
871–874
Restricted access
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ABSTRACT.

The phylogeographic inference approach aims to connect genomic data with epidemiology to understand the spread and evolution of pathogens using visualization of spatiotemporal reconstructions. Orthohantavirus hantanense (HTNV), the causative agent of hemorrhagic fever with renal syndrome (HFRS), represents a significant global public health concern. Here, we introduce a localized Nextstrain platform for HTNV, offering a comprehensive resource for facilitating spatiotemporal genomic surveillance and the study of evolutionary dynamics of viral genomes. Nextstrain enables web-based visualization and simple sharing of graphic and numeric data through unique web addresses. The Nextstrain build for HTNV stands out for its user-friendly interface and is readily accessible online at https://nextstrain.org/community/KU-MV/Hantavirus. This study provides valuable insights into genomic surveillance, viral phylodynamics, and the evolutionary history of orthohantaviruses for the development of public health policies against endemic HFRS outbreaks.

Author Notes

Financial support: This work was supported by the National Research Foundation of Korea funded by the Korean Government (Grant no. 2023R1A2C2006105), the Ministry of Science and Information and Communication Technology (Grant no. NRF2017M3A9E4061992), and the Institute for Basic Science (Project code no. IBS-R801-D9-A03). In addition, this study was partially funded by the Basic Research Program through the National Research Foundation of Korea funded by the Ministry of Education (Grant no. NRF-2021R1I1A2049607). The funders had no role in the study design, data collection and analysis, decision to publish, or preparation of the manuscript.

Authors’ contributions: The principal investigator was J.-W. Song. Conceptualization and methodology were carried out by K. Park and K. Kim. The investigators included J. Kim, J. Noh, S.-G. Kim, H.-K. Cho, and Y.-r. Seo. Data curation and formal analysis were conducted by K. Park. Investigation and resources were provided by J. Kim, J. Noh, S.-G. Kim, H.-K. Cho, and Y.-r. Seo. Visualization was provided by K. Park and K. Kim. Supervision was provided by J. I. Kim, M.-S. Park, W.-K. Kim, and J.-W. Song. Publication management was provided by J.-W. Song. All authors made a significant intellectual contribution to the development of this article and approved the final draft of the manuscript for submission.

Current contact information: Kyungmin Park, Jongwoo Kim, Juyoung Noh, Seong-Gyu Kim, Hee-Kyung Cho, Jin Il Kim, Man-Seong Park, and Jin-Won Song, Department of Microbiology, Korea University College of Medicine, Seoul, Republic of Korea, E-mails: kmpark0131@korea.ac.kr, hotdog442@korea.ac.kr, wnduddlk@korea.ac.kr, sgagl@korea.ac.kr, chohee98@korea.ac.kr, jinil_kim@korea.ac.kr, ms0392@korea.ac.kr, and jwsong@korea.ac.kr. Kijin Kim, Centre for Infectious Disease Genomics and One Health, Faculty of Health Sciences, Simon Fraser University, Burnaby, Canada, E-mail: kijin_kim@sfu.ca. Ye-rin Seo, Department of Preventive Medicine, Korea University College of Medicine, Seoul, Republic of Korea, E-mail: yrseo@korea.ac.kr. Won-Keun Kim, Department of Microbiology, College of Medicine, Hallym University, Chuncheon, Republic of Korea, E-mail: wkkim1061@hallym.ac.kr.

Address correspondence to Jin-Won Song, Department of Microbiology, College of Medicine, Korea University, 73, Goryeodae-ro, Seongbuk-gu, Seoul 02841, Republic of Korea. E-mail: jwsong@korea.ac.kr
Copyright:
© American Society of Tropical Medicine and Hygiene 2025
Received:
27 Jun 2024
|
Accepted:
08 Nov 2024
|
Published Online:
28 Jan 2025
Cover The American Journal of Tropical Medicine and Hygiene
The American Journal of Tropical Medicine and Hygiene
Print ISSN:
0002-9637
Online ISSN:
1476-1645
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