Korea University College of Medicine Identifies Hantavirus in South Korea Using a New Rapid Test, Paving Way for Early Outbreak Control 

 

 

Research unveils cost-efficient Flongle sequencing's potential for rapid hantavirus genome-based diagnostics and phylogeographical surveillance

Orthohantaviruses, causing hemorrhagic fever and renal syndrome (HFRS), pose a global health threat. HFRS outbreaks, caused by orthohantaviruses like Hantaan orthohantavirus (HTNV) are prevalent in Gyeonggi Province, Republic of Korea. To address this growing concern, researchers utilized Flongle sequencing as a cost-efficient and rapid method to obtain complete genomic sequences of HTNV, shedding light on its prevalence, genetic diversity, and phylogeography in HFRS-endemic areas.

Image title: : Flongle Sequencing for Enhanced HTNV Surveillance in Gyeonggi, Republic of Korea
Image caption: : Insights from novel HTNV rapid amplicon-based Flongle sequencing helps enhance preparedness in HFRS-endemic areas and contribute to a high-resolution phylogeographical map of Hantaan orthohantavirus
Image credit: Jin-Won Song from Korea University College of Medicine
License type: Original Content
Usage restrictions: Cannot be reused without permission

Orthohantaviruses, highly transmissible zoonotic pathogens, are notorious for causing hemorrhagic fever with renal syndrome (HFRS) in Eurasia and hantavirus cardiopulmonary syndrome in the Americas. With a significant impact on public health, they have been extensively researched for effective outbreak control and intervention strategies. Gyeonggi Province in South Korea has reported a significant number of HFRS cases, making it a critical area for epidemiological surveillance and understanding the genomic diversity of orthohantaviruses.

To gain insights into the prevalence, viral loads, and genetic variations of Hantaan orthohantavirus (HTNV), a team of researchers led by Prof. Jin-Won Song from the Department of Microbiology, Korea University College of Medicine, conducted a study in Gyeonggi Province. Notably, the study showcased the application of Flongle sequencing, an innovative, cost-efficient, and rapid method, for detecting HTNV genomes. “We developed a rapid and sensitive on-site diagnostic using a nanopore-based Flongle chip with a reasonable cost of around $100. This approach enables virtually whole-genome sequencing of HTNV within 3 hours,” explains Prof. Song. Their work culminated in a research paper, released online on January 4, 2024 and published in Volume 96, Issue 1 of the Journal of Medical Virology in January 2024.

The study's approach is rooted in the adoption of next-generation sequencing technologies, with a spotlight on the Oxford MinION nanopore sequencer. The comprehensive sampling strategy involved the capture of rodents and shrews from diverse regions in the ROK using live traps. Subsequently, the team employed a multifaceted approach, incorporating mitochondrial DNA analysis, indirect immunofluorescence antibody tests, and various molecular methods for species identification and virus detection. This comprehensive methodology facilitated a thorough understanding of viral prevalence and genetic diversity.

The epidemiological surveillance conducted in Gyeonggi Province from 2017 to 2018 uncovered a significant proportion of Apodemus agrarius, a common rodent species. Notably, 12.4% of A. agrarius displayed seropositivity for HTNV, showcasing the virus's presence in the region. Flongle sequencing proved instrumental in obtaining full-length genomic sequences from positive samples, with impressive coverage rates and accuracy comparable to Illumina sequencing. The phylogeographical analysis uncovers well-supported evolutionary divergence among HTNV tripartite genomes. Genetic clustering and incongruences in evolutionary patterns emphasize the virus's differential evolution for each genomic segment.

Prof. Song emphasizes the significance of this research by stating, "We believe our findings provide important insights into on-site diagnostics, genome-based surveillance, and the evolutionary dynamics of orthohantaviruses to mitigate hantaviral outbreaks in HFRS-endemic areas in the ROK. Our study pioneers the integration of cost-efficient Flongle sequencing into hantavirus diagnostics, offering a rapid and accurate tool for on-site detection. This innovation has the potential to transform how we approach and manage hantavirus outbreaks."

While the study provides groundbreaking insights, researchers acknowledge certain limitations, including the need for further sensitivity testing of Flongle-based diagnostics and more extensive genomic and epidemiological data in certain endemic areas.

This research marks a significant step forward in our understanding of orthohantaviruses, laying the foundation for more targeted control strategies against HFRS outbreaks. The findings emphasize the pivotal role of genomics in disease surveillance and offer hope for more effective responses to emerging infectious agents in the future.

Reference
Title of original paper:High-resolution phylogeographical surveillance of Hantaan orthohantavirus using rapid amplicon-based Flongle sequencing, Republic of Korea
Journal:Journal of Medical Virology
DOI: 10.1002/jmv.29346

About the Korea University Medicine
Korea University College of Medicine is the medical school of Korea University. It is located in Seoul, South Korea. As one of the oldest medical schools in South Korea, it has been historically regarded as one of the country's top medical schools. The school was founded as Chosun Women's Medical Training Institute in 1928 by Rosetta Sherwood Hall. The institute was subsequently renamed several times and ultimately merged with Korea University to become Korea University College of Medicine. So far, the school has produced over 7,000 graduates, most of whom are working as prominent physicians and public health advocates worldwide. Website: https://medicine.korea.ac.kr/en/index.do

About the author
Prof. Jin-Won Song is a world-renowned researcher in the field of virology, focusing on genome epidemiology and surveillance against emerging zoonotic pathogens. With a broad background in medicine and microbiology, he possesses special skills and expertise in research and the analysis of next-generation sequencing data related to virological and genomic epidemiology aspects of infectious diseases in humans. He served as the president of International Society for Hantaviruses from 2019 to 2023. Due to outstanding achievements, he was elected as a member of National Academy of Sciences, Republic of Korea, and National Academy of Medicine of Korea.