scholarly journals A novel genotype of Hantaan orthohantavirus harbored by Apodemus agrarius chejuensis as a potential etiologic agent of hemorrhagic fever with renal syndrome in Republic of Korea

2021 ◽  
Vol 15 (5) ◽  
pp. e0009400
Author(s):  
Kyungmin Park ◽  
Won-Keun Kim ◽  
Seung-Ho Lee ◽  
Jongwoo Kim ◽  
Jingyeong Lee ◽  
...  
Keyword(s):  
Phylogenetic Analyses ◽  
Hemorrhagic Fever ◽  
Etiologic Agent ◽  
Jeju Island ◽  
Etiological Agent ◽  
Republic Of Korea ◽  
Hantaan Virus ◽  
Genomic Sequences ◽  
Mortality And Morbidity ◽  
Apodemus Agrarius

Background Orthohantaviruses, causing hemorrhagic fever with renal syndrome (HFRS) and hantavirus cardiopulmonary syndrome, pose a significant public health threat worldwide. Despite the significant mortality and morbidity, effective antiviral therapeutics or vaccines for orthohantavirus infections are currently unavailable. This study aimed to investigate the prevalence of HFRS-associated orthohantaviruses and identify the etiological agent of orthohantavirus outbreaks in southern Republic of Korea (ROK). Methodology/Principal findings We collected small mammals on Jeju Island during 2018–2020. We detected the Hantaan virus (HTNV)-specific antibodies and RNA using an indirect immunofluorescence assay test and reverse transcription-polymerase chain reaction on Apodemus agrarius chejuensis (A. chejuensis). The prevalence of anti-HTNV antibodies among rodents was 14.1%. A total of six seropositive mice harbored HTNV RNA. The amplicon-based next-generation sequencing provided nearly full-length tripartite genomic sequences of six HTNV harbored by A. chejuensis. Phylogenetic and tanglegram analyses were conducted for inferring evolutionary relationships between orthohantaviruses with their reservoir hosts. Phylogenetic analyses identified a novel distinct HTNV genotype. The detected HTNV genomic sequences were phylogenetically related to a viral sequence derived from HFRS patient in southern ROK. Tanglegram analysis demonstrated the segregation of HTNV genotypes corresponding to Apodemus spp. divergence. Conclusions/Significance Our results suggest that A. chejuensis-borne HTNV may be a potential etiological agent of HFRS in southern ROK. Ancestral HTNV may infect A. chejuensis prior to geological isolation between the Korean peninsula and Jeju Island, supporting the co-evolution of orthohantaviruses and rodents. This study arises awareness among physicians for HFRS outbreaks in southern ROK.

scholarly journals Multiplex PCR-Based Nanopore Sequencing and Epidemiological Surveillance of Hantaan orthohantavirus in Apodemus agrarius, Republic of Korea

Viruses ◽  
2021 ◽  
Vol 13 (5) ◽  
pp. 847
Author(s):  
Kyungmin Park ◽  
Seung-Ho Lee ◽  
Jongwoo Kim ◽  
Jingyeong Lee ◽  
Geum-Young Lee ◽  
...  
Keyword(s):  
Whole Genome Sequencing ◽  
Genome Sequencing ◽  
Republic Of Korea ◽  
Hantaan Virus ◽  
Genomic Sequences ◽  
Whole Genome ◽  
Nanopore Sequencing ◽  
Apodemus Agrarius ◽  
Copy Numbers ◽  
Nanopore Sequencer

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.

Intraspecific Transmission of Hantaan Virus, Etiologic Agent of Korean Hemorrhagic Fever, in the Rodent Apodemus agrarius

1981 ◽  
Vol 30 (5) ◽  
pp. 1106-1112 ◽  
Author(s):  
Ho Wang Lee ◽  
In Wha Seong ◽  
Luck Ju Baek ◽  
Cheol Kun Song ◽  
Pyung Woo Lee
Keyword(s):  
Hemorrhagic Fever ◽  
Etiologic Agent ◽  
Hantaan Virus ◽  
Apodemus Agrarius

Positive serological evidence that Hantaan virus, the etiologic agent of hemorrhagic fever with renal syndrome, is endemic in Canada

1984 ◽  
Vol 30 (9) ◽  
pp. 1137-1140 ◽  
Author(s):  
Ho Wang Lee ◽  
In Wha Seong ◽  
Luck Ju Baek ◽  
Donald A. McLeod ◽  
Jeong Sun Seo ◽  
...  
Keyword(s):  
Age Groups ◽  
Hemorrhagic Fever ◽  
Etiologic Agent ◽  
National Average ◽  
Hantaan Virus ◽  
Serological Evidence ◽  
Atlantic Region ◽  
Antibody Technique ◽  
The World ◽  
Indirect Immunofluorescent

Hemorrhagic fever with renal syndrome is endemic in most parts of the world. The etiological agent in known as Hantaan virus. More than 2000 Canadian sera from all age groups and provinces were tested for the presence of antibody to this virus by the indirect immunofluorescent antibody technique. The frequency of seropositivity ranged from 0.3 to 4.0%, with the national average being 1.4%. Newfoundland and New Brunswick in the Atlantic region had the highest positivity, being higher than hyperendemic areas in Korea. The inland provinces of Ontario, Manitoba, and Alberta had only 0.5% positives to Hantaan virus. In contrast, approximately 1.5% of sera from Saskatchewan, Quebec, and British Columbia were positive. No correlation in positivity was found between geography or sex, but positivity did increase with age. The highest titres were found in the group aged 65 to 93 years.

scholarly journals Urinary genome detection and tracking of Hantaan virus from hemorrhagic fever with renal syndrome patients using multiplex PCR-based next-generation sequencing

2021 ◽  
Vol 15 (9) ◽  
pp. e0009707
Author(s):  
Seungchan Cho ◽  
Won-Keun Kim ◽  
Jin Sun No ◽  
Seung-Ho Lee ◽  
Jaehun Jung ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Multiplex Pcr ◽  
Phylogenetic Analyses ◽  
Hemorrhagic Fever ◽  
Hantaan Virus ◽  
Hantavirus Infection ◽  
Next Generation ◽  
Genome Sequences ◽  
Generation Sequencing ◽  
Urine Specimens

Background Hantavirus infection occurs through the inhalation of aerosolized excreta, including urine, feces, and saliva of infected rodents. The presence of Hantaan virus (HTNV) RNA or infectious particles in urine specimens of patient with hemorrhagic fever with renal syndrome (HFRS) remains to be investigated. Methodology/Principal findings We collected four urine and serum specimens of Republic of Korea Army (ROKA) patients with HFRS. We performed multiplex PCR-based next-generation sequencing (NGS) to obtain the genome sequences of clinical HTNV in urine specimens containing ultra-low amounts of viral genomes. The epidemiological and phylogenetic analyses of HTNV demonstrated geographically homogenous clustering with those in Apodemus agrarius captured in highly endemic areas, indicating that phylogeographic tracing of HTNV genomes reveals the potential infection sites of patients with HFRS. Genetic exchange analyses showed a genetic configuration compatible with HTNV L segment exchange in nature. Conclusion/Significance Our results suggest that whole or partial genome sequences of HTNV from the urine enabled to track the putative infection sites of patients with HFRS by phylogeographically linking to the zoonotic HTNV from the reservoir host captured at endemic regions. This report raises awareness among physicians for the presence of HTNV in the urine of patients with HFRS.

Geographical clustering of hantavirus isolates from Apodemus agrarius identified in the Republic of Korea indicate the emergence of a new hantavirus genotype

2020 ◽  
Author(s):  
Sehrish Jalal ◽  
Choon-Mee Kim ◽  
Dong-Min Kim ◽  
Hyeon Je Song ◽  
Jeong-Chi Lee ◽  
...  
Keyword(s):  
Republic Of Korea ◽  
Hantaan Virus ◽  
Nested Polymerase Chain Reaction ◽  
Apodemus Agrarius ◽  
Distinct Cluster ◽  
Polymerase Chain ◽  
Geographical Clustering ◽  
The Republic ◽  
Pcr Targeting ◽  
Viral Isolates

Abstract Background Several studies on hantavirus evolution have shown that genetic reassortment plays an important role in the evolution and epidemiology of this disease. Hantaan virus, a prototype hantavirus carried by Apodemus agrarius, is found throughout China, Russia, and Korea. The aim of this study was to investigate the distribution of hantaviruses in rodents in the Republic of Korea (ROK) and perform phylogenetic comparisons using the geographical distribution of their natural reservoir rodent hosts as a point of reference.Methodology To understand the genetic epidemiology of human pathogenic hantaviruses, we examined viral isolates from rodent reservoirs, captured at three different locations in the ROK, between 2017 and 2018. Each sample collected was subjected to reverse-transcription nested polymerase chain reaction (RT-N-PCR) targeting the L- and S-segments of the hantavirus genome. Positive isolates from Gwangju, Boseong-gun (Jeollanam-do Province), and Jeju Island were confirmed as Hantaan virus using DNA sequencing.Results Phylogenetic analysis showed that all isolates grouped together as Hantaan virus. The isolates from Jeju, Boseong-gun, and Gwangju tended to cluster together, but with each region forming a distinct cluster. In addition, these three clusters were distinct from other Hantaan isolates reported in previous studies from Korea and its neighboring countries China and Russia. This suggests the emergence of a new hantavirus genotype in southwestern ROK.Conclusion Hantaan viruses exhibit a considerable degree of geographical clustering, and there may be a novel Hantaan genotype in southwestern ROK. This study helps expand our knowledge regarding the emergence of new hantavirus strains and their degree of geographical variation.

Elevated sICAM-1 levels in patients with hemorrhagic fever with renal syndrome caused by Hantaan virus

2010 ◽  
Vol 29 (12) ◽  
pp. 1507-1511 ◽  
Author(s):  
Qunying Han ◽  
Lei Zhang ◽  
Zhengwen Liu ◽  
Wen Kang ◽  
Sai Lou ◽  
...  
Keyword(s):  
Hemorrhagic Fever ◽  
Hantaan Virus

A Phase 1 clinical trial of Hantaan virus and Puumala virus M-segment DNA vaccines for hemorrhagic fever with renal syndrome

Vaccine ◽  
2012 ◽  
Vol 30 (11) ◽  
pp. 1951-1958 ◽  
Author(s):  
Ellen F. Boudreau ◽  
Matthew Josleyn ◽  
Diane Ullman ◽  
Diana Fisher ◽  
Lonnie Dalrymple ◽  
...  
Keyword(s):  
Clinical Trial ◽  
Dna Vaccines ◽  
Phase 1 ◽  
Hemorrhagic Fever ◽  
Hantaan Virus ◽  
Puumala Virus ◽  
Phase 1 Clinical Trial

Mariniflexile maritimum sp. nov., isolated from seawater of the South Sea in the Republic of Korea

2021 ◽  
Vol 71 (7) ◽  
Author(s):  
So-Ra Ko ◽  
Ve Van Le ◽  
Long Jin ◽  
Sang-Ah Lee ◽  
Chi-Yong Ahn ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Republic Of Korea ◽  
Rrna Gene ◽  
The South ◽  
Content Type ◽  
Link Type ◽  
South Sea ◽  
The Republic

A novel Gram-stain-negative, rod-shaped, aerobic, non-motile bacterial strain, designated M5A1MT, was isolated from seawater collected from the South Sea of the Republic of Korea. Based on 16S rRNA gene sequence similarity, strain M5A1MT was closely related to Mariniflexile gromovii KMM 6038T (95.3 %), Mariniflexile fucanivorans SW5T (95.2 %), Mariniflexile soesokkakense RSSK-9T (95.1 %), Yeosuana aromativorans GW1-1T (94.6 %) and Confluentibacter lentus HJM-3T (94.6 %). Genome-based phylogenetic analyses revealed that strain M5A1MT formed a distinct cluster with the type strains of the genus Mariniflexile . The major cellular fatty acid constituents (>5 % of the total fatty acids) were iso-C15:0, anteiso-C15 : 0, iso-C15 : 0 3-OH, iso-C15 : 1 G, iso-C16:03-OH and iso-C17 : 0 3-OH. The respiratory quinone was identified as MK-6. The major polar lipids were phosphatidylethanolamine and one unidentified polar lipid. The genomic DNA G+C content of strain M5A1MT was determined to be 37.7 mol%. On the basis of its phenotypic, phylogenetic and chemotaxonomic characteristics, strain M5A1MT is considered to represent a novel species within the genus Mariniflexile , for which the name Mariniflexile maritimum sp. nov. is proposed. The type strain is M5A1MT (=KCTC 72895T=JCM 33982T).

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