Discovery and genetic characterization of novel paramyxoviruses related to the genus henipavirus in crocidura species in the republic of Korea

Seung Ho Lee; Kijin Kim; Jongwoo Kim; Jin Sun No; Kyungmin Park; Shailesh Budhathoki; Seung Ho Lee; Jingyeong Lee; Seung Hye Cho; Seungchan Cho; Geum Young Lee; Jusun Hwang; Heung Chul Kim; Terry A. Klein; Chang Sub Uhm; Won Keun Kim; Jin Won Song

doi:10.3390/v13102020

Discovery and genetic characterization of novel paramyxoviruses related to the genus henipavirus in crocidura species in the republic of Korea

Seung Ho Lee, Kijin Kim, Jongwoo Kim, Jin Sun No, Kyungmin Park, Shailesh Budhathoki, Seung Ho Lee, Jingyeong Lee, Seung Hye Cho, Seungchan Cho, Geum Young Lee, Jusun Hwang, Heung Chul Kim, Terry A. Klein, Chang Sub Uhm, Won Keun Kim, Jin Won Song

Department of Biomedical Sciences

Research output: Contribution to journal › Article › peer-review

28 Citations (Scopus)

Abstract

Paramyxoviruses, negative-sense single-stranded RNA viruses, pose a critical threat to human public health. Currently, 78 species, 17 genera, and 4 subfamilies of paramyxoviruses are harbored by multiple natural reservoirs, including rodents, bats, birds, reptiles, and fish. Henipaviruses are critical zoonotic pathogens that cause severe acute respiratory distress and neurological diseases in humans. Using reverse transcription-polymerase chain reaction, 115 Crocidura species individuals were examined for the prevalence of paramyxovirus infections. Paramyxovirus RNA was observed in 26 (22.6%) shrews collected at five trapping sites, Republic of Korea. Herein, we report two genetically distinct novel paramyxoviruses (genus: Henipavirus): Gamak virus (GAKV) and Daeryong virus (DARV) isolated from C. lasiura and C. shantungensis, respectively. Two GAKVs and one DARV were nearly completely sequenced using next-generation sequencing. GAKV and DARV contain six genes (3’-N-P-M-F-G-L-5´) with genome sizes of 18,460 nucleotides and 19,471 nucleotides, respectively. The phylogenetic inference demonstrated that GAKV and DARV form independent genetic lineages of Henipavirus in Crocidura species. GAKV-infected human lung epithelial cells elicited the induction of type I/III interferons, interferon-stimulated genes, and proinflammatory cytokines. In conclusion, this study contributes further understandings of the molecular prevalence, genetic characteristics and diversity, and zoonotic potential of novel para-myxoviruses in shrews.

Original language	English
Article number	2020
Journal	Viruses
Volume	13
Issue number	10
DOIs	https://doi.org/10.3390/v13102020
Publication status	Published - 2021 Oct

Bibliographical note

Funding Information:
This study was supported by the Agency for Defense Development (UE202026GD). In addition, this research was supported by Basic Research Program through the National Research We thank Su-Am Kim and Hyebin Jeong for trapping the small mammals and preparing the figures, respectively. Data Availability Statement: All the data generated for this publication have been included in the Foundation of Korea (NRF) funded by the Ministry of Education (NRF-2021R1I1A2049607) and the project titled “Diagnosis, treatment and control technology based on big data of infectious virus in marine environment” funded by the Korea Institute of Marine Science & Technology Promotion (Ref. No. 21210466) in the Ministry of Oceans and Fisheries (MOF) of South Korea. Partial funding was provided by the Armed Forces Health Surveillance Division Global Emerging Infections Surveillance Branch (GEIS), ProMIS ID P0039_18_ME. The views expressed in this article are those of the authors and do not necessarily reflect the official policy or position of the Department of the Army, Department of Defense, or the U.S. Government. The authors, as employees of the U.S. Government (T.A.K., H.C.K.), conducted the work as part of their official duties. Title 17 U.S.C. §105 provides that ‘Copyright protection under this title is not available for any work of the United States Government.’ Title 17 U.S.C. §101 defines a U.S. Government work is a work prepared by an em-ployee of the U.S. Government as part of the person’s official duties.

Funding Information:
Funding: This study was supported by the Agency for Defense Development (UE202026GD). In addition, this research was supported by Basic Research Program through the National Research Foundation of Korea (NRF) funded by the Ministry of Education (NRF-2021R1I1A2049607) and the project titled “Diagnosis, treatment and control technology based on big data of infectious virus in marine environment” funded by the Korea Institute of Marine Science & Technology Promotion (Ref. No. 21210466) in the Ministry of Oceans and Fisheries (MOF) of South Korea. Partial funding was provided by the Armed Forces Health Surveillance Division Global Emerging Infections Surveillance Branch (GEIS), ProMIS ID P0039_18_ME. The views expressed in this article are those of the authors and do not necessarily reflect the official policy or position of the Department of the Army, Department of Defense, or the U.S. Government. The authors, as employees of the U.S. Government (T.A.K., H.C.K.), conducted the work as part of their official duties. Title 17 U.S.C. §105 provides that ‘Copyright protection under this title is not available for any work of the United States Government.’ Title 17 U.S.C. §101 defines a U.S. Government work is a work prepared by an employee of the U.S. Government as part of the person’s official duties.

Publisher Copyright:
© 2021 by the authors. Licensee MDPI, Basel, Switzerland.

Keywords

Crocidura paramyxovirus
Genetic characterization and diversity
Next-generation sequencing
Novel virus discovery
Potential zoonosis

ASJC Scopus subject areas

Infectious Diseases
Virology

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

Access to Document

10.3390/v13102020

Cite this

Lee, S. H., Kim, K., Kim, J., No, J. S., Park, K., Budhathoki, S., Lee, S. H., Lee, J., Cho, S. H., Cho, S., Lee, G. Y., Hwang, J., Kim, H. C., Klein, T. A., Uhm, C. S., Kim, W. K., & Song, J. W. (2021). Discovery and genetic characterization of novel paramyxoviruses related to the genus henipavirus in crocidura species in the republic of Korea. Viruses, 13(10), Article 2020. https://doi.org/10.3390/v13102020

Lee, SH, Kim, K, Kim, J, No, JS, Park, K, Budhathoki, S, Lee, SH, Lee, J, Cho, SH, Cho, S, Lee, GY, Hwang, J, Kim, HC, Klein, TA, Uhm, CS, Kim, WK & Song, JW 2021, 'Discovery and genetic characterization of novel paramyxoviruses related to the genus henipavirus in crocidura species in the republic of Korea', Viruses, vol. 13, no. 10, 2020. https://doi.org/10.3390/v13102020

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title = "Discovery and genetic characterization of novel paramyxoviruses related to the genus henipavirus in crocidura species in the republic of Korea",

abstract = "Paramyxoviruses, negative-sense single-stranded RNA viruses, pose a critical threat to human public health. Currently, 78 species, 17 genera, and 4 subfamilies of paramyxoviruses are harbored by multiple natural reservoirs, including rodents, bats, birds, reptiles, and fish. Henipaviruses are critical zoonotic pathogens that cause severe acute respiratory distress and neurological diseases in humans. Using reverse transcription-polymerase chain reaction, 115 Crocidura species individuals were examined for the prevalence of paramyxovirus infections. Paramyxovirus RNA was observed in 26 (22.6%) shrews collected at five trapping sites, Republic of Korea. Herein, we report two genetically distinct novel paramyxoviruses (genus: Henipavirus): Gamak virus (GAKV) and Daeryong virus (DARV) isolated from C. lasiura and C. shantungensis, respectively. Two GAKVs and one DARV were nearly completely sequenced using next-generation sequencing. GAKV and DARV contain six genes (3{\textquoteright}-N-P-M-F-G-L-5´) with genome sizes of 18,460 nucleotides and 19,471 nucleotides, respectively. The phylogenetic inference demonstrated that GAKV and DARV form independent genetic lineages of Henipavirus in Crocidura species. GAKV-infected human lung epithelial cells elicited the induction of type I/III interferons, interferon-stimulated genes, and proinflammatory cytokines. In conclusion, this study contributes further understandings of the molecular prevalence, genetic characteristics and diversity, and zoonotic potential of novel para-myxoviruses in shrews.",

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author = "Lee, {Seung Ho} and Kijin Kim and Jongwoo Kim and No, {Jin Sun} and Kyungmin Park and Shailesh Budhathoki and Lee, {Seung Ho} and Jingyeong Lee and Cho, {Seung Hye} and Seungchan Cho and Lee, {Geum Young} and Jusun Hwang and Kim, {Heung Chul} and Klein, {Terry A.} and Uhm, {Chang Sub} and Kim, {Won Keun} and Song, {Jin Won}",

note = "Funding Information: This study was supported by the Agency for Defense Development (UE202026GD). In addition, this research was supported by Basic Research Program through the National Research We thank Su-Am Kim and Hyebin Jeong for trapping the small mammals and preparing the figures, respectively. Data Availability Statement: All the data generated for this publication have been included in the Foundation of Korea (NRF) funded by the Ministry of Education (NRF-2021R1I1A2049607) and the project titled “Diagnosis, treatment and control technology based on big data of infectious virus in marine environment” funded by the Korea Institute of Marine Science & Technology Promotion (Ref. No. 21210466) in the Ministry of Oceans and Fisheries (MOF) of South Korea. Partial funding was provided by the Armed Forces Health Surveillance Division Global Emerging Infections Surveillance Branch (GEIS), ProMIS ID P0039_18_ME. The views expressed in this article are those of the authors and do not necessarily reflect the official policy or position of the Department of the Army, Department of Defense, or the U.S. Government. The authors, as employees of the U.S. Government (T.A.K., H.C.K.), conducted the work as part of their official duties. Title 17 U.S.C. §105 provides that {\textquoteleft}Copyright protection under this title is not available for any work of the United States Government.{\textquoteright} Title 17 U.S.C. §101 defines a U.S. Government work is a work prepared by an em-ployee of the U.S. Government as part of the person{\textquoteright}s official duties. Funding Information: Funding: This study was supported by the Agency for Defense Development (UE202026GD). In addition, this research was supported by Basic Research Program through the National Research Foundation of Korea (NRF) funded by the Ministry of Education (NRF-2021R1I1A2049607) and the project titled “Diagnosis, treatment and control technology based on big data of infectious virus in marine environment” funded by the Korea Institute of Marine Science & Technology Promotion (Ref. No. 21210466) in the Ministry of Oceans and Fisheries (MOF) of South Korea. Partial funding was provided by the Armed Forces Health Surveillance Division Global Emerging Infections Surveillance Branch (GEIS), ProMIS ID P0039_18_ME. The views expressed in this article are those of the authors and do not necessarily reflect the official policy or position of the Department of the Army, Department of Defense, or the U.S. Government. The authors, as employees of the U.S. Government (T.A.K., H.C.K.), conducted the work as part of their official duties. Title 17 U.S.C. §105 provides that {\textquoteleft}Copyright protection under this title is not available for any work of the United States Government.{\textquoteright} Title 17 U.S.C. §101 defines a U.S. Government work is a work prepared by an employee of the U.S. Government as part of the person{\textquoteright}s official duties. Publisher Copyright: {\textcopyright} 2021 by the authors. Licensee MDPI, Basel, Switzerland.",

year = "2021",

month = oct,

doi = "10.3390/v13102020",

language = "English",

volume = "13",

journal = "Viruses",

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AU - Lee, Seung Ho

AU - Kim, Kijin

AU - Kim, Jongwoo

AU - No, Jin Sun

AU - Park, Kyungmin

AU - Budhathoki, Shailesh

AU - Lee, Seung Ho

AU - Lee, Jingyeong

AU - Cho, Seung Hye

AU - Cho, Seungchan

AU - Lee, Geum Young

AU - Hwang, Jusun

AU - Kim, Heung Chul

AU - Klein, Terry A.

AU - Uhm, Chang Sub

AU - Kim, Won Keun

AU - Song, Jin Won

N1 - Funding Information: This study was supported by the Agency for Defense Development (UE202026GD). In addition, this research was supported by Basic Research Program through the National Research We thank Su-Am Kim and Hyebin Jeong for trapping the small mammals and preparing the figures, respectively. Data Availability Statement: All the data generated for this publication have been included in the Foundation of Korea (NRF) funded by the Ministry of Education (NRF-2021R1I1A2049607) and the project titled “Diagnosis, treatment and control technology based on big data of infectious virus in marine environment” funded by the Korea Institute of Marine Science & Technology Promotion (Ref. No. 21210466) in the Ministry of Oceans and Fisheries (MOF) of South Korea. Partial funding was provided by the Armed Forces Health Surveillance Division Global Emerging Infections Surveillance Branch (GEIS), ProMIS ID P0039_18_ME. The views expressed in this article are those of the authors and do not necessarily reflect the official policy or position of the Department of the Army, Department of Defense, or the U.S. Government. The authors, as employees of the U.S. Government (T.A.K., H.C.K.), conducted the work as part of their official duties. Title 17 U.S.C. §105 provides that ‘Copyright protection under this title is not available for any work of the United States Government.’ Title 17 U.S.C. §101 defines a U.S. Government work is a work prepared by an em-ployee of the U.S. Government as part of the person’s official duties. Funding Information: Funding: This study was supported by the Agency for Defense Development (UE202026GD). In addition, this research was supported by Basic Research Program through the National Research Foundation of Korea (NRF) funded by the Ministry of Education (NRF-2021R1I1A2049607) and the project titled “Diagnosis, treatment and control technology based on big data of infectious virus in marine environment” funded by the Korea Institute of Marine Science & Technology Promotion (Ref. No. 21210466) in the Ministry of Oceans and Fisheries (MOF) of South Korea. Partial funding was provided by the Armed Forces Health Surveillance Division Global Emerging Infections Surveillance Branch (GEIS), ProMIS ID P0039_18_ME. The views expressed in this article are those of the authors and do not necessarily reflect the official policy or position of the Department of the Army, Department of Defense, or the U.S. Government. The authors, as employees of the U.S. Government (T.A.K., H.C.K.), conducted the work as part of their official duties. Title 17 U.S.C. §105 provides that ‘Copyright protection under this title is not available for any work of the United States Government.’ Title 17 U.S.C. §101 defines a U.S. Government work is a work prepared by an employee of the U.S. Government as part of the person’s official duties. Publisher Copyright: © 2021 by the authors. Licensee MDPI, Basel, Switzerland.

PY - 2021/10

Y1 - 2021/10

N2 - Paramyxoviruses, negative-sense single-stranded RNA viruses, pose a critical threat to human public health. Currently, 78 species, 17 genera, and 4 subfamilies of paramyxoviruses are harbored by multiple natural reservoirs, including rodents, bats, birds, reptiles, and fish. Henipaviruses are critical zoonotic pathogens that cause severe acute respiratory distress and neurological diseases in humans. Using reverse transcription-polymerase chain reaction, 115 Crocidura species individuals were examined for the prevalence of paramyxovirus infections. Paramyxovirus RNA was observed in 26 (22.6%) shrews collected at five trapping sites, Republic of Korea. Herein, we report two genetically distinct novel paramyxoviruses (genus: Henipavirus): Gamak virus (GAKV) and Daeryong virus (DARV) isolated from C. lasiura and C. shantungensis, respectively. Two GAKVs and one DARV were nearly completely sequenced using next-generation sequencing. GAKV and DARV contain six genes (3’-N-P-M-F-G-L-5´) with genome sizes of 18,460 nucleotides and 19,471 nucleotides, respectively. The phylogenetic inference demonstrated that GAKV and DARV form independent genetic lineages of Henipavirus in Crocidura species. GAKV-infected human lung epithelial cells elicited the induction of type I/III interferons, interferon-stimulated genes, and proinflammatory cytokines. In conclusion, this study contributes further understandings of the molecular prevalence, genetic characteristics and diversity, and zoonotic potential of novel para-myxoviruses in shrews.

AB - Paramyxoviruses, negative-sense single-stranded RNA viruses, pose a critical threat to human public health. Currently, 78 species, 17 genera, and 4 subfamilies of paramyxoviruses are harbored by multiple natural reservoirs, including rodents, bats, birds, reptiles, and fish. Henipaviruses are critical zoonotic pathogens that cause severe acute respiratory distress and neurological diseases in humans. Using reverse transcription-polymerase chain reaction, 115 Crocidura species individuals were examined for the prevalence of paramyxovirus infections. Paramyxovirus RNA was observed in 26 (22.6%) shrews collected at five trapping sites, Republic of Korea. Herein, we report two genetically distinct novel paramyxoviruses (genus: Henipavirus): Gamak virus (GAKV) and Daeryong virus (DARV) isolated from C. lasiura and C. shantungensis, respectively. Two GAKVs and one DARV were nearly completely sequenced using next-generation sequencing. GAKV and DARV contain six genes (3’-N-P-M-F-G-L-5´) with genome sizes of 18,460 nucleotides and 19,471 nucleotides, respectively. The phylogenetic inference demonstrated that GAKV and DARV form independent genetic lineages of Henipavirus in Crocidura species. GAKV-infected human lung epithelial cells elicited the induction of type I/III interferons, interferon-stimulated genes, and proinflammatory cytokines. In conclusion, this study contributes further understandings of the molecular prevalence, genetic characteristics and diversity, and zoonotic potential of novel para-myxoviruses in shrews.

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KW - Genetic characterization and diversity

KW - Next-generation sequencing

KW - Novel virus discovery

KW - Potential zoonosis

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SN - 1999-4915

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JO - Viruses

JF - Viruses

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ER -

Discovery and genetic characterization of novel paramyxoviruses related to the genus henipavirus in crocidura species in the republic of Korea

Abstract

Bibliographical note

Keywords

ASJC Scopus subject areas

UN SDGs

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