PCR-Based Detection and Genetic Characterization of Parainfluenza Virus 5 Detected in Pigs in Korea from 2016 to 2018
This study applied a molecular-based method to detect parainfluenza virus 5 (PIV5) collected from 2016 to 2018 in nine provinces of Republic of Korea. We demonstrated that PIV5 was detectable in both serum and pooled organs at an average positive rate of 1.78% (99/5566). Among these, the complete ge...
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MDPI AG
2023-06-01
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| Series: | Veterinary Sciences |
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| Online Access: | https://www.mdpi.com/2306-7381/10/7/414 |
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| author | Ha-Thai Truong Van-Giap Nguyen Le-Bich-Hang Pham Thi-My-Le Huynh Jasper Lee Su-Jin Hwang Jae-Myun Lee Hee-Chun Chung |
| author_facet | Ha-Thai Truong Van-Giap Nguyen Le-Bich-Hang Pham Thi-My-Le Huynh Jasper Lee Su-Jin Hwang Jae-Myun Lee Hee-Chun Chung |
| author_sort | Ha-Thai Truong |
| collection | DOAJ |
| description | This study applied a molecular-based method to detect parainfluenza virus 5 (PIV5) collected from 2016 to 2018 in nine provinces of Republic of Korea. We demonstrated that PIV5 was detectable in both serum and pooled organs at an average positive rate of 1.78% (99/5566). Among these, the complete genome sequence of 15,246 nucleotides was obtained for 12 field strains. Three out of the 12 strains had the lowest genetic identity (96.20–96.68%) among the 21 porcine PIV5 genomes collected in Germany, China, India, and Republic of Korea from 1998 to 2017. By analyzing a large collection of complete genome sequences of the structural protein-coding F and HN genes, this study proposed a classification of PIV5 into two lineages, 1 and 2, and identified that group 2.2.2 within sub-lineage 2.2 was substantially divergent. The evolution of two structural protein-coding genes was largely under purifying selection. A few codons (6/9 for the F gene, 7/8 for the HN gene) had elevated dN/dS values, which were loaded on internal branches and were predicted to be related to beneficial trait(s) of the virus. |
| first_indexed | 2024-03-11T00:34:13Z |
| format | Article |
| id | doaj.art-6c7c7fa415c445c683cd310d81a25da5 |
| institution | Directory Open Access Journal |
| issn | 2306-7381 |
| language | English |
| last_indexed | 2024-03-11T00:34:13Z |
| publishDate | 2023-06-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Veterinary Sciences |
| spelling | doaj.art-6c7c7fa415c445c683cd310d81a25da52023-11-18T21:42:15ZengMDPI AGVeterinary Sciences2306-73812023-06-0110741410.3390/vetsci10070414PCR-Based Detection and Genetic Characterization of Parainfluenza Virus 5 Detected in Pigs in Korea from 2016 to 2018Ha-Thai Truong0Van-Giap Nguyen1Le-Bich-Hang Pham2Thi-My-Le Huynh3Jasper Lee4Su-Jin Hwang5Jae-Myun Lee6Hee-Chun Chung7Department of Veterinary Microbiology and Infectious Diseases, Faculty of Veterinary Medicine, Vietnam National University of Agriculture (VNUA), Hanoi 100000, VietnamDepartment of Veterinary Microbiology and Infectious Diseases, Faculty of Veterinary Medicine, Vietnam National University of Agriculture (VNUA), Hanoi 100000, VietnamInstitute of Genome Research, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet, Cau Giay, Hanoi 100000, VietnamDepartment of Veterinary Microbiology and Infectious Diseases, Faculty of Veterinary Medicine, Vietnam National University of Agriculture (VNUA), Hanoi 100000, VietnamComputational Neurobiology Laboratory, Salk Institute of Biological Sciences, La Jolla, CA 92037, USADepartment of Microbiology and Immunology, Institute for Immunology and Immunological Diseases, Brain Korea 21 Project for Medical Science, Yonsei University College of Medicine, Seoul 03722, Republic of KoreaDepartment of Microbiology and Immunology, Institute for Immunology and Immunological Diseases, Brain Korea 21 Project for Medical Science, Yonsei University College of Medicine, Seoul 03722, Republic of KoreaDepartment of Microbiology and Immunology, Institute for Immunology and Immunological Diseases, Yonsei University College of Medicine, Seoul 03722, Republic of KoreaThis study applied a molecular-based method to detect parainfluenza virus 5 (PIV5) collected from 2016 to 2018 in nine provinces of Republic of Korea. We demonstrated that PIV5 was detectable in both serum and pooled organs at an average positive rate of 1.78% (99/5566). Among these, the complete genome sequence of 15,246 nucleotides was obtained for 12 field strains. Three out of the 12 strains had the lowest genetic identity (96.20–96.68%) among the 21 porcine PIV5 genomes collected in Germany, China, India, and Republic of Korea from 1998 to 2017. By analyzing a large collection of complete genome sequences of the structural protein-coding F and HN genes, this study proposed a classification of PIV5 into two lineages, 1 and 2, and identified that group 2.2.2 within sub-lineage 2.2 was substantially divergent. The evolution of two structural protein-coding genes was largely under purifying selection. A few codons (6/9 for the F gene, 7/8 for the HN gene) had elevated dN/dS values, which were loaded on internal branches and were predicted to be related to beneficial trait(s) of the virus.https://www.mdpi.com/2306-7381/10/7/414porcine parainfluenza virus 5detectiongenetic analysisRepublic of Korea |
| spellingShingle | Ha-Thai Truong Van-Giap Nguyen Le-Bich-Hang Pham Thi-My-Le Huynh Jasper Lee Su-Jin Hwang Jae-Myun Lee Hee-Chun Chung PCR-Based Detection and Genetic Characterization of Parainfluenza Virus 5 Detected in Pigs in Korea from 2016 to 2018 Veterinary Sciences porcine parainfluenza virus 5 detection genetic analysis Republic of Korea |
| title | PCR-Based Detection and Genetic Characterization of Parainfluenza Virus 5 Detected in Pigs in Korea from 2016 to 2018 |
| title_full | PCR-Based Detection and Genetic Characterization of Parainfluenza Virus 5 Detected in Pigs in Korea from 2016 to 2018 |
| title_fullStr | PCR-Based Detection and Genetic Characterization of Parainfluenza Virus 5 Detected in Pigs in Korea from 2016 to 2018 |
| title_full_unstemmed | PCR-Based Detection and Genetic Characterization of Parainfluenza Virus 5 Detected in Pigs in Korea from 2016 to 2018 |
| title_short | PCR-Based Detection and Genetic Characterization of Parainfluenza Virus 5 Detected in Pigs in Korea from 2016 to 2018 |
| title_sort | pcr based detection and genetic characterization of parainfluenza virus 5 detected in pigs in korea from 2016 to 2018 |
| topic | porcine parainfluenza virus 5 detection genetic analysis Republic of Korea |
| url | https://www.mdpi.com/2306-7381/10/7/414 |
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