Phylogenetic Classification of Global Porcine Deltacoronavirus (PDCoV) Reference Strains and Molecular Characterization of PDCoV in Taiwan
Porcine deltacoronavirus (PDCoV), a highly transmissible intestinal pathogen, causes mild to severe clinical symptoms, such as anorexia, vomiting and watery diarrhea, in piglets and/or sows. Since the first report of PDCoV infection in Hong Kong in 2012, the virus has readily disseminated to North A...
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doaj-5c7e4171e2434d2497e486f6547f7cea2021-07-23T14:11:35ZengMDPI AGViruses1999-49152021-07-01131337133710.3390/v13071337Phylogenetic Classification of Global Porcine Deltacoronavirus (PDCoV) Reference Strains and Molecular Characterization of PDCoV in TaiwanFu-Chun Hsueh0Feng-Yang Hsu1Yu-Hsuan Chen2Hsing-Chun Shih3Wei-Hao Lin4Cheng-Yao Yang5Chuen-Fu Lin6Ming-Tang Chiou7Chao-Nan Lin8Animal Disease Diagnostic Center, College of Veterinary Medicine, National Pingtung University of Science and Technology, Pingtung 91201, TaiwanAnimal Disease Diagnostic Center, College of Veterinary Medicine, National Pingtung University of Science and Technology, Pingtung 91201, TaiwanDepartment of Veterinary Medicine, College of Veterinary Medicine, National Pingtung University of Science and Technology, Pingtung 91201, TaiwanAnimal Disease Diagnostic Center, College of Veterinary Medicine, National Pingtung University of Science and Technology, Pingtung 91201, TaiwanAnimal Disease Diagnostic Center, College of Veterinary Medicine, National Pingtung University of Science and Technology, Pingtung 91201, TaiwanGraduate Institute of Veterinary Pathobiology, College of Veterinary Medicine, National Chung-Hsing University, Taichung 40227, TaiwanDepartment of Veterinary Medicine, College of Veterinary Medicine, National Pingtung University of Science and Technology, Pingtung 91201, TaiwanAnimal Disease Diagnostic Center, College of Veterinary Medicine, National Pingtung University of Science and Technology, Pingtung 91201, TaiwanAnimal Disease Diagnostic Center, College of Veterinary Medicine, National Pingtung University of Science and Technology, Pingtung 91201, TaiwanPorcine deltacoronavirus (PDCoV), a highly transmissible intestinal pathogen, causes mild to severe clinical symptoms, such as anorexia, vomiting and watery diarrhea, in piglets and/or sows. Since the first report of PDCoV infection in Hong Kong in 2012, the virus has readily disseminated to North America and several countries in Asia. However, to date, no unified phylogenetic classification system has been developed. To fill this gap, we classified historical PDCoV reference strains into two major genogroups (G-I and G-II) and three subgroups (G-II-a, G-II-b and G-II-c). In addition, no genetic research on the whole PDCoV genome or spike gene has been conducted on isolates from Taiwan so far. To delineate the genetic characteristics of Taiwanese PDCoV, we performed whole-genome sequencing to decode the viral sequence. The PDCoV/104-553/TW-2015 strain is closely related to the G-II-b group, which is mainly composed of PDCoV variants from China. Additionally, various mutations in the Taiwanese PDCoV (104-553/TW-2015) strain might be linked to the probability of recombination with other genogroups of PDCoVs or other porcine coronaviruses. These results represent a pioneering phylogenetic characterization of the whole genome of a PDCoV strain isolated in Taiwan in 2015 and will potentially facilitate the development of applicable preventive strategies against this problematic virus.https://www.mdpi.com/1999-4915/13/7/1337porcine deltacoronavirus (PDCoV)whole-genome sequencingphylogenetic analysisTaiwan |
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DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Fu-Chun Hsueh Feng-Yang Hsu Yu-Hsuan Chen Hsing-Chun Shih Wei-Hao Lin Cheng-Yao Yang Chuen-Fu Lin Ming-Tang Chiou Chao-Nan Lin |
spellingShingle |
Fu-Chun Hsueh Feng-Yang Hsu Yu-Hsuan Chen Hsing-Chun Shih Wei-Hao Lin Cheng-Yao Yang Chuen-Fu Lin Ming-Tang Chiou Chao-Nan Lin Phylogenetic Classification of Global Porcine Deltacoronavirus (PDCoV) Reference Strains and Molecular Characterization of PDCoV in Taiwan Viruses porcine deltacoronavirus (PDCoV) whole-genome sequencing phylogenetic analysis Taiwan |
author_facet |
Fu-Chun Hsueh Feng-Yang Hsu Yu-Hsuan Chen Hsing-Chun Shih Wei-Hao Lin Cheng-Yao Yang Chuen-Fu Lin Ming-Tang Chiou Chao-Nan Lin |
author_sort |
Fu-Chun Hsueh |
title |
Phylogenetic Classification of Global Porcine Deltacoronavirus (PDCoV) Reference Strains and Molecular Characterization of PDCoV in Taiwan |
title_short |
Phylogenetic Classification of Global Porcine Deltacoronavirus (PDCoV) Reference Strains and Molecular Characterization of PDCoV in Taiwan |
title_full |
Phylogenetic Classification of Global Porcine Deltacoronavirus (PDCoV) Reference Strains and Molecular Characterization of PDCoV in Taiwan |
title_fullStr |
Phylogenetic Classification of Global Porcine Deltacoronavirus (PDCoV) Reference Strains and Molecular Characterization of PDCoV in Taiwan |
title_full_unstemmed |
Phylogenetic Classification of Global Porcine Deltacoronavirus (PDCoV) Reference Strains and Molecular Characterization of PDCoV in Taiwan |
title_sort |
phylogenetic classification of global porcine deltacoronavirus (pdcov) reference strains and molecular characterization of pdcov in taiwan |
publisher |
MDPI AG |
series |
Viruses |
issn |
1999-4915 |
publishDate |
2021-07-01 |
description |
Porcine deltacoronavirus (PDCoV), a highly transmissible intestinal pathogen, causes mild to severe clinical symptoms, such as anorexia, vomiting and watery diarrhea, in piglets and/or sows. Since the first report of PDCoV infection in Hong Kong in 2012, the virus has readily disseminated to North America and several countries in Asia. However, to date, no unified phylogenetic classification system has been developed. To fill this gap, we classified historical PDCoV reference strains into two major genogroups (G-I and G-II) and three subgroups (G-II-a, G-II-b and G-II-c). In addition, no genetic research on the whole PDCoV genome or spike gene has been conducted on isolates from Taiwan so far. To delineate the genetic characteristics of Taiwanese PDCoV, we performed whole-genome sequencing to decode the viral sequence. The PDCoV/104-553/TW-2015 strain is closely related to the G-II-b group, which is mainly composed of PDCoV variants from China. Additionally, various mutations in the Taiwanese PDCoV (104-553/TW-2015) strain might be linked to the probability of recombination with other genogroups of PDCoVs or other porcine coronaviruses. These results represent a pioneering phylogenetic characterization of the whole genome of a PDCoV strain isolated in Taiwan in 2015 and will potentially facilitate the development of applicable preventive strategies against this problematic virus. |
topic |
porcine deltacoronavirus (PDCoV) whole-genome sequencing phylogenetic analysis Taiwan |
url |
https://www.mdpi.com/1999-4915/13/7/1337 |
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