Updated phylogenetic analysis of the spike gene and identification of a novel recombinant porcine epidemic diarrhoea virus strain in Taiwan

2019 ◽  
Vol 67 (1) ◽  
pp. 417-430 ◽  
Author(s):  
Fu‐Chun Hsueh ◽  
Chao‐Nan Lin ◽  
Hue‐Ying Chiou ◽  
Min‐Yuan Chia ◽  
Ming‐Tang Chiou ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Virus Strain ◽  
Spike Gene ◽  
Porcine Epidemic Diarrhoea Virus ◽  
Diarrhoea Virus

scholarly journals Molecular characterization of porcine epidemic diarrhoea virus (PEDV) in Poland reveals the presence of swine enteric coronavirus (SeCoV) sequence in S gene

PLoS ONE ◽  
2021 ◽  
Vol 16 (10) ◽  
pp. e0258318
Author(s):  
Marta Antas ◽  
Monika Olech ◽  
Anna Szczotka-Bochniarz
Keyword(s):  
Phylogenetic Analysis ◽  
Molecular Characterization ◽  
Rna Virus ◽  
Economic Losses ◽  
High Morbidity ◽  
Antigenic Analysis ◽  
S Gene ◽  
Porcine Epidemic Diarrhoea Virus ◽  
Diarrhoea Virus

Porcine epidemic diarrhoea (PED) is a highly contagious enteric viral disease of pigs with a high morbidity and mortality rate, which ultimately results in huge economic losses in the pig production sector. The etiological agent of this disease is the porcine epidemic diarrhoea virus (PEDV) which is an enveloped, positive single-stranded RNA virus. The aim of this study was to perform molecular characterization of PEDV to identify the strains circulating in Poland. In this study, 662 faecal samples from 2015 to 2021 were tested with reverse transcription quantitative real-time PCR (RT-qPCR) and the results showed that 3.8% of the tested samples revealed a positive result for PEDV. A phylogenetic analysis of the complete genome and complete S gene sequences showed that Polish PEDV strains belonged to the G1b (S-INDEL) subgroup and were closely related to the European PEDV strains isolated from 2014 to 2019. Furthermore, RDP4 analysis revealed that the Polish PEDV strains harboured a recombinant fragment of ~400 nt in the 5’ end of S gene with PEDV and swine enteric coronavirus (SeCoV) being the major and minor parents, respectively. Antigenic analysis showed that the aa sequences of neutralizing epitopes were conserved among the Polish PEDV strains. Only one strain, #0100/5P, had a unique substitution in the COE epitope. However, Polish PEDV strains showed several substitutions, especially in the COE antigen, as compared to the classical strain CV777. To the best of our knowledge, this is the first report concerning the molecular characterization of porcine epidemic diarrhoea virus strains, as well as the first phylogenetic analysis for PEDV in Poland.

Phylogenetic Analysis of the Spike (S) Gene of the New Variants of Porcine Epidemic Diarrhoea Virus in Taiwan

2015 ◽  
Vol 64 (1) ◽  
pp. 157-166 ◽  
Author(s):  
H.-Y. Chiou ◽  
Y.-L. Huang ◽  
M.-C. Deng ◽  
C.-Y. Chang ◽  
C.-R. Jeng ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
S Gene ◽  
Porcine Epidemic Diarrhoea Virus ◽  
Diarrhoea Virus

scholarly journals Full-length genome sequences of porcine epidemic diarrhoea virus strain CV777; Use of NGS to analyse genomic and sub-genomic RNAs

PLoS ONE ◽  
2018 ◽  
Vol 13 (3) ◽  
pp. e0193682 ◽  
Author(s):  
Thomas Bruun Rasmussen ◽  
Maria Beatrice Boniotti ◽  
Alice Papetti ◽  
Béatrice Grasland ◽  
Jean-Pierre Frossard ◽  
...  
Keyword(s):  
Virus Strain ◽  
Full Length ◽  
Genome Sequences ◽  
Genomic Rnas ◽  
Porcine Epidemic Diarrhoea Virus ◽  
Diarrhoea Virus ◽  
Full Length Genome

scholarly journals New porcine epidemic diarrhoea virus variant with a large deletion in the spike gene identified in domestic pigs

2015 ◽  
Vol 160 (10) ◽  
pp. 2565-2568 ◽  
Author(s):  
Tsuneyuki Masuda ◽  
Satoshi Murakami ◽  
Osamu Takahashi ◽  
Ayako Miyazaki ◽  
Seiichi Ohashi ◽  
...  
Keyword(s):  
Large Deletion ◽  
Virus Variant ◽  
Domestic Pigs ◽  
Spike Gene ◽  
Porcine Epidemic Diarrhoea Virus ◽  
Diarrhoea Virus

Molecular phylogenetic analysis of bovine viral diarrhoea virus: A Bayesian approach

2007 ◽  
Vol 130 (1-2) ◽  
pp. 53-62 ◽  
Author(s):  
Hongyan Xia ◽  
Lihong Liu ◽  
Niklas Wahlberg ◽  
Claudia Baule ◽  
Sándor Belák
Keyword(s):  
Phylogenetic Analysis ◽  
Bayesian Approach ◽  
Bovine Viral Diarrhoea Virus ◽  
Molecular Phylogenetic Analysis ◽  
Bovine Viral Diarrhoea ◽  
Diarrhoea Virus ◽  
Molecular Phylogenetic

Whole Genome Sequencing and Phylogenetic Analysis of the Rabies Virus Strain Moscow 3253 Adapted to a Vero Cell Line

2020 ◽  
Vol 35 (4) ◽  
pp. 237-242
Author(s):  
Ya. M. Krasnov ◽  
Zh. V. Alkhova ◽  
S. V. Generalov ◽  
I. V. Tuchkov ◽  
E. A. Naryshkina ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Vero Cell ◽  
Whole Genome Sequencing ◽  
Cell Line ◽  
Rabies Virus ◽  
Genome Sequencing ◽  
Virus Strain ◽  
Whole Genome ◽  
Vero Cell Line ◽  
Rabies Virus Strain
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