Complete genome characterization of porcine circovirus 3 recovered from wild boars in Southern Brazil

2020 ◽  
Author(s):  
Ana Paula Muterle Varela ◽  
Márcia Regina Loiko ◽  
Juliana da Silva Andrade ◽  
Caroline Tochetto ◽  
Samuel Paulo Cibulski ◽  
...  
Keyword(s):  
Complete Genome ◽  
Porcine Circovirus ◽  
Southern Brazil ◽  
Genome Characterization ◽  
Wild Boars ◽  
Porcine Circovirus 3

Genetic characterization of porcine circovirus type 2 in captive wild boars in southern Brazil

2017 ◽  
Vol 49 (5) ◽  
pp. 1071-1075 ◽  
Author(s):  
José Paulo Hiroji Sato ◽  
Danielle Gava ◽  
Rejane Schaefer ◽  
Maurício Egídio Cantão ◽  
Janice Reis Ciacci-Zanella ◽  
...  
Keyword(s):  
Genetic Characterization ◽  
Porcine Circovirus Type ◽  
Porcine Circovirus Type 2 ◽  
Porcine Circovirus ◽  
Southern Brazil ◽  
Wild Boars

scholarly journals Genetic Characterization of Porcine Circovirus 3 Strains Circulating in Sardinian Pigs and Wild Boars

Pathogens ◽  
2020 ◽  
Vol 9 (5) ◽  
pp. 344
Author(s):  
Silvia Dei Giudici ◽  
Giulia Franzoni ◽  
Piero Bonelli ◽  
Pier Paolo Angioi ◽  
Susanna Zinellu ◽  
...  
Keyword(s):  
Phylogenetic Trees ◽  
Haplotype Network ◽  
Porcine Circovirus ◽  
Nonsynonymous Mutation ◽  
Tissue Samples ◽  
Wild Boars ◽  
Domestic Pigs ◽  
Porcine Circovirus 3 ◽  
Free Ranging

Porcine circovirus 3 (PCV3) is a recently discovered member of the Circoviridae family. So far, its presence has been reported in North America, Asia, South America, and Europe. In this study, blood and tissue samples from 189 Sardinian suids (34 domestic pigs, 115 feral free ranging pigs, and 39 wild boars) were used to genetically characterize the PCV3 strains from Sardinia. PCV3 infection in the animals was confirmed by real time PCR. The detection rate in the three groups analyzed was l7.64% in domestic pigs, 77.39% in free ranging pigs, and 61.54% in wild boars. Moreover, our results showed that co-infection of PCV3 with other viruses is quite a common occurrence. Molecular characterization of Sardinian PCV3 strains was performed by sequencing 6 complete genomes and 12 complete cap genes. Our results revealed that there is a high similarity between our strains and those identified in different countries, confirming the genetic stability of PCV3 regardless of geographical origin. Haplotype network analysis revealed the presence of 6 whole genomes or 12 unique ORF2 haplotypes and a nonsynonymous mutation in ORF2 that leads to an R14K amino acid substitution. Phylogenetic analysis of whole genome and ORF2 was also conducted. The Sardinian strains were allocated in three different clusters of phylogenetic trees of both complete genome and ORF2. With this study, we have provided a snapshot of PCV3 circulation in Sardinia. Our findings might help to achieve a deeper understanding of this emerging porcine virus.

Molecular Characterization of Novel Porcine Circovirus 3 (PCV3) in Pig Populations in the North of Vietnam

2018 ◽  
Vol 1 (1) ◽  
Author(s):  
Nguyen Van Giap ◽  
Chung Hee Chun ◽  
Huynh Thi My Le ◽  
Cao Thi Bich Phuong ◽  
Vu Thi Ngoc ◽  
...  
Keyword(s):  
Molecular Characterization ◽  
Porcine Circovirus ◽  
The North ◽  
Porcine Circovirus 3

scholarly journals Identification and complete genome characterization of a novel picornavirus in turkey (Meleagris gallopavo)

2012 ◽  
Vol 93 (10) ◽  
pp. 2171-2182 ◽  
Author(s):  
Ákos Boros ◽  
Csaba Nemes ◽  
Péter Pankovics ◽  
Beatrix Kapusinszky ◽  
Eric Delwart ◽  
...  
Keyword(s):  
Amino Acid ◽  
Complete Genome ◽  
Bird Species ◽  
Entry Site ◽  
Pathogenic Potential ◽  
Genome Characterization ◽  
Genome Region ◽  
Faecal Samples ◽  
The Usa

Members of the family Picornaviridae are important pathogens of humans and animals, although compared with the thousands of known bird species (>10 000), only a few (n = 11) picornaviruses have been identified from avian sources. This study reports the metagenomic detection and complete genome characterization of a novel turkey picornavirus from faecal samples collected from eight turkey farms in Hungary. Using RT-PCR, both healthy (two of three) and affected (seven of eight) commercial turkeys with enteric and/or stunting syndrome were shown to be shedding viruses in seven (88 %) of the eight farms. The viral genome sequence (turkey/M176/2011/HUN; GenBank accession no. JQ691613) shows a high degree of amino acid sequence identity (96 %) to the partial P3 genome region of a picornavirus reported recently in turkey and chickens from the USA and probably belongs to the same species. In the P1 and P2 regions, turkey/M176/2011/HUN is related most closely to, but distinct from, the kobuviruses and turdivirus 1. Complete genome analysis revealed the presence of characteristic picornaviral amino acid motifs, a potential type II-like 5′ UTR internal ribosome entry site (first identified among avian-origin picornaviruses) and a conserved, 48 nt long ‘barbell-like’ structure found at the 3′ UTR of turkey/M176/2011/HUN and members of the picornavirus genera Avihepatovirus and Kobuvirus. The general presence of turkey picornavirus – a novel picornavirus species – in faecal samples from healthy and affected turkeys in Hungary and in the USA suggests the worldwide occurrence and endemic circulation of this virus in turkey farms. Further studies are needed to investigate the aetiological role and pathogenic potential of this picornavirus in food animals.

scholarly journals Complete Genome Characterization of Chinese Porcine Deltacoronavirus Strain CHN/Tianjin/2016

2017 ◽  
Vol 5 (16) ◽  
Author(s):  
Feng Zhao ◽  
Ying Sun ◽  
Bingxu Qian ◽  
Xiaorong Zhang ◽  
Yantao Wu
Keyword(s):  
Hong Kong ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Fecal Samples ◽  
Genome Characterization

ABSTRACT As we all know, porcine deltacoronavirus was first detected in Hong Kong, China. Here, we report the complete genome sequence of the Chinese porcine deltacoronavirus strain CHN/Tianjin/2016, which was collected and amplified from clinical fecal samples in March of 2016.

scholarly journals Detection and genetic characterization of porcine circovirus 3 from aborted fetuses and pigs with respiratory disease in Korea

2018 ◽  
Vol 19 (5) ◽  
pp. 721 ◽  
Author(s):  
Seong-Hee Kim ◽  
Ji-Young Park ◽  
Ji-Youl Jung ◽  
Ha-Young Kim ◽  
Yu-Ri Park ◽  
...  
Keyword(s):  
Respiratory Disease ◽  
Genetic Characterization ◽  
Porcine Circovirus ◽  
Porcine Circovirus 3

Experimental pathogenicity and complete genome characterization of a pig origin Pasteurella multocida serogroup F isolate HN07

2017 ◽  
Vol 198 ◽  
pp. 23-33 ◽  
Author(s):  
Zhong Peng ◽  
Wan Liang ◽  
Yuanguo Wang ◽  
Wenjing Liu ◽  
Hongfeng Zhang ◽  
...  
Keyword(s):  
Complete Genome ◽  
Pasteurella Multocida ◽  
Genome Characterization ◽  
Experimental Pathogenicity

scholarly journals Genotyping Porcine Circovirus 3 (PCV-3) Nowadays: Does It Make Sense?

Viruses ◽  
2020 ◽  
Vol 12 (3) ◽  
pp. 265 ◽  
Author(s):  
Giovanni Franzo ◽  
Eric Delwart ◽  
Robert Fux ◽  
Ben Hause ◽  
Shuo Su ◽  
...  
Keyword(s):  
Genetic Distance ◽  
Complete Genome ◽  
Molecular Data ◽  
Porcine Circovirus ◽  
Bootstrap Support ◽  
Research Activity ◽  
Reading Frame ◽  
Porcine Circovirus 3 ◽  
Definition Of ◽  
Genomic Regions

The discovery of a globally distributed porcine circovirus (Porcine circovirus 3; PCV-3) has led to intense research activity and the production of a large amount of molecular data. Different research groups have proposed several, not always concordant, genotypes for this virus. While such categories could aid an easier interpretation of PCV-3 molecular epidemiology, any classification, to be useful in practical settings, must be univocal and of help in the understanding of underlying biological features and epidemiology. Based on these premises, the possibility of defining PCV-3 genotypes was evaluated on the broadest available dataset of PCV-3 complete genome (n = 357) and open reading frame 2 (ORF2, n = 653) sequences. Genetic distance and phylogenetic clustering were selected as the main objective criteria. Additional factors, including the number of within-cluster sequences, host and geographic clustering, concordance between different genomic regions, and analysis method were also taken in account to generate a classification that could be effectively applied in research and diagnostic settings. A maximum within-genotype genetic distance of 3% at the complete genome and 6% at the ORF2 levels, bootstrap support higher than 90%, and concordance between analysis methods allowed us to clearly define two clades which could be potentially defined as genotypes. Further subdivision was not suggested due to the absence of a meaningful association between PCV-3 and its biological/epidemiological features. Nevertheless, since one of the clades included two strains only, thus far we formally propose the definition of only one PCV-3 genotype (PCV-3a). The established criteria will allow us to automatically recognize other genotypes when more strain sequences are characterized.

Complete genome characterization of three enterovirus C96 isolates in China

2019 ◽  
Vol 164 (8) ◽  
pp. 2183-2186
Author(s):  
Qian Wang ◽  
Feng Ji ◽  
Suting Wang ◽  
Xiaojuan Lin ◽  
Zexin Tao ◽  
...  
Keyword(s):  
Complete Genome ◽  
Genome Characterization
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