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Detection of porcine enteric viruses (Kobuvirus, Mamastrovirus and Sapelovirus) in domestic pigs in Corsica, France
- Source :
- PLoS ONE, PLoS ONE, Vol 17, Iss 1, p e0260161 (2022)
- Publication Year :
- 2021
-
Abstract
- Many enteric viruses are found in pig farms around the world and can cause death of animals or important production losses for breeders. Among the wide spectrum of enteric viral species, porcine Sapelovirus (PSV), porcine Kobuvirus (PKoV) and porcine Astrovirus (PAstV) are frequently found in pig feces. In this study we investigated sixteen pig farms in Corsica, France, to evaluate the circulation of three enteric viruses (PKoV, PAstV-1 and PSV). In addition to the three viruses studied by RT–qPCR (908 pig feces samples), 26 stool samples were tested using the Next Generation Sequencing method (NGS). Our results showed viral RNA detection rates (i) of 62.0% [58.7–65.1] (n = 563/908) for PSV, (ii) of 44.8% [41.5–48.1] (n = 407/908) for PKoV and (iii) of 8.6% [6.8–10.6] (n = 78/908) for PAstV-1. Significant differences were observed for all three viruses according to age (P-value = 2.4e–13 for PAstV-1; 2.4e–12 for PKoV and 0.005 for PSV). The type of breeding was significantly associated with RNA detection only for PAstV-1 (P-value = 9.6e–6). Among the 26 samples tested with NGS method, consensus sequences corresponding to 10 different species of virus were obtained This study provides first insight on the presence of three common porcine enteric viruses in France. We also showed that they are frequently encountered in pigs born and bred in Corsica, which demonstrates endemic local circulation.ImportanceThis study provides important information in the comprehension of the epidemiology of different viruses circulating in swine farms. We have shown the great diversity of viruses that could be present in extensive farms. Moreover, to our knowledge, this is the first detection of these different viruses in France. So far, this study has to be considered as a first step in the study of enteric viruses in Corsican pig farms.
- Subjects :
- RNA viruses
Swine
Molecular biology
Pathology and Laboratory Medicine
Medical Conditions
Sequencing techniques
Porcine sapelovirus
Medicine and Health Sciences
DNA sequencing
Mammals
Viral Genomics
Multidisciplinary
biology
Astroviruses
Mamastrovirus
Eukaryota
Genomics
Infectious Diseases
Kobuvirus
Medical Microbiology
Viral Pathogens
Vertebrates
Viruses
Medicine
Pathogens
Transcriptome Analysis
Sapelovirus
Research Article
Next-Generation Sequencing
food.ingredient
Science
Microbial Genomics
Microbiology
Virus
Bocavirus
food
Parvoviruses
Virology
Genetics
Hepatitis E virus
Animals
Viral rna
Microbial Pathogens
Feces
Organisms
Biology and Life Sciences
Computational Biology
biology.organism_classification
Genome Analysis
Hepatitis viruses
Research and analysis methods
Molecular biology techniques
Porcine astrovirus
Co-Infections
Amniotes
DNA viruses
Zoology
Subjects
Details
- ISSN :
- 19326203
- Volume :
- 17
- Issue :
- 1
- Database :
- OpenAIRE
- Journal :
- PloS one
- Accession number :
- edsair.doi.dedup.....3686cdf17abeb1750fa7bba85ee75797