High levels of unreported intraspecific diversity among RNA viruses in faeces of neonatal piglets with diarrhoea
Cortey, Martí (Universitat Autònoma de Barcelona. Departament de Sanitat i d'Anatomia Animals)
Díaz, Ivan. (Institut de Recerca i Tecnologia Agroalimentàries. Centre de Recerca en Sanitat Animal)
Vidal, Anna (Universitat Autònoma de Barcelona. Departament de Sanitat i d'Anatomia Animals)
Martín-Valls, Gerard (Universitat Autònoma de Barcelona. Departament de Sanitat i d'Anatomia Animals)
Franzo, Giovanni (University of Padova. Department of Animal Medicine Production and Health (MAPS))
Gómez De Nova, P. J. (Universidad de León. Departamento de Sanidad Animal)
Darwich Soliva, Laila (Institut de Recerca i Tecnologia Agroalimentàries. Centre de Recerca en Sanitat Animal)
Puente, H. (Universidad de León. Departamento de Sanidad Animal)
Carvajal, A. (Universidad de León. Departamento de Sanidad Animal)
Martín Castillo, Margarita (Institut de Recerca i Tecnologia Agroalimentàries. Centre de Recerca en Sanitat Animal)
Mateu de Antonio, Enrique María (Universitat Autònoma de Barcelona. Departament de Sanitat i d'Anatomia Animals)

Date:	2019
Abstract:	Background: Diarrhoea is a major cause of death in neonate pigs and most of the viruses that cause it are RNA viruses. Next Generation Sequencing (NGS) deeply characterize the genetic diversity among rapidly mutating virus populations at the interspecific as well as the intraspecific level. The diversity of RNA viruses present in faeces of neonatal piglets suffering from diarrhoea in 47 farms, plus 4 samples from non-diarrhoeic piglets has been evaluated by NGS. Samples were selected among the cases submitted to the Veterinary Diagnostic Laboratories of Infectious Diseases of the Universitat Autònoma de Barcelona (Barcelona, Spain) and Universidad de León (León, Spain). Results: The analyses identified the presence of 12 virus species corresponding to 8 genera of RNA viruses. Most samples were co-infected by several viruses. Kobuvirus and Rotavirus were more commonly reported, with Sapovirus, Astrovirus 3, 4 and 5, Enterovirus G, Porcine epidemic diarrhoea virus, Pasivirus and Posavirus being less frequently detected. Most sequences showed a low identity with the sequences deposited in GenBank, allowing us to propose several new VP4 and VP7 genotypes for Rotavirus B and Rotavirus C. Conclusions: Among the cases analysed, Rotaviruses were the main aetiological agents of diarrhoea in neonate pigs. Besides, in a small number of cases Kobuvirus and Sapovirus may also have an aetiological role. Even most animals were co-infected in early life, the association with enteric disease among the other examined viruses was unclear. The NGS method applied successfully characterized the RNA virome present in faeces and detected a high level of unreported intraspecific diversity.
Grants:	Ministerio de Economía y Competitividad RyC-2015-17154
Note:	Altres ajuts: INIA/E-RTA2015-0003-C02-01
Note:	Altres ajuts: INIA/E-RTA2015-0003-C02-02
Rights:	Aquest document està subjecte a una llicència d'ús Creative Commons. Es permet la reproducció total o parcial, la distribució, la comunicació pública de l'obra i la creació d'obres derivades, fins i tot amb finalitats comercials, sempre i quan es reconegui l'autoria de l'obra original.
Language:	Anglès
Document:	Article ; recerca ; Versió publicada
Subject:	Porcs ; Malalties ; RNA virus ; Piglets ; Next-generation sequencing ; Diarrhoea
Published in:	BMC veterinary research, Vol. 15 Núm. 1 (may 2019) , p. 441, ISSN 1746-6148

DOI: 10.1186/s12917-019-2204-2
PMID: 31805938

13 p, 2.8 MB

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Research literature > UAB research groups literature > Research Centres and Groups (research output) > Health sciences and biosciences > Centre de Recerca en Sanitat Animal (CReSA-IRTA)
Articles > Research articles
Articles > Published articles