Full-genome characterization by deep sequencing of rotavirus A isolates from outbreaks of neonatal diarrhoea in pigs in Spain

Anna Vidal; Hepzibar Clilverd; Martí Cortey; Gerard E. Martín-Valls; Giovanni Franzo; Laila Darwich; Marga Martín; Enric Mateu

doi:10.1016/j.vetmic.2018.10.002

Full-genome characterization by deep sequencing of rotavirus A isolates from outbreaks of neonatal diarrhoea in pigs in Spain

Anna Vidal, Hepzibar Clilverd, Martí Cortey, Gerard E. Martín-Valls, Giovanni Franzo, Laila Darwich, Marga Martín, Enric Mateu

Department of Animal Health and Anatomy

Research output: Contribution to journal › Article › Research

4 Citations (Scopus)

Abstract

© 2018 Elsevier B.V. Since early 2017, in Spain there was an apparent increase in reports on rotavirus involvement in neonatal diarrhoea outbreaks, affecting also adult sows. In this study, 16 unrelated outbreaks of diarrhoea in suckling pigs and sows, where rotavirus A was the only pathogen detected, were investigated. Deep-sequencing was performed on total RNA from twenty-four positive faecal samples. Genotyping, phylogenetic and bayesian analyses showed that all isolates had a common ancestor of porcine, or human porcine-like, origin. The new strain was introduced in the population shortly before the onset of the outbreaks. Besides, a high diversification of the VP7 and VP4 genes occurred in a short time. Isolates presented a high number of amino acid changes in the neutralizing epitopes compared to vaccine sequences. The present report illustrates how a new rotavirus A strain may disseminate rapidly and the extremely high diversification that this pathogen may undergo in a short period.

Original language	English
Pages (from-to)	12-19
Journal	Veterinary Microbiology
Volume	227
DOIs	https://doi.org/10.1016/j.vetmic.2018.10.002
Publication status	Published - 1 Dec 2018

Keywords

Full genome
NGS
Pig diarrhoea
Rotavirus A

Access to Document

10.1016/j.vetmic.2018.10.002

Fingerprint Dive into the research topics of 'Full-genome characterization by deep sequencing of rotavirus A isolates from outbreaks of neonatal diarrhoea in pigs in Spain'. Together they form a unique fingerprint.

Cite this

@article{040e119b875b4a34a62809f73e5e89d8,

title = "Full-genome characterization by deep sequencing of rotavirus A isolates from outbreaks of neonatal diarrhoea in pigs in Spain",

abstract = "{\textcopyright} 2018 Elsevier B.V. Since early 2017, in Spain there was an apparent increase in reports on rotavirus involvement in neonatal diarrhoea outbreaks, affecting also adult sows. In this study, 16 unrelated outbreaks of diarrhoea in suckling pigs and sows, where rotavirus A was the only pathogen detected, were investigated. Deep-sequencing was performed on total RNA from twenty-four positive faecal samples. Genotyping, phylogenetic and bayesian analyses showed that all isolates had a common ancestor of porcine, or human porcine-like, origin. The new strain was introduced in the population shortly before the onset of the outbreaks. Besides, a high diversification of the VP7 and VP4 genes occurred in a short time. Isolates presented a high number of amino acid changes in the neutralizing epitopes compared to vaccine sequences. The present report illustrates how a new rotavirus A strain may disseminate rapidly and the extremely high diversification that this pathogen may undergo in a short period.",

keywords = "Full genome, NGS, Pig diarrhoea, Rotavirus A",

author = "Anna Vidal and Hepzibar Clilverd and Mart{\'i} Cortey and Mart{\'i}n-Valls, {Gerard E.} and Giovanni Franzo and Laila Darwich and Marga Mart{\'i}n and Enric Mateu",

year = "2018",

month = dec,

day = "1",

doi = "10.1016/j.vetmic.2018.10.002",

language = "English",

volume = "227",

pages = "12--19",

journal = "Veterinary Microbiology",

issn = "0378-1135",

}

Full-genome characterization by deep sequencing of rotavirus A isolates from outbreaks of neonatal diarrhoea in pigs in Spain. / Vidal, Anna; Clilverd, Hepzibar; Cortey, Martí ; Martín-Valls, Gerard E.; Franzo, Giovanni; Darwich, Laila ; Martín, Marga ; Mateu, Enric.

In: Veterinary Microbiology, Vol. 227, 01.12.2018, p. 12-19.

Research output: Contribution to journal › Article › Research

TY - JOUR

T1 - Full-genome characterization by deep sequencing of rotavirus A isolates from outbreaks of neonatal diarrhoea in pigs in Spain

AU - Vidal, Anna

AU - Clilverd, Hepzibar

AU - Cortey, Martí

AU - Martín-Valls, Gerard E.

AU - Franzo, Giovanni

AU - Darwich, Laila

AU - Martín, Marga

AU - Mateu, Enric

PY - 2018/12/1

Y1 - 2018/12/1

N2 - © 2018 Elsevier B.V. Since early 2017, in Spain there was an apparent increase in reports on rotavirus involvement in neonatal diarrhoea outbreaks, affecting also adult sows. In this study, 16 unrelated outbreaks of diarrhoea in suckling pigs and sows, where rotavirus A was the only pathogen detected, were investigated. Deep-sequencing was performed on total RNA from twenty-four positive faecal samples. Genotyping, phylogenetic and bayesian analyses showed that all isolates had a common ancestor of porcine, or human porcine-like, origin. The new strain was introduced in the population shortly before the onset of the outbreaks. Besides, a high diversification of the VP7 and VP4 genes occurred in a short time. Isolates presented a high number of amino acid changes in the neutralizing epitopes compared to vaccine sequences. The present report illustrates how a new rotavirus A strain may disseminate rapidly and the extremely high diversification that this pathogen may undergo in a short period.

AB - © 2018 Elsevier B.V. Since early 2017, in Spain there was an apparent increase in reports on rotavirus involvement in neonatal diarrhoea outbreaks, affecting also adult sows. In this study, 16 unrelated outbreaks of diarrhoea in suckling pigs and sows, where rotavirus A was the only pathogen detected, were investigated. Deep-sequencing was performed on total RNA from twenty-four positive faecal samples. Genotyping, phylogenetic and bayesian analyses showed that all isolates had a common ancestor of porcine, or human porcine-like, origin. The new strain was introduced in the population shortly before the onset of the outbreaks. Besides, a high diversification of the VP7 and VP4 genes occurred in a short time. Isolates presented a high number of amino acid changes in the neutralizing epitopes compared to vaccine sequences. The present report illustrates how a new rotavirus A strain may disseminate rapidly and the extremely high diversification that this pathogen may undergo in a short period.

KW - Full genome

KW - NGS

KW - Pig diarrhoea

KW - Rotavirus A

U2 - 10.1016/j.vetmic.2018.10.002

DO - 10.1016/j.vetmic.2018.10.002

M3 - Article

C2 - 30473342

VL - 227

SP - 12

EP - 19

JO - Veterinary Microbiology

JF - Veterinary Microbiology

SN - 0378-1135

ER -