About: Prevalence and phylogenetic analysis of porcine diarrhea associated viruses in southern China from 2012 to 2018

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About: Prevalence and phylogenetic analysis of porcine diarrhea associated viruses in southern China from 2012 to 2018 Goto Sponge NotDistinct Permalink

An Entity of Type : schema:ScholarlyArticle, within Data Space : wasabi.inria.fr associated with source document(s)

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
title	Prevalence and phylogenetic analysis of porcine diarrhea associated viruses in southern China from 2012 to 2018
Creator	Li, Kai Ye, Yu Song, Deping Tang, Yuxin Zhang, Fanfan Ding, Zhen Gu, Jun Li, Hao Luo, Suxian Li, Zhiquan Yuan, Weifeng
source	Medline; PMC
abstract	BACKGROUND: In China, large-scale outbreaks of severe diarrhea caused by viruses have occurred in pigs since late 2010. To investigate the prevalence and genetic evolution of diarrhea-associated viruses responsible for the outbreaks, a total of 2987 field diarrheal samples collected from 168 pig farms in five provinces in Southern China during 2012–2018 were tested. RESULTS: Porcine epidemic diarrhea virus (PEDV) was most frequently detected virus with prevalence rates between 50.21 and 62.10% in samples, and 96.43% (162/168) in premises, respectively. Porcine deltacoronavirus (PDCoV) was the second prevalent virus with prevalence rates ranging from 19.62 to 29.19% in samples, and 70.24% (118/168) in premises, respectively. Both transmissible gastroenteritis virus (TGEV) and porcine rotavirus (PoRV) were detected at low prevalence rates of < 3% in samples and 10.12% in premises. In this study, we identified a newly emerged swine acute diarrhea syndrome coronavirus (SADS-CoV) in diarrheal samples of piglets from Fujian province in Southern China, and the prevalence rate of SADS-CoV was 10.29% (7/68). Co-infections of these diarrhea-associated viruses were common. The most frequent co-infection was PEDV with PDCoV, with an average detection rate of 12.72% (380/2987, ranging from 8.26–17.33%). Phylogenetic analysis revealed that PEDVs circulating in Southern China during the last 7 years were clustered with the variant strains of PEDV in genotype IIa. The most frequent mutations were present in the collagenase equivalent (COE) and epitope regions of the spike gene of the PEDVs currently circulating in the field. Genetic relationships of PDCoVs were closely related with Chinese strains, other than those present in the USA, South Korea, Thailand and Lao’s public. CONCLUSIONS: The findings of this study indicated that variant PEDV, PDCoV, and SADS-CoV were leading etiologic agents of porcine diarrhea, and either mono-infections or co-infections of pathogenic enteric CoVs were common in pigs in Southern China during 2012–2018. Thus, significant attention should be paid in order to effectively prevent and control porcine viral diarrhea.
has issue date	2019-12-27(xsd:dateTime)
bibo:doi	10.1186/s12917-019-2212-2
bibo:pmid	31881873
has license	cc-by
sha1sum (hex)	ba755009e5f7330a8344f1b2dd8e65d54b8488e8
schema:url	https://doi.org/10.1186/s12917-019-2212-2
resource representing a document's title	Prevalence and phylogenetic analysis of porcine diarrhea associated viruses in southern China from 2012 to 2018
has PubMed Central identifier	PMC6935106
has PubMed identifier	31881873
schema:publication	BMC Vet Res
resource representing a document's body	covid:ba755009e5f7330a8344f1b2dd8e65d54b8488e8#body_text
is schema:about of	named entity 'China' named entity '2018' named entity 'Prevalence' named entity 'ASSOCIATED VIRUSES' named entity 'PREVALENCE' named entity 'OUTBREAKS' named entity 'CAUSED BY' named entity '2018' named entity 'LARGE' named entity 'PIGS' named entity 'EVOLUTION' named entity 'FIELD' covid:arg/ba755009e5f7330a8344f1b2dd8e65d54b8488e8 named entity 'TO INVESTIGATE' named entity 'PIG' named entity 'SOUTHERN' named entity 'OCCURRED' named entity 'SEVERE DIARRHEA' named entity 'LATE' named entity 'SOUTHERN' named entity 'CHINA' named entity 'VIRUSES' named entity 'CHINA' named entity 'PREVALENCE' named entity 'BACKGROUND' named entity 'GENETIC' named entity 'DIARRHEA' named entity 'COLLECTED' named entity 'TESTED' named entity 'SAMPLES' named entity '168' named entity 'SCALE' named entity 'TOTAL' named entity 'ASSOCIATED VIRUSES' named entity 'DIARRHEA' named entity 'PORCINE' named entity '2018' named entity 'FARMS' named entity 'HAVE' named entity 'PHYLOGENETIC ANALYSIS' named entity 'RESPONSIBLE' named entity 'outbreaks' named entity 'viruses' named entity 'Southern China' named entity 'prevalence' named entity 'outbreaks' named entity 'diarrhea' named entity 'genetic evolution' named entity 'China' named entity 'genus' named entity 'Hunan provinces' named entity 'China' named entity 'virulent' named entity 'non-enveloped' named entity 'protein' named entity 'small intestines' named entity 'virus' named entity 'protein' named entity '97.7' named entity 'Philippines' named entity 'anorexia' named entity 'PEDV' named entity 'China' named entity 'PEDV' named entity 'China' named entity 'TGEV' named entity 'PEDV' named entity 'diarrhea' named entity 'PEDV' named entity 'genetic diversity' named entity 'deltacoronavirus'

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