About: Comparative Genomic Analysis of Classical and Variant Virulent Parental/Attenuated Strains of Porcine Epidemic Diarrhea Virus

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About: Comparative Genomic Analysis of Classical and Variant Virulent Parental/Attenuated Strains of Porcine Epidemic Diarrhea Virus 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
has title	Comparative Genomic Analysis of Classical and Variant Virulent Parental/Attenuated Strains of Porcine Epidemic Diarrhea Virus
Creator	He, Qigai Chen, Fangzhou Ku, Xugang Wu, Meizhou Zhu, Yinxing Guo, Xiaozhen Li, Zhonghua Ye, Shiyi
Source	Medline; PMC
abstract	Since 2010, the variant porcine epidemic diarrhea virus (PEDV) has been the etiological agent responsible for the outbreak of porcine epidemic diarrhea (PED) worldwide. In this study, a variant PEDV strain YN1 was isolated, serially propagated on the Vero cells and was characterized for 200 passages. To better elucidate the molecular basis of Vero cell adaptation of variant PEDV strains, we sequenced, compared, and analyzed the full-genome sequences of parental YN1 and passages 15, 30, 60, 90, 144, and 200. The results showed that the variations increased with the viral passage. The nucleotides sequences of non-structural protein (NSP)2, NSP4-7, NSP10, NSP12 and NSP13 genes did not change during the Vero cell adaptation process. After comparison of the variation characteristic of classical, variant virulent/attenuated strains, it was found that attenuation of PEDV virus was associated with 9−26 amino acid (aa) changes in open reading frames (ORF) 1a/b and S protein, early termination in ORF3, 1–3 aa changes in E, M and N protein and some nucleotide sequences’ synonymous mutations. The aa deletion at about 144 aa of S protein could be the attenuation marker for the PEDV. The pig study showed that the early termination in ORF3 was more important for virus cell adaptation than virus attenuation.
has issue date	2015-10-23(xsd:dateTime)
bibo:doi	10.3390/v7102891
bibo:pmid	26512689
has license	cc-by
sha1sum (hex)	bfe634ff1fa0e8f0a43c1bd5fa6e0b5bd17705ee
schema:url	https://doi.org/10.3390/v7102891
resource representing a document's title	Comparative Genomic Analysis of Classical and Variant Virulent Parental/Attenuated Strains of Porcine Epidemic Diarrhea Virus
has PubMed Central identifier	PMC4632399
has PubMed identifier	26512689
schema:publication	Viruses
resource representing a document's body	covid:bfe634ff1fa0e8f0a43c1bd5fa6e0b5bd17705ee#body_text
is schema:about of	named entity 'genes' named entity 'porcine' named entity 'isolated' named entity 'virulent' named entity 'attenuation' named entity 'open reading frames' named entity 'Attenuated' named entity 'STRAINS' named entity 'PORCINE EPIDEMIC DIARRHEA VIRUS' covid:arg/bfe634ff1fa0e8f0a43c1bd5fa6e0b5bd17705ee named entity 'NUCLEOTIDES' named entity 'PARENTAL' named entity 'STRAINS' named entity 'S PROTEIN' named entity 'PORCINE EPIDEMIC DIARRHEA' named entity 'EARLY' named entity 'PASSAGE' named entity 'BETTER' named entity 'OPEN READING FRAMES' named entity 'VARIANT' named entity 'CHANGE' named entity 'SEQUENCES' named entity 'ISOLATED' named entity 'ABOUT' named entity 'ATTENUATION' named entity 'IMPORTANT' named entity 'VIRUS ATTENUATION' named entity 'COULD BE' named entity '200' named entity 'PIG' named entity 'ANALYZED' named entity 'PROTEIN ' named entity 'VERO CELLS' named entity 'CLASSICAL' named entity '144' named entity 'STRUCTURAL PROTEIN' named entity 'CLASSICAL' named entity 'COMPARISON' named entity 'N PROTEIN' named entity 'NUCLEOTIDE SEQUENCES' named entity 'NSP4' named entity 'ADAPTATION' named entity 'TERMINATION' named entity 'RESPONSIBLE' named entity 'AGENT' named entity 'CELL' named entity 'VARIANT' named entity 'COMPARATIVE GENOMIC ANALYSIS' named entity 'STRAIN' named entity 'MOLECULAR BASIS' named entity 'PORCINE EPIDEMIC DIARRHEA VIRUS' named entity 'ORF3' named entity 'DID' named entity 'GENES' named entity 'VIRULENT' named entity 'SYNONYMOUS MUTATIONS' named entity '292' named entity '2FB' named entity 'CHARACTERIZED' named entity 'PARENTAL' named entity 'COMPARED' named entity 'DELETION' named entity '30%' named entity 'INCREASED' named entity 'NON-' named entity 'PROCESS' named entity 'FOUND' named entity 'VARIATION' named entity 'MARKER' named entity 'GENOME' named entity 'VIRULENT' named entity 'RESULTS' named entity 'VIRUS' named entity '90%'

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