About: Molecular characterization of the spike gene of the porcine epidemic diarrhea virus in Mexico, 2013

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About: Molecular characterization of the spike gene of the porcine epidemic diarrhea virus in Mexico, 2013–2016 Goto Sponge NotDistinct Permalink

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

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Molecular characterization of the spike gene of the porcine epidemic diarrhea virus in Mexico, 2013–2016
Creator	Ramírez-Mendoza, Humberto Cerriteño-Sánchez, Luis José, · Lara-Romero, Rocío Laura Márquez-Valdelamar, · Luis Gómez-Núñez, · Mendoza-Elvira, Susana Rivera-Benítez, Francisco
Source	Medline; PMC
abstract	In Mexico, the first outbreaks suggestive of the circulation of the porcine epidemic diarrhea virus (PEDV) were identified at the beginning of July 2013. To identify the molecular characteristics of the PEDV Spike (S) gene in Mexico, 116 samples of the intestine and diarrhea of piglets with clinical signs of porcine epidemic diarrhea (PED) were obtained. Samples were collected from 14 farms located in six states of Mexico (Jalisco, Puebla, Sonora, Veracruz, Guanajuato, and Michoacán) from 2013 to 2016. To identify PEDV, we used real-time RT-PCR to discriminate between non-INDEL and INDEL strains. We chose samples according to state and year to characterize the S gene. After amplification of the S gene, the obtained products were sequenced and assembled. The complete amino acid sequences of the spike protein were used to perform an epitope analysis, which was used to determine null mutations in regions SS2, SS6, and 2C10 compared to the sequences of G2. A phylogenetic analysis determined the circulation of G2b and INDEL strains in Mexico. However, several mutations were recorded in the collagenase equivalent (COE) region that were related to the change in polarity and charge of the amino acid residues. The PEDV strain circulating in Jalisco in 2016 has an insertion of three amino acids ((232)LGL(234)) and one change in the antigenic site of the COE region, and strains from the years 2015 and 2016 changed the index of the surface probability, which could be related to the re-emergence of disease outbreaks.
has issue date	2017-12-14(xsd:dateTime)
bibo:doi	10.1007/s11262-017-1528-x
bibo:pmid	29243063
has license	no-cc
sha1sum (hex)	9e31c7e67f3b134791cbe0adf9f4c636540a2656
schema:url	https://doi.org/10.1007/s11262-017-1528-x
resource representing a document's title	Molecular characterization of the spike gene of the porcine epidemic diarrhea virus in Mexico, 2013–2016
has PubMed Central identifier	PMC7088687
has PubMed identifier	29243063
schema:publication	Virus Genes
resource representing a document's body	covid:9e31c7e67f3b134791cbe0adf9f4c636540a2656#body_text
is schema:about of	named entity 'polarity' named entity 'disease' named entity 'PED' named entity 'region' named entity 'gene' named entity 'null mutations' named entity 'The' named entity 'Samples' named entity 'spike' named entity '2013' named entity 'gene' named entity 'COLLECTED' named entity 'IDENTIFIED' named entity 'MOLECULAR' named entity 'RECORDED' named entity '116' named entity 'YEARS' named entity 'CHOSE' named entity 'PROBABILITY' named entity 'EMERGENCE' named entity 'EPITOPE ANALYSIS' named entity 'CHARACTERISTICS' named entity 'SPIKE PROTEIN' named entity 'AMINO ACID SEQUENCES' named entity 'JALISCO' named entity 'MOLECULAR' named entity 'PRODUCTS' named entity '232' named entity 'SUGGESTIVE OF' named entity 'INDEX' named entity 'VERACRUZ' named entity 'LOCATED IN' named entity 'TO IDENTIFY' named entity 'AMINO ACID' named entity 'STRAIN' named entity 'CHANGE IN' named entity 'COMPARED' named entity 'USED' named entity 'DISCRIMINATE' named entity 'POLARITY' named entity 'INTESTINE' named entity 'OUTBREAKS' named entity 'LGL' named entity 'PORCINE EPIDEMIC DIARRHEA VIRUS' named entity 'MEXICO' named entity 'DETERMINE' named entity 'GENE' named entity 'SPIKE' named entity 'CHARACTERIZATION' named entity 'COMPLETE' named entity 'PORCINE EPIDEMIC DIARRHEA' named entity 'SS2' named entity 'SS6' named entity 'YEAR' named entity 'ACCORDING' named entity 'NON-' named entity 'CHANGED' named entity 'DIARRHEA' named entity 'GUANAJUATO' named entity 'PHYLOGENETIC ANALYSIS' named entity 'COLLAGENASE' named entity 'PUEBLA' named entity '2015' named entity 'SONORA' named entity '28S' named entity 'SEQUENCES' named entity 'EQUIVALENT' named entity 'DISEASE OUTBREAKS' named entity 'INSERTION' named entity 'SURFACE' named entity 'OBTAINED' named entity 'STATE' named entity 'THE CHANGE' named entity 'PERFORM'

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