About: Genomic and evolutionary inferences between American and global strains of porcine epidemic diarrhea virus

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

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type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Genomic and evolutionary inferences between American and global strains of porcine epidemic diarrhea virus
Creator	Marthaler, Douglas Wang, Qiuhong Zhang, Yan Zhang, Jianqiang Wang, Leyi Vlasova, Anastasia Murtaugh, Michael Hesse, Richard Hause, Ben Nelson, Martha Jarvis, Matthew Lam, Ham
Source	Elsevier; Medline; PMC
abstract	Abstract Porcine epidemic diarrhea virus (PEDV) has caused severe economic losses both recently in the United States (US) and historically throughout Europe and Asia. Traditionally, analysis of the spike gene has been used to determine phylogenetic relationships between PEDV strains. We determined the complete genomes of 93 PEDV field samples from US swine and analyzed the data in conjunction with complete genome sequences available from GenBank (n =126) to determine the most variable genomic areas. Our results indicate high levels of variation within the ORF1 and spike regions while the C-terminal domains of structural genes were highly conserved. Analysis of the Receptor Binding Domains in the spike gene revealed a limited number of amino acid substitutions in US strains compared to Asian strains. Phylogenetic analysis of the complete genome sequence data revealed high rates of recombination, resulting in differing evolutionary patterns in phylogenies inferred for the spike region versus whole genomes. These finding suggest that significant genetic events outside of the spike region have contributed to the evolution of PEDV.
has issue date	2016-01-01(xsd:dateTime)
bibo:doi	10.1016/j.prevetmed.2015.10.020
bibo:pmid	26611651
has license	els-covid
sha1sum (hex)	fc6e9b9c9d5f27c0f6035c3011603426a1674617
schema:url	https://doi.org/10.1016/j.prevetmed.2015.10.020
resource representing a document's title	Genomic and evolutionary inferences between American and global strains of porcine epidemic diarrhea virus
has PubMed Central identifier	PMC7114344
has PubMed identifier	26611651
schema:publication	Preventive Veterinary Medicine
resource representing a document's body	covid:fc6e9b9c9d5f27c0f6035c3011603426a1674617#body_text
is schema:about of	named entity 'phylogenies' named entity 'strains' named entity 'Europe' named entity 'C-terminal' named entity 'Receptor' named entity 'These' named entity 'high' named entity 'GenBank' named entity 'epidemic' named entity 'American' named entity 'GLOBAL' named entity 'AMERICAN' named entity 'EVOLUTION' named entity 'NUMBER OF' named entity 'LICENSE' named entity 'PORCINE EPIDEMIC DIARRHEA VIRUS' named entity 'GENOME SEQUENCE' named entity 'RECEPTOR BINDING' named entity 'RELATIONSHIPS' named entity 'REGION' named entity 'SIGNIFICANT' named entity 'RATES' named entity 'PORCINE EPIDEMIC DIARRHEA VIRUS' named entity 'GENOME' named entity 'COMPARED' named entity 'CONSERVED' named entity 'C-TERMINAL' named entity 'SUGGEST' named entity 'ASIAN' named entity 'DATA' named entity 'OUTSIDE' named entity 'HAVE' named entity 'LIMITED' named entity 'SEQUENCES' named entity 'REGIONS' named entity 'ANALYSIS' named entity 'SAMPLES' named entity 'AREAS' named entity 'DETERMINE' named entity '126' named entity 'FIELD' named entity 'GENE' named entity 'RESULTING IN' named entity 'STRAINS' named entity 'ORG' named entity 'PATTERNS' named entity 'GENOMIC' named entity 'CAUSED' named entity 'FINDING' named entity 'GENOMES' named entity 'GENOMIC' named entity 'REVEALED' named entity 'CONJUNCTION' named entity 'HIGH' named entity 'STRAINS' named entity 'PHYLOGENETIC ANALYSIS' named entity 'ORF1' named entity 'NC-' named entity 'SWINE' named entity 'UNITED STATES' named entity 'ECONOMIC' named entity 'GENETIC' named entity 'THESE' named entity 'STRUCTURAL GENES' named entity 'SEQUENCE DATA' named entity 'GENBANK' named entity 'AMINO ACID SUBSTITUTIONS' named entity 'OUR' named entity 'RESULTS' named entity 'SEVERE'

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