About: Extinction and emergence of genomic haplotypes during the evolution of Avian coronavirus in chicken embryos

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About: Extinction and emergence of genomic haplotypes during the evolution of Avian coronavirus in chicken embryos 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	Extinction and emergence of genomic haplotypes during the evolution of Avian coronavirus in chicken embryos
Creator	Berg, Mikael Brandão, Paulo Hora, Aline Silva, Sheila Taniwaki, Sueli
Source	Medline; PMC
abstract	Avian coronavirus (AvCoV) is ubiquitously present on poultry as a multitude of virus lineages. Studies on AvCoV phenotypic traits are dependent on the isolation of field strains in chicken embryonated eggs, but the mutant spectrum on each isolate is not considered. This manuscript reports the previously unknown HTS (high throughput sequencing)-based complete genome haplotyping of AvCoV isolates after passages of two field strains in chicken embryonated eggs. For the first and third passages of strain 23/2013, virus loads were 6.699 log copies/ μL and 6 log copies/ μL and, for 38/2013, 5.699 log copies/μL and 2.699 log copies/μL of reaction, respectively. The first passage of strain 23/2013 contained no variant haplotype, while, for the third passage, five putative variant haplotypes were found, with > 99.9% full genome identity with each other and with the dominant genome. Regarding strain 38/2013, five variant haplotypes were found for the first passage, with > 99.9% full genome identity with each other and with the dominant genome, and a single variant haplotype was found. Extinction and emergence of haplotypes with polymorphisms in genes involved in receptor binding and regulation of RNA synthesis were observed, suggesting that phenotypic traits of AvCoV isolates are a result of their mutant spectrum.
has issue date	2020-04-22(xsd:dateTime)
bibo:doi	10.1590/1678-4685-gmb-2019-0064
bibo:pmid	32338275
has license	cc-by
sha1sum (hex)	87988877396809fa943e7e2d396f415337a3278e
schema:url	https://doi.org/10.1590/1678-4685-gmb-2019-0064
resource representing a document's title	Extinction and emergence of genomic haplotypes during the evolution of Avian coronavirus in chicken embryos
has PubMed Central identifier	PMC7249780
has PubMed identifier	32338275
schema:publication	Genet Mol Biol
resource representing a document's body	covid:87988877396809fa943e7e2d396f415337a3278e#body_text
is schema:about of	covid:arg/87988877396809fa943e7e2d396f415337a3278e named entity 'haplotypes' named entity 'haplotype' named entity 'haplotypes' named entity 'phenotypic traits' named entity 'Avian coronavirus' named entity '99.9%' named entity 'genome' named entity 'haplotypes' named entity 'Avian coronavirus' named entity 'protein' named entity 'passage number' named entity 'replicase' named entity 'genome' named entity 'vaccinology' named entity 'stem-loop' named entity 'molecular cloning' named entity 'glyco-protein' named entity 'virus' named entity 'mutation' named entity 'virus' named entity 'GenBank' named entity 'embryonated' named entity 'genomes' named entity 'Coronaviridae' named entity 'evolution' named entity 'kidneys' named entity 'inoculation' named entity 'haplotypes' named entity 'non-coding' named entity 'stop codons' named entity 'cloning' named entity 'SYBR' named entity 'pathogenesis' named entity 'genomes' named entity 'polymorphisms' named entity 'nonsynonymous substitution' named entity 'haplotypes' named entity 'intergenic' named entity 'sialic acid' named entity 'major force' named entity 'RNA' named entity 'glycoprotein' named entity 'standard curve' named entity 'haplotypes' named entity 'virus' named entity 'genotypes' named entity 'DNase' named entity 'haplotypes' named entity 'virus' named entity 'SNPs' named entity 'significance level' named entity 'haplotypes' named entity 'RNA replication' named entity 'quasispecies' named entity 'evolution' named entity 'virus' named entity 'cDNAs' named entity 'haplotypes' named entity '3'UTRs' named entity '99.9%' named entity 'Trizol' named entity 'subgenomic RNA' named entity 'genome' named entity 'quasispecies' named entity 'nucleocapsid protein' named entity 'highly contagious disease' named entity 'nucleocapsid' named entity 'vaccine' named entity 'haplotypes' named entity 'genetic drift' named entity 'genome' named entity 'cecal' named entity 'Life Technologies' named entity 'protein' named entity 'SNPs' named entity 'RNA replication'

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