About: Genetic diversity in the yellow head nidovirus complex

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About: Genetic diversity in the yellow head nidovirus complex 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	Genetic diversity in the yellow head nidovirus complex
Creator	Walker, Peter Kiatpathomchai, Wansika Nielsen, Linda Phan, Thuy Cowley, Jeff Hodgson, Richard Wijegoonawardane, Priyanjalie
Source	Elsevier; Medline; PMC
abstract	Abstract Penaeus monodon shrimp collected from across the Indo-Pacific region during 1997–2004 were screened for the presence of yellow head-related viruses. Phylogenetic analyses of amplified ORF1b gene segments identified at least six distinct genetic lineages (genotypes). Genotype 1 (YHV) was detected only in shrimp with yellow head disease. Genotype 2 (GAV) was detected in diseased shrimp with the less severe condition described as mid-crop mortality syndrome and in healthy shrimp from Australia, Thailand and Vietnam. Other genotypes occurred commonly in healthy shrimp. Sequence comparisons of structural protein genes (ORF2 and ORF3), intergenic regions (IGRs) and the long 3′-UTR supported the delineation of genotypes and identified both conserved and variant structural features. In putative transcription regulating sequences (TRSs) encompassing the sub-genomic mRNA 5′-termini, a core motif (5′-GUCAAUUACAAC-3′) is absolutely conserved. A small (83 nt) open reading frame (ORF4) in the 3′-UTR of GAV is variously truncated in all other genotypes and a TRS-like element preceding ORF4 is invariably corrupted by a A > G/U substitution in the central core motif (5′-UU(G/U)CAAC-3′). The data support previous evidence that ORF4 is a non-functional gene under construction or deconstruction. The 3′-UTRs also contain predicted 3′-terminal hairpin-loop structures that are preserved in all genotypes by compensatory nucleotide substitutions, suggesting a role in polymerase recognition for minus-strand RNA synthesis.
has issue date	2008-10-25(xsd:dateTime)
bibo:doi	10.1016/j.virol.2008.07.005
bibo:pmid	18768192
has license	els-covid
sha1sum (hex)	0c5fbfd4840c2689fbec7ae1fcd204fbc937b7b1
schema:url	https://doi.org/10.1016/j.virol.2008.07.005
resource representing a document's title	Genetic diversity in the yellow head nidovirus complex
has PubMed Central identifier	PMC7103379
has PubMed identifier	18768192
schema:publication	Virology
resource representing a document's body	covid:0c5fbfd4840c2689fbec7ae1fcd204fbc937b7b1#body_text
is schema:about of	named entity 'COMPLEX' named entity 'YELLOW' named entity 'HEAD' named entity 'GENETIC DIVERSITY' named entity 'Genetic diversity' named entity 'PCR' named entity 'tiger shrimp' named entity 'genotype' named entity 'genotypes' named entity 'mouse hepatitis virus' named entity 'virion' named entity 'monodon' named entity 'gene sequences' named entity 'MHV' named entity 'virulence' named entity 'virus' named entity 'maximum parsimony' named entity 'Phylogenetic analysis' named entity 'nucleotide sequences' named entity 'genotype' named entity 'RNA' named entity 'Philippines' named entity 'deletions' named entity 'PCR primer' named entity 'shrimp' named entity 'N-linked glycosylation' named entity 'genotype' named entity 'amino acid sequence' named entity 'virus' named entity 'viruses' named entity 'China' named entity 'genome sequences' named entity 'Malaysia' named entity 'disulphide bridges' named entity 'genotypes' named entity 'genotypes' named entity 'genotype' named entity 'amplicon' named entity 'monodon' named entity 'genotype' named entity 'Australia' named entity 'subgenomic' named entity 'viruses' named entity 'GAV' named entity '2, 3' named entity 'genotype' named entity 'amino acid' named entity 'RNA' named entity 'genome' named entity 'gene' named entity 'postlarvae' named entity 'ORF2' named entity 'Invitrogen' named entity 'monodon' named entity 'genotype' named entity 'gene' named entity 'Thailand' named entity 'shrimp' named entity 'Sri Lanka' named entity 'nested PCR' named entity 'monodon' named entity 'shrimp' named entity 'GAV' named entity 'Indo-Pacific' named entity 'YHV' named entity 'genotypes' named entity '1, 2' named entity 'gene' named entity 'minus-strand' named entity 'virus' named entity 'Promega' named entity 'uridylate' named entity 'broodstock' named entity 'infection' named entity 'polyA tail'

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