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Complete genome sequence of canine astrovirus with molecular and epidemiological characterisation of UK strains.

Caddy SL, Goodfellow I - Vet. Microbiol. (2015)

Bottom Line: These viruses can also cause infection in a range of domestic and wild animal species.Sequencing of the capsid sequences from the four CaAstV strains found significant genetic heterogeneity, with only 80% amino acid identity between strains.The full genome sequence of two UK CaAstV strains was then determined, confirming that CaAstV conforms to the classic genome organisation of other astroviruses with ORF1a and ORF1b separated by a frameshift and ORF2 encoding the capsid protein.

View Article: PubMed Central - PubMed

Affiliation: Division of Virology, Department of Pathology, University of Cambridge, Addenbrookes Hospital, Cambridge CB2 2QQ, UK; Section of Virology, Faculty of Medicine, Imperial College London, St. Mary's Campus, London W2 1PG, UK. Electronic address: slc50@cam.ac.uk.

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Genome organisation of CaAstV. The genome is divided into three ORFs, with ORF1 divided by a frameshift site (A). The CaAstV of ORF1 is predicted to encode a serine protease (B) and a VPg protein (C). This is supported by alignment of the two CaAstV sequences with HAstV (human), FeAstV (feline) and CSLAstV (Californian sea lion) sequences. The suspected catalytic triad of the serine protease (B) is highlighted by the boxed residues, with the dotted box H residue (histidine) representing the substrate binding region. The boxed residues in (C) represent the C and N termini cleavage sites of VPg. The conserved KGK(N/T)K and TEXEY motifs of VPg proteins are highlighted in bold, with the TEKEY variation identified in CaAstV underlined. The tyrosine residues identified by a dashed box represent the site of covalent linkage of VPg to the RNA genome.
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fig0015: Genome organisation of CaAstV. The genome is divided into three ORFs, with ORF1 divided by a frameshift site (A). The CaAstV of ORF1 is predicted to encode a serine protease (B) and a VPg protein (C). This is supported by alignment of the two CaAstV sequences with HAstV (human), FeAstV (feline) and CSLAstV (Californian sea lion) sequences. The suspected catalytic triad of the serine protease (B) is highlighted by the boxed residues, with the dotted box H residue (histidine) representing the substrate binding region. The boxed residues in (C) represent the C and N termini cleavage sites of VPg. The conserved KGK(N/T)K and TEXEY motifs of VPg proteins are highlighted in bold, with the TEKEY variation identified in CaAstV underlined. The tyrosine residues identified by a dashed box represent the site of covalent linkage of VPg to the RNA genome.

Mentions: The complete CaAstV genome was determined from two samples, isolated from a 7-week-old crossbreed dog (strain Gillingham/2012/UK, GenBank accession number KP404149) and a 7-year-old Border Collie (strain Lincoln/2012/UK, KP404150). The total length of CaAstV Gillingham/2012/UK is 6600 nt and CaAst/Lincoln/2012/UK is 6572 nt. Each genome encodes three ORFs; ORF1a, ORF1b, and ORF2 flanked by a 5′ UTR, and a 3′ UTR plus a poly-A tail (Fig. 3). In human astroviruses, the 5′ UTR is 85 nt in length, whereas data from both CaAstV strains would indicate that the CaAstV 5′ UTR is 45 nt. The 83 nt 3′ UTR of human astrovirus is identical to 3′ UTR in CaAstV Lincoln/2012/UK, whereas the 3′ UTR of CaAstV Gillingham/2012/UK is 2 nt shorter. The nucleotide composition of both CaAstV strains is 29% A, 22% G, 26% T and 23% C. The G/C composition is 45%.


Complete genome sequence of canine astrovirus with molecular and epidemiological characterisation of UK strains.

Caddy SL, Goodfellow I - Vet. Microbiol. (2015)

Genome organisation of CaAstV. The genome is divided into three ORFs, with ORF1 divided by a frameshift site (A). The CaAstV of ORF1 is predicted to encode a serine protease (B) and a VPg protein (C). This is supported by alignment of the two CaAstV sequences with HAstV (human), FeAstV (feline) and CSLAstV (Californian sea lion) sequences. The suspected catalytic triad of the serine protease (B) is highlighted by the boxed residues, with the dotted box H residue (histidine) representing the substrate binding region. The boxed residues in (C) represent the C and N termini cleavage sites of VPg. The conserved KGK(N/T)K and TEXEY motifs of VPg proteins are highlighted in bold, with the TEKEY variation identified in CaAstV underlined. The tyrosine residues identified by a dashed box represent the site of covalent linkage of VPg to the RNA genome.
© Copyright Policy - CC BY
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4401448&req=5

fig0015: Genome organisation of CaAstV. The genome is divided into three ORFs, with ORF1 divided by a frameshift site (A). The CaAstV of ORF1 is predicted to encode a serine protease (B) and a VPg protein (C). This is supported by alignment of the two CaAstV sequences with HAstV (human), FeAstV (feline) and CSLAstV (Californian sea lion) sequences. The suspected catalytic triad of the serine protease (B) is highlighted by the boxed residues, with the dotted box H residue (histidine) representing the substrate binding region. The boxed residues in (C) represent the C and N termini cleavage sites of VPg. The conserved KGK(N/T)K and TEXEY motifs of VPg proteins are highlighted in bold, with the TEKEY variation identified in CaAstV underlined. The tyrosine residues identified by a dashed box represent the site of covalent linkage of VPg to the RNA genome.
Mentions: The complete CaAstV genome was determined from two samples, isolated from a 7-week-old crossbreed dog (strain Gillingham/2012/UK, GenBank accession number KP404149) and a 7-year-old Border Collie (strain Lincoln/2012/UK, KP404150). The total length of CaAstV Gillingham/2012/UK is 6600 nt and CaAst/Lincoln/2012/UK is 6572 nt. Each genome encodes three ORFs; ORF1a, ORF1b, and ORF2 flanked by a 5′ UTR, and a 3′ UTR plus a poly-A tail (Fig. 3). In human astroviruses, the 5′ UTR is 85 nt in length, whereas data from both CaAstV strains would indicate that the CaAstV 5′ UTR is 45 nt. The 83 nt 3′ UTR of human astrovirus is identical to 3′ UTR in CaAstV Lincoln/2012/UK, whereas the 3′ UTR of CaAstV Gillingham/2012/UK is 2 nt shorter. The nucleotide composition of both CaAstV strains is 29% A, 22% G, 26% T and 23% C. The G/C composition is 45%.

Bottom Line: These viruses can also cause infection in a range of domestic and wild animal species.Sequencing of the capsid sequences from the four CaAstV strains found significant genetic heterogeneity, with only 80% amino acid identity between strains.The full genome sequence of two UK CaAstV strains was then determined, confirming that CaAstV conforms to the classic genome organisation of other astroviruses with ORF1a and ORF1b separated by a frameshift and ORF2 encoding the capsid protein.

View Article: PubMed Central - PubMed

Affiliation: Division of Virology, Department of Pathology, University of Cambridge, Addenbrookes Hospital, Cambridge CB2 2QQ, UK; Section of Virology, Faculty of Medicine, Imperial College London, St. Mary's Campus, London W2 1PG, UK. Electronic address: slc50@cam.ac.uk.

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Related in: MedlinePlus