Sequencing and comparative analysis of a pig bovine viral diarrhea virus genome
In present study, we report the first complete genomic sequence of pig bovine viral diarrhea (BVD) virus, that of strain ZM-95, which is 12,220 nucleotides long and contains short 5′ and 3′ non-coding regions and one open reading frame encoding a large polyprotein with 28 potential N-glycosylation s...
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| Veröffentlicht in: | Virus research 2006-12, Vol.122 (1), p.164-170 |
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| creator | Xu, Xingran Zhang, Qingchan Yu, Xinglong Liang, Long Xiao, Chang Xiang, Hua Tu, Changchun |
| description | In present study, we report the first complete genomic sequence of pig bovine viral diarrhea (BVD) virus, that of strain ZM-95, which is 12,220 nucleotides long and contains short 5′ and 3′ non-coding regions and one open reading frame encoding a large polyprotein with 28 potential
N-glycosylation sites (Asn-X-Ser or Asn-X-Thr). Within the non-structural protein encoding region, no foreign nucleotide insertions was found as those usually observed for cytopathogenic BVDV-1, but close to the 3′-terminal of the capsid protein (1119–1124
bp) it contains a short insertion of a six nucleotide sequence (CTCACA). Three hypervariable regions were identified in the polyprotein-encoding region, with one of them comprising a sequence motif encoding a unique five amino acid peptide HYKKK in glycoprotein E2 gene. The genomic comparison and phylogenetic analyses showed that ZM-95 should be classified into BVDV-1, but was genetically divergent from other pestiviruses sequenced to date since its highest genetic similarity was only 76.6% (with SD-1), therefore, placed as a novel subgroup of BVDV-1. |
| doi_str_mv | 10.1016/j.virusres.2006.05.005 |
| format | Article |
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N-glycosylation sites (Asn-X-Ser or Asn-X-Thr). Within the non-structural protein encoding region, no foreign nucleotide insertions was found as those usually observed for cytopathogenic BVDV-1, but close to the 3′-terminal of the capsid protein (1119–1124
bp) it contains a short insertion of a six nucleotide sequence (CTCACA). Three hypervariable regions were identified in the polyprotein-encoding region, with one of them comprising a sequence motif encoding a unique five amino acid peptide HYKKK in glycoprotein E2 gene. The genomic comparison and phylogenetic analyses showed that ZM-95 should be classified into BVDV-1, but was genetically divergent from other pestiviruses sequenced to date since its highest genetic similarity was only 76.6% (with SD-1), therefore, placed as a novel subgroup of BVDV-1.</description><identifier>ISSN: 0168-1702</identifier><identifier>EISSN: 1872-7492</identifier><identifier>DOI: 10.1016/j.virusres.2006.05.005</identifier><identifier>PMID: 16854490</identifier><language>eng</language><publisher>Netherlands: Elsevier B.V</publisher><subject>3' Untranslated Regions - genetics ; 5' Untranslated Regions - genetics ; Bovine viral diarrhea virus ; Capsid Proteins - genetics ; Complete genome ; Diarrhea Viruses, Bovine Viral - classification ; Diarrhea Viruses, Bovine Viral - genetics ; Diarrhea Viruses, Bovine Viral - isolation & purification ; Genome, Viral ; Glycosylation ; Molecular Sequence Data ; Open Reading Frames ; Phylogeny ; Pig BVDV ; Polyproteins - genetics ; Recombination, Genetic ; Sequence Analysis, DNA ; Sequence Homology ; Sequencing ; Viral Envelope Proteins - genetics ; Viral Nonstructural Proteins - genetics ; Viral Proteins - genetics</subject><ispartof>Virus research, 2006-12, Vol.122 (1), p.164-170</ispartof><rights>2006 Elsevier B.V.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c397t-3062168d4280188ab6db120d3b4d7a7d9197dd3571d46de300c4c895522946813</citedby><cites>FETCH-LOGICAL-c397t-3062168d4280188ab6db120d3b4d7a7d9197dd3571d46de300c4c895522946813</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://dx.doi.org/10.1016/j.virusres.2006.05.005$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>315,781,785,3551,27929,27930,46000</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/16854490$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Xu, Xingran</creatorcontrib><creatorcontrib>Zhang, Qingchan</creatorcontrib><creatorcontrib>Yu, Xinglong</creatorcontrib><creatorcontrib>Liang, Long</creatorcontrib><creatorcontrib>Xiao, Chang</creatorcontrib><creatorcontrib>Xiang, Hua</creatorcontrib><creatorcontrib>Tu, Changchun</creatorcontrib><title>Sequencing and comparative analysis of a pig bovine viral diarrhea virus genome</title><title>Virus research</title><addtitle>Virus Res</addtitle><description>In present study, we report the first complete genomic sequence of pig bovine viral diarrhea (BVD) virus, that of strain ZM-95, which is 12,220 nucleotides long and contains short 5′ and 3′ non-coding regions and one open reading frame encoding a large polyprotein with 28 potential
N-glycosylation sites (Asn-X-Ser or Asn-X-Thr). Within the non-structural protein encoding region, no foreign nucleotide insertions was found as those usually observed for cytopathogenic BVDV-1, but close to the 3′-terminal of the capsid protein (1119–1124
bp) it contains a short insertion of a six nucleotide sequence (CTCACA). Three hypervariable regions were identified in the polyprotein-encoding region, with one of them comprising a sequence motif encoding a unique five amino acid peptide HYKKK in glycoprotein E2 gene. The genomic comparison and phylogenetic analyses showed that ZM-95 should be classified into BVDV-1, but was genetically divergent from other pestiviruses sequenced to date since its highest genetic similarity was only 76.6% (with SD-1), therefore, placed as a novel subgroup of BVDV-1.</description><subject>3' Untranslated Regions - genetics</subject><subject>5' Untranslated Regions - genetics</subject><subject>Bovine viral diarrhea virus</subject><subject>Capsid Proteins - genetics</subject><subject>Complete genome</subject><subject>Diarrhea Viruses, Bovine Viral - classification</subject><subject>Diarrhea Viruses, Bovine Viral - genetics</subject><subject>Diarrhea Viruses, Bovine Viral - isolation & purification</subject><subject>Genome, Viral</subject><subject>Glycosylation</subject><subject>Molecular Sequence Data</subject><subject>Open Reading Frames</subject><subject>Phylogeny</subject><subject>Pig BVDV</subject><subject>Polyproteins - genetics</subject><subject>Recombination, Genetic</subject><subject>Sequence Analysis, DNA</subject><subject>Sequence Homology</subject><subject>Sequencing</subject><subject>Viral Envelope Proteins - genetics</subject><subject>Viral Nonstructural Proteins - genetics</subject><subject>Viral Proteins - genetics</subject><issn>0168-1702</issn><issn>1872-7492</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2006</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkE1PAyEQhonR2PrxFxpO3nYdWBaWm8b4lZh4UM-EhWml2Y8KbRP_vWhrPHqaMHlm3uEhZMagZMDk5bLchrhJEVPJAWQJdQlQH5ApaxQvlND8kEwz2BRMAZ-Qk5SWkMFKyWMyyf1aCA1T8vyCHxscXBgW1A6eurFf2WjXYYv5bbvPFBId59TSVVjQdtyGAWmOth31wcb4jpb-XEIXOIw9npGjue0Snu_rKXm7u329eSienu8fb66fCldptS4qkDwf4QVvgDWNbaVvGQdftcIrq7xmWnlf1Yp5IT1WAE64Rtc151rIhlWn5GK3dxXH_IG0Nn1IDrvODjhukpE679Va_AsyXTW1lCqDcge6OKYsdm5WMfQ2fhoG5tu5WZpf5-bbuYHaZOd5cLZP2LQ9-r-xveQMXO0AzEK2AaNJLmTn6ENEtzZ-DP9lfAHuTJW0</recordid><startdate>20061201</startdate><enddate>20061201</enddate><creator>Xu, Xingran</creator><creator>Zhang, Qingchan</creator><creator>Yu, Xinglong</creator><creator>Liang, Long</creator><creator>Xiao, Chang</creator><creator>Xiang, Hua</creator><creator>Tu, Changchun</creator><general>Elsevier B.V</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7U9</scope><scope>8FD</scope><scope>FR3</scope><scope>H94</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>20061201</creationdate><title>Sequencing and comparative analysis of a pig bovine viral diarrhea virus genome</title><author>Xu, Xingran ; 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N-glycosylation sites (Asn-X-Ser or Asn-X-Thr). Within the non-structural protein encoding region, no foreign nucleotide insertions was found as those usually observed for cytopathogenic BVDV-1, but close to the 3′-terminal of the capsid protein (1119–1124
bp) it contains a short insertion of a six nucleotide sequence (CTCACA). Three hypervariable regions were identified in the polyprotein-encoding region, with one of them comprising a sequence motif encoding a unique five amino acid peptide HYKKK in glycoprotein E2 gene. The genomic comparison and phylogenetic analyses showed that ZM-95 should be classified into BVDV-1, but was genetically divergent from other pestiviruses sequenced to date since its highest genetic similarity was only 76.6% (with SD-1), therefore, placed as a novel subgroup of BVDV-1.</abstract><cop>Netherlands</cop><pub>Elsevier B.V</pub><pmid>16854490</pmid><doi>10.1016/j.virusres.2006.05.005</doi><tpages>7</tpages></addata></record> |
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| subjects | 3' Untranslated Regions - genetics 5' Untranslated Regions - genetics Bovine viral diarrhea virus Capsid Proteins - genetics Complete genome Diarrhea Viruses, Bovine Viral - classification Diarrhea Viruses, Bovine Viral - genetics Diarrhea Viruses, Bovine Viral - isolation & purification Genome, Viral Glycosylation Molecular Sequence Data Open Reading Frames Phylogeny Pig BVDV Polyproteins - genetics Recombination, Genetic Sequence Analysis, DNA Sequence Homology Sequencing Viral Envelope Proteins - genetics Viral Nonstructural Proteins - genetics Viral Proteins - genetics |
| title | Sequencing and comparative analysis of a pig bovine viral diarrhea virus genome |
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