Differentiation of Avian Poxvirus Strains on the Basis of Nucleotide Sequences of 4b Gene Fragment
Investigations for detection and differentiation of nine avian poxviruses (APVs) were carried out by the use of a polymerase chain reaction (PCR) combined with restriction enzyme analysis (REA) and further nucleotide sequence analysis. With one primer set, which framed a region within the fowl poxvi...
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| Veröffentlicht in: | Avian diseases 2004-09, Vol.48 (3), p.453-462 |
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| creator | Lüschow, D Hoffmann, T Hafez, H. M |
| description | Investigations for detection and differentiation of nine avian poxviruses (APVs) were carried out by the use of a polymerase chain reaction (PCR) combined with restriction enzyme analysis (REA) and further nucleotide sequence analysis. With one primer set, which framed a region within the fowl poxvirus 4b core protein gene, we were able to detect APV-specific DNA from 19 tested strains and isolates belonging to five defined Avipoxvirus species and four previously undefined isolated species. PCR results revealed no recognizable differences in size of amplified fragments among the different APVs. REA of PCR products with MseI and EcoRV allowed us to differentiate most of the tested avipox species. Nucleotide sequence analysis of the amplified fragments showed a nucleotide similarity of 72%–100% among the different species. Phylogenetic analysis documented five distinguishable sequence clusters in accordance with results obtained by REA. PCR in combination with REA and sequencing of the amplified fragments is a rapid and effective diagnostic system, and it is a new approach to refine epidemiologic studies of APV infections. |
| doi_str_mv | 10.1637/7111 |
| format | Article |
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M</creator><creatorcontrib>Lüschow, D ; Hoffmann, T ; Hafez, H. M</creatorcontrib><description>Investigations for detection and differentiation of nine avian poxviruses (APVs) were carried out by the use of a polymerase chain reaction (PCR) combined with restriction enzyme analysis (REA) and further nucleotide sequence analysis. With one primer set, which framed a region within the fowl poxvirus 4b core protein gene, we were able to detect APV-specific DNA from 19 tested strains and isolates belonging to five defined Avipoxvirus species and four previously undefined isolated species. PCR results revealed no recognizable differences in size of amplified fragments among the different APVs. REA of PCR products with MseI and EcoRV allowed us to differentiate most of the tested avipox species. Nucleotide sequence analysis of the amplified fragments showed a nucleotide similarity of 72%–100% among the different species. Phylogenetic analysis documented five distinguishable sequence clusters in accordance with results obtained by REA. PCR in combination with REA and sequencing of the amplified fragments is a rapid and effective diagnostic system, and it is a new approach to refine epidemiologic studies of APV infections.</description><identifier>ISSN: 0005-2086</identifier><identifier>EISSN: 1938-4351</identifier><identifier>DOI: 10.1637/7111</identifier><identifier>PMID: 15529967</identifier><language>eng</language><publisher>United States: American Association of Avian Pathologists, Inc</publisher><subject>Animals ; avian poxviruses ; Avipoxvirus ; Avipoxvirus - genetics ; Base Sequence ; Biological taxonomies ; Canaries ; Chickens ; Chickens - virology ; Cluster Analysis ; DNA ; DNA Primers ; genes ; Lesions ; Molecular Sequence Data ; nucleotide sequence analysis ; Nucleotide sequences ; pathogen identification ; phylogenetic analysis ; Phylogeny ; Polymerase Chain Reaction ; Poultry Diseases - genetics ; Poultry Diseases - virology ; Poxviridae ; Poxviridae Infections - genetics ; Poxviridae Infections - veterinary ; Regular s ; restriction enzyme analysis ; Restriction Mapping ; Sequence Analysis, DNA ; Sequence Homology ; Species Specificity ; strain differences ; strains ; vertebrate viruses ; Viral Core Proteins - genetics ; Viruses</subject><ispartof>Avian diseases, 2004-09, Vol.48 (3), p.453-462</ispartof><rights>American Association of Avian Pathologists</rights><rights>Copyright 2004 The American Association of Avian Pathologists, Inc.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-b411t-4b04b1a3c2d314916ac1f8578f8e04dd93aef9767ca9a2feed5b759dcaf743a43</citedby><cites>FETCH-LOGICAL-b411t-4b04b1a3c2d314916ac1f8578f8e04dd93aef9767ca9a2feed5b759dcaf743a43</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://bioone.org/doi/pdf/10.1637/7111$$EPDF$$P50$$Gbioone$$H</linktopdf><linktohtml>$$Uhttps://www.jstor.org/stable/1593497$$EHTML$$P50$$Gjstor$$H</linktohtml><link.rule.ids>314,780,784,803,26978,27924,27925,52363,58017,58250</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/15529967$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Lüschow, D</creatorcontrib><creatorcontrib>Hoffmann, T</creatorcontrib><creatorcontrib>Hafez, H. M</creatorcontrib><title>Differentiation of Avian Poxvirus Strains on the Basis of Nucleotide Sequences of 4b Gene Fragment</title><title>Avian diseases</title><addtitle>Avian Dis</addtitle><description>Investigations for detection and differentiation of nine avian poxviruses (APVs) were carried out by the use of a polymerase chain reaction (PCR) combined with restriction enzyme analysis (REA) and further nucleotide sequence analysis. With one primer set, which framed a region within the fowl poxvirus 4b core protein gene, we were able to detect APV-specific DNA from 19 tested strains and isolates belonging to five defined Avipoxvirus species and four previously undefined isolated species. PCR results revealed no recognizable differences in size of amplified fragments among the different APVs. REA of PCR products with MseI and EcoRV allowed us to differentiate most of the tested avipox species. Nucleotide sequence analysis of the amplified fragments showed a nucleotide similarity of 72%–100% among the different species. Phylogenetic analysis documented five distinguishable sequence clusters in accordance with results obtained by REA. PCR in combination with REA and sequencing of the amplified fragments is a rapid and effective diagnostic system, and it is a new approach to refine epidemiologic studies of APV infections.</description><subject>Animals</subject><subject>avian poxviruses</subject><subject>Avipoxvirus</subject><subject>Avipoxvirus - genetics</subject><subject>Base Sequence</subject><subject>Biological taxonomies</subject><subject>Canaries</subject><subject>Chickens</subject><subject>Chickens - virology</subject><subject>Cluster Analysis</subject><subject>DNA</subject><subject>DNA Primers</subject><subject>genes</subject><subject>Lesions</subject><subject>Molecular Sequence Data</subject><subject>nucleotide sequence analysis</subject><subject>Nucleotide sequences</subject><subject>pathogen identification</subject><subject>phylogenetic analysis</subject><subject>Phylogeny</subject><subject>Polymerase Chain Reaction</subject><subject>Poultry Diseases - genetics</subject><subject>Poultry Diseases - virology</subject><subject>Poxviridae</subject><subject>Poxviridae Infections - genetics</subject><subject>Poxviridae Infections - veterinary</subject><subject>Regular s</subject><subject>restriction enzyme analysis</subject><subject>Restriction Mapping</subject><subject>Sequence Analysis, DNA</subject><subject>Sequence Homology</subject><subject>Species Specificity</subject><subject>strain differences</subject><subject>strains</subject><subject>vertebrate viruses</subject><subject>Viral Core Proteins - genetics</subject><subject>Viruses</subject><issn>0005-2086</issn><issn>1938-4351</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2004</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNptkE1P3DAQhq0KVBboP6haq0LcQj2xY8fHLeVLQm2lLedokoyp0W5M7QTBvychK8GB00jzPnpm9DJ2COIEtDTfDQB8YAuwssyULGCHLYQQRZaLUu-x_ZTuhABjtfjI9qAocmu1WbD6p3eOInW9x96HjgfHlw8eO_4nPD74OCS-6iP6LvEx7P8R_4HJpwn7NTRrCr1via_o_0BdQy97VfML6oifR7zdjOJDtutwnejTdh6wm_Ozv6eX2fXvi6vT5XVWK4A-U7VQNaBs8laCsqCxAVcWpnQlCdW2ViI5a7Rp0GLuiNqiNoVtG3RGSVTygB3P3vsYxndSX218ami9xo7CkCptxGhTcgSPZrCJIaVIrrqPfoPxqQJRTV1WU5cj9mXrG-oNta_QtrwR-DwDd6kP8U1upbJT_HWOHYYKb6NP1c0qFyCFsFqXxXTh20zUPoSO3n_jGRimi4k</recordid><startdate>20040901</startdate><enddate>20040901</enddate><creator>Lüschow, D</creator><creator>Hoffmann, T</creator><creator>Hafez, H. M</creator><general>American Association of Avian Pathologists, Inc</general><scope>FBQ</scope><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>7X8</scope></search><sort><creationdate>20040901</creationdate><title>Differentiation of Avian Poxvirus Strains on the Basis of Nucleotide Sequences of 4b Gene Fragment</title><author>Lüschow, D ; Hoffmann, T ; Hafez, H. M</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-b411t-4b04b1a3c2d314916ac1f8578f8e04dd93aef9767ca9a2feed5b759dcaf743a43</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2004</creationdate><topic>Animals</topic><topic>avian poxviruses</topic><topic>Avipoxvirus</topic><topic>Avipoxvirus - genetics</topic><topic>Base Sequence</topic><topic>Biological taxonomies</topic><topic>Canaries</topic><topic>Chickens</topic><topic>Chickens - virology</topic><topic>Cluster Analysis</topic><topic>DNA</topic><topic>DNA Primers</topic><topic>genes</topic><topic>Lesions</topic><topic>Molecular Sequence Data</topic><topic>nucleotide sequence analysis</topic><topic>Nucleotide sequences</topic><topic>pathogen identification</topic><topic>phylogenetic analysis</topic><topic>Phylogeny</topic><topic>Polymerase Chain Reaction</topic><topic>Poultry Diseases - genetics</topic><topic>Poultry Diseases - virology</topic><topic>Poxviridae</topic><topic>Poxviridae Infections - genetics</topic><topic>Poxviridae Infections - veterinary</topic><topic>Regular s</topic><topic>restriction enzyme analysis</topic><topic>Restriction Mapping</topic><topic>Sequence Analysis, DNA</topic><topic>Sequence Homology</topic><topic>Species Specificity</topic><topic>strain differences</topic><topic>strains</topic><topic>vertebrate viruses</topic><topic>Viral Core Proteins - genetics</topic><topic>Viruses</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Lüschow, D</creatorcontrib><creatorcontrib>Hoffmann, T</creatorcontrib><creatorcontrib>Hafez, H. M</creatorcontrib><collection>AGRIS</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><jtitle>Avian diseases</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Lüschow, D</au><au>Hoffmann, T</au><au>Hafez, H. M</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Differentiation of Avian Poxvirus Strains on the Basis of Nucleotide Sequences of 4b Gene Fragment</atitle><jtitle>Avian diseases</jtitle><addtitle>Avian Dis</addtitle><date>2004-09-01</date><risdate>2004</risdate><volume>48</volume><issue>3</issue><spage>453</spage><epage>462</epage><pages>453-462</pages><issn>0005-2086</issn><eissn>1938-4351</eissn><abstract>Investigations for detection and differentiation of nine avian poxviruses (APVs) were carried out by the use of a polymerase chain reaction (PCR) combined with restriction enzyme analysis (REA) and further nucleotide sequence analysis. With one primer set, which framed a region within the fowl poxvirus 4b core protein gene, we were able to detect APV-specific DNA from 19 tested strains and isolates belonging to five defined Avipoxvirus species and four previously undefined isolated species. PCR results revealed no recognizable differences in size of amplified fragments among the different APVs. REA of PCR products with MseI and EcoRV allowed us to differentiate most of the tested avipox species. Nucleotide sequence analysis of the amplified fragments showed a nucleotide similarity of 72%–100% among the different species. Phylogenetic analysis documented five distinguishable sequence clusters in accordance with results obtained by REA. PCR in combination with REA and sequencing of the amplified fragments is a rapid and effective diagnostic system, and it is a new approach to refine epidemiologic studies of APV infections.</abstract><cop>United States</cop><pub>American Association of Avian Pathologists, Inc</pub><pmid>15529967</pmid><doi>10.1637/7111</doi><tpages>10</tpages></addata></record> |
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| ispartof | Avian diseases, 2004-09, Vol.48 (3), p.453-462 |
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| source | MEDLINE; BioOne Complete; JSTOR Archive Collection A-Z Listing |
| subjects | Animals avian poxviruses Avipoxvirus Avipoxvirus - genetics Base Sequence Biological taxonomies Canaries Chickens Chickens - virology Cluster Analysis DNA DNA Primers genes Lesions Molecular Sequence Data nucleotide sequence analysis Nucleotide sequences pathogen identification phylogenetic analysis Phylogeny Polymerase Chain Reaction Poultry Diseases - genetics Poultry Diseases - virology Poxviridae Poxviridae Infections - genetics Poxviridae Infections - veterinary Regular s restriction enzyme analysis Restriction Mapping Sequence Analysis, DNA Sequence Homology Species Specificity strain differences strains vertebrate viruses Viral Core Proteins - genetics Viruses |
| title | Differentiation of Avian Poxvirus Strains on the Basis of Nucleotide Sequences of 4b Gene Fragment |
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