Identification of genomic variations among geographic isolates of white spot syndrome virus using restriction analysis and Southern blot hybridization
White spot syndrome virus (WSSV) is widely distributed in most of the Asian countries where penaeid shrimp are cultured, as well as in some regions of the USA. Six geographic isolates of WSSV-1 each from penaeid shrimp from China, India, Thailand, and the US states of Texas and South Carolina, and 1...
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| Veröffentlicht in: | Diseases of aquatic organisms 2000-12, Vol.43 (3), p.175-181 |
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| description | White spot syndrome virus (WSSV) is widely distributed in most of the Asian countries where penaeid shrimp are cultured, as well as in some regions of the USA. Six geographic isolates of WSSV-1 each from penaeid shrimp from China, India, Thailand, and the US states of Texas and South Carolina, and 1 isolated from crayfish at the National Zoological Park in Washington, DC-were compared by combining the methods of restriction analysis and Southern blot hybridization. DNA was extracted from purified viruses and then digested with selected endonucleases: AccI, BglII, ClaI, BamHI, EcoRI, HindII, HaeI, SacI and XhoI. The blots were detected with digoxigenin-11-dUTP-labeled WSSV genomic probes: LN4, C42 and A6. No distinctive differences among the 5 WSSV isolates from penaeid shrimp were detected; however, differences in the WSSV isolate from crayfish were observed. A 2.8 kb DNA fragment originating from the crayfish isolate and encompassing the LN4 region was subcloned into pBluescript and sequenced for comparison with the LN4 fragment from the Thailand WSSV isolate. The results indicate that some genomic components of WSSV from different geographic regions share a high degree of homology. This method can be used to distinguish between the WSSV isolate from crayfish and the WSSV isolates from penaeid shrimp. |
| doi_str_mv | 10.3354/dao043175 |
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Six geographic isolates of WSSV-1 each from penaeid shrimp from China, India, Thailand, and the US states of Texas and South Carolina, and 1 isolated from crayfish at the National Zoological Park in Washington, DC-were compared by combining the methods of restriction analysis and Southern blot hybridization. DNA was extracted from purified viruses and then digested with selected endonucleases: AccI, BglII, ClaI, BamHI, EcoRI, HindII, HaeI, SacI and XhoI. The blots were detected with digoxigenin-11-dUTP-labeled WSSV genomic probes: LN4, C42 and A6. No distinctive differences among the 5 WSSV isolates from penaeid shrimp were detected; however, differences in the WSSV isolate from crayfish were observed. A 2.8 kb DNA fragment originating from the crayfish isolate and encompassing the LN4 region was subcloned into pBluescript and sequenced for comparison with the LN4 fragment from the Thailand WSSV isolate. The results indicate that some genomic components of WSSV from different geographic regions share a high degree of homology. This method can be used to distinguish between the WSSV isolate from crayfish and the WSSV isolates from penaeid shrimp.</description><identifier>ISSN: 0177-5103</identifier><identifier>EISSN: 1616-1580</identifier><identifier>DOI: 10.3354/dao043175</identifier><identifier>PMID: 11206732</identifier><identifier>CODEN: DAOREO</identifier><language>eng</language><publisher>Oldendorf: Inter-Research</publisher><subject>Animals ; Astacoidea - chemistry ; Astacoidea - genetics ; Astacoidea - virology ; Base Sequence ; Biological and medical sciences ; Blotting, Southern - veterinary ; Brackish ; Cambaridae ; China ; China - epidemiology ; Cloning, Molecular ; Decapoda (Crustacea) - chemistry ; Decapoda (Crustacea) - genetics ; Decapoda (Crustacea) - virology ; District of Columbia - epidemiology ; DNA Primers - chemistry ; DNA Probes - chemistry ; DNA Restriction Enzymes - chemistry ; DNA, Viral - chemistry ; DNA, Viral - isolation & purification ; Electrophoresis, Agar Gel - veterinary ; Fundamental and applied biological sciences. Psychology ; India ; India - epidemiology ; Marine ; Microbiology ; Molecular Sequence Data ; Penaeidae ; Penaeus ; Polymerase Chain Reaction - veterinary ; Replicative cycle, interference, host-virus relations, pathogenicity, miscellaneous strains ; Sequence Alignment ; South Carolina - epidemiology ; Specific Pathogen-Free Organisms ; Texas - epidemiology ; Thailand ; Thailand - epidemiology ; USA, District of Columbia ; USA, South Carolina ; USA, Texas ; Virology ; Viruses - chemistry ; Viruses - classification ; Viruses - genetics ; White spot syndrome virus</subject><ispartof>Diseases of aquatic organisms, 2000-12, Vol.43 (3), p.175-181</ispartof><rights>2001 INIST-CNRS</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c441t-5d19f70855339aed1c3fe7a3a5b60a1d998389bb43fbf151057b220ac1e9bbe63</citedby></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,780,784,3757,27923,27924</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=867648$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/11206732$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>QIONG WANG</creatorcontrib><creatorcontrib>NUNAN, Linda M</creatorcontrib><creatorcontrib>LIGHTNER, Donald V</creatorcontrib><title>Identification of genomic variations among geographic isolates of white spot syndrome virus using restriction analysis and Southern blot hybridization</title><title>Diseases of aquatic organisms</title><addtitle>Dis Aquat Organ</addtitle><description>White spot syndrome virus (WSSV) is widely distributed in most of the Asian countries where penaeid shrimp are cultured, as well as in some regions of the USA. Six geographic isolates of WSSV-1 each from penaeid shrimp from China, India, Thailand, and the US states of Texas and South Carolina, and 1 isolated from crayfish at the National Zoological Park in Washington, DC-were compared by combining the methods of restriction analysis and Southern blot hybridization. DNA was extracted from purified viruses and then digested with selected endonucleases: AccI, BglII, ClaI, BamHI, EcoRI, HindII, HaeI, SacI and XhoI. The blots were detected with digoxigenin-11-dUTP-labeled WSSV genomic probes: LN4, C42 and A6. No distinctive differences among the 5 WSSV isolates from penaeid shrimp were detected; however, differences in the WSSV isolate from crayfish were observed. A 2.8 kb DNA fragment originating from the crayfish isolate and encompassing the LN4 region was subcloned into pBluescript and sequenced for comparison with the LN4 fragment from the Thailand WSSV isolate. The results indicate that some genomic components of WSSV from different geographic regions share a high degree of homology. This method can be used to distinguish between the WSSV isolate from crayfish and the WSSV isolates from penaeid shrimp.</description><subject>Animals</subject><subject>Astacoidea - chemistry</subject><subject>Astacoidea - genetics</subject><subject>Astacoidea - virology</subject><subject>Base Sequence</subject><subject>Biological and medical sciences</subject><subject>Blotting, Southern - veterinary</subject><subject>Brackish</subject><subject>Cambaridae</subject><subject>China</subject><subject>China - epidemiology</subject><subject>Cloning, Molecular</subject><subject>Decapoda (Crustacea) - chemistry</subject><subject>Decapoda (Crustacea) - genetics</subject><subject>Decapoda (Crustacea) - virology</subject><subject>District of Columbia - epidemiology</subject><subject>DNA Primers - chemistry</subject><subject>DNA Probes - chemistry</subject><subject>DNA Restriction Enzymes - chemistry</subject><subject>DNA, Viral - chemistry</subject><subject>DNA, Viral - isolation & purification</subject><subject>Electrophoresis, Agar Gel - veterinary</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>India</subject><subject>India - epidemiology</subject><subject>Marine</subject><subject>Microbiology</subject><subject>Molecular Sequence Data</subject><subject>Penaeidae</subject><subject>Penaeus</subject><subject>Polymerase Chain Reaction - veterinary</subject><subject>Replicative cycle, interference, host-virus relations, pathogenicity, miscellaneous strains</subject><subject>Sequence Alignment</subject><subject>South Carolina - epidemiology</subject><subject>Specific Pathogen-Free Organisms</subject><subject>Texas - epidemiology</subject><subject>Thailand</subject><subject>Thailand - epidemiology</subject><subject>USA, District of Columbia</subject><subject>USA, South Carolina</subject><subject>USA, Texas</subject><subject>Virology</subject><subject>Viruses - chemistry</subject><subject>Viruses - classification</subject><subject>Viruses - genetics</subject><subject>White spot syndrome virus</subject><issn>0177-5103</issn><issn>1616-1580</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2000</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkU1rFEEQhhtRzBo9-AekQRA8jHZNf80cJZgYCHhQz0NNf-y2zHSv3TMJ6w_x99rZLPHoqeCtp94q6iXkNbAPnEvx0WJigoOWT8gGFKgGZMeekg0DrRsJjJ-RF6X8ZAzaXsJzcgbQMqV5uyF_rq2LS_DB4BJSpMnTrYtpDobeYg5HsVCcU9zWRtpm3O9qL5Q04eLKPX-3C4ujZZ8WWg7R5jQ7ehvyWuhaQh3Lriw5mKM9RpwOJVTHaOm3tC47lyMdpzq7O4w52PD7uPIleeZxKu7VqZ6TH5efv198aW6-Xl1ffLppjBCwNNJC7zXrpOS8R2fBcO80cpSjYgi27zve9eMouB891E9IPbYtQwOuqk7xc_LuwXef06-1HjrMoRg3TRhdWsugWylUz_r_gqA7UK0QFXz_AJqcSsnOD_scZsyHAdhwn9bwmFZl35xM13F29h95iqcCb08AFoOTzxhNKI9cp7QSHf8LVwGgqA</recordid><startdate>20001221</startdate><enddate>20001221</enddate><creator>QIONG WANG</creator><creator>NUNAN, Linda M</creator><creator>LIGHTNER, Donald V</creator><general>Inter-Research</general><scope>IQODW</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>7U9</scope><scope>8FD</scope><scope>F1W</scope><scope>FR3</scope><scope>H94</scope><scope>H95</scope><scope>H98</scope><scope>H99</scope><scope>L.F</scope><scope>L.G</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>20001221</creationdate><title>Identification of genomic variations among geographic isolates of white spot syndrome virus using restriction analysis and Southern blot hybridization</title><author>QIONG WANG ; NUNAN, Linda M ; LIGHTNER, Donald V</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c441t-5d19f70855339aed1c3fe7a3a5b60a1d998389bb43fbf151057b220ac1e9bbe63</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2000</creationdate><topic>Animals</topic><topic>Astacoidea - chemistry</topic><topic>Astacoidea - genetics</topic><topic>Astacoidea - virology</topic><topic>Base Sequence</topic><topic>Biological and medical sciences</topic><topic>Blotting, Southern - veterinary</topic><topic>Brackish</topic><topic>Cambaridae</topic><topic>China</topic><topic>China - epidemiology</topic><topic>Cloning, Molecular</topic><topic>Decapoda (Crustacea) - chemistry</topic><topic>Decapoda (Crustacea) - genetics</topic><topic>Decapoda (Crustacea) - virology</topic><topic>District of Columbia - epidemiology</topic><topic>DNA Primers - chemistry</topic><topic>DNA Probes - chemistry</topic><topic>DNA Restriction Enzymes - chemistry</topic><topic>DNA, Viral - chemistry</topic><topic>DNA, Viral - isolation & purification</topic><topic>Electrophoresis, Agar Gel - veterinary</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>India</topic><topic>India - epidemiology</topic><topic>Marine</topic><topic>Microbiology</topic><topic>Molecular Sequence Data</topic><topic>Penaeidae</topic><topic>Penaeus</topic><topic>Polymerase Chain Reaction - veterinary</topic><topic>Replicative cycle, interference, host-virus relations, pathogenicity, miscellaneous strains</topic><topic>Sequence Alignment</topic><topic>South Carolina - epidemiology</topic><topic>Specific Pathogen-Free Organisms</topic><topic>Texas - epidemiology</topic><topic>Thailand</topic><topic>Thailand - epidemiology</topic><topic>USA, District of Columbia</topic><topic>USA, South Carolina</topic><topic>USA, Texas</topic><topic>Virology</topic><topic>Viruses - chemistry</topic><topic>Viruses - classification</topic><topic>Viruses - genetics</topic><topic>White spot syndrome virus</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>QIONG WANG</creatorcontrib><creatorcontrib>NUNAN, Linda M</creatorcontrib><creatorcontrib>LIGHTNER, Donald V</creatorcontrib><collection>Pascal-Francis</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Virology and AIDS Abstracts</collection><collection>Technology Research Database</collection><collection>ASFA: Aquatic Sciences and Fisheries Abstracts</collection><collection>Engineering Research Database</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>Aquatic Science & Fisheries Abstracts (ASFA) 1: Biological Sciences & Living Resources</collection><collection>Aquatic Science & Fisheries Abstracts (ASFA) Aquaculture Abstracts</collection><collection>ASFA: Marine Biotechnology Abstracts</collection><collection>Aquatic Science & Fisheries Abstracts (ASFA) Marine Biotechnology Abstracts</collection><collection>Aquatic Science & Fisheries Abstracts (ASFA) Professional</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Diseases of aquatic organisms</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>QIONG WANG</au><au>NUNAN, Linda M</au><au>LIGHTNER, Donald V</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Identification of genomic variations among geographic isolates of white spot syndrome virus using restriction analysis and Southern blot hybridization</atitle><jtitle>Diseases of aquatic organisms</jtitle><addtitle>Dis Aquat Organ</addtitle><date>2000-12-21</date><risdate>2000</risdate><volume>43</volume><issue>3</issue><spage>175</spage><epage>181</epage><pages>175-181</pages><issn>0177-5103</issn><eissn>1616-1580</eissn><coden>DAOREO</coden><abstract>White spot syndrome virus (WSSV) is widely distributed in most of the Asian countries where penaeid shrimp are cultured, as well as in some regions of the USA. Six geographic isolates of WSSV-1 each from penaeid shrimp from China, India, Thailand, and the US states of Texas and South Carolina, and 1 isolated from crayfish at the National Zoological Park in Washington, DC-were compared by combining the methods of restriction analysis and Southern blot hybridization. DNA was extracted from purified viruses and then digested with selected endonucleases: AccI, BglII, ClaI, BamHI, EcoRI, HindII, HaeI, SacI and XhoI. The blots were detected with digoxigenin-11-dUTP-labeled WSSV genomic probes: LN4, C42 and A6. No distinctive differences among the 5 WSSV isolates from penaeid shrimp were detected; however, differences in the WSSV isolate from crayfish were observed. A 2.8 kb DNA fragment originating from the crayfish isolate and encompassing the LN4 region was subcloned into pBluescript and sequenced for comparison with the LN4 fragment from the Thailand WSSV isolate. The results indicate that some genomic components of WSSV from different geographic regions share a high degree of homology. This method can be used to distinguish between the WSSV isolate from crayfish and the WSSV isolates from penaeid shrimp.</abstract><cop>Oldendorf</cop><pub>Inter-Research</pub><pmid>11206732</pmid><doi>10.3354/dao043175</doi><tpages>7</tpages><oa>free_for_read</oa></addata></record> |
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| ispartof | Diseases of aquatic organisms, 2000-12, Vol.43 (3), p.175-181 |
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| source | MEDLINE; Inter-Research; EZB-FREE-00999 freely available EZB journals; Alma/SFX Local Collection |
| subjects | Animals Astacoidea - chemistry Astacoidea - genetics Astacoidea - virology Base Sequence Biological and medical sciences Blotting, Southern - veterinary Brackish Cambaridae China China - epidemiology Cloning, Molecular Decapoda (Crustacea) - chemistry Decapoda (Crustacea) - genetics Decapoda (Crustacea) - virology District of Columbia - epidemiology DNA Primers - chemistry DNA Probes - chemistry DNA Restriction Enzymes - chemistry DNA, Viral - chemistry DNA, Viral - isolation & purification Electrophoresis, Agar Gel - veterinary Fundamental and applied biological sciences. Psychology India India - epidemiology Marine Microbiology Molecular Sequence Data Penaeidae Penaeus Polymerase Chain Reaction - veterinary Replicative cycle, interference, host-virus relations, pathogenicity, miscellaneous strains Sequence Alignment South Carolina - epidemiology Specific Pathogen-Free Organisms Texas - epidemiology Thailand Thailand - epidemiology USA, District of Columbia USA, South Carolina USA, Texas Virology Viruses - chemistry Viruses - classification Viruses - genetics White spot syndrome virus |
| title | Identification of genomic variations among geographic isolates of white spot syndrome virus using restriction analysis and Southern blot hybridization |
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