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An RT-PCR primer pair for the detection of Pospiviroid and its application in surveying ornamental plants for viroids
A primer pair for reverse transcription-polymerase chain reaction (RT-PCR), based on the conserved sequences of the members of genus Pospiviroid was designed to yield a fragment of about 200 base pairs (bp). Since pospiviroids infect a large number of plants species and a few members of the genus Po...
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| Published in: | Journal of virological methods 2004-03, Vol.116 (2), p.189-193 |
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| container_title | Journal of virological methods |
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| creator | Bostan, Hidayet Nie, Xianzhou Singh, Rudra P |
| description | A primer pair for reverse transcription-polymerase chain reaction (RT-PCR), based on the conserved sequences of the members of genus
Pospiviroid was designed to yield a fragment of about 200 base pairs (bp). Since pospiviroids infect a large number of plants species and a few members of the genus
Pospiviroid have been already detected in some ornamental plants, the primer pair was evaluated for its efficacy using ornamental plants. The method of return-polyacrylamide gel electrophoresis (R-PAGE) was used to determine the general presence of viroids in the test samples. Efficacy of the primer pair for members of genus
Pospiviroid was demonstrated by the detection of Potato spindle tuber viroid (PSTVd) and Tomato chlorotic dwarf viroid (TCDVd) in potato, Chrysanthemum stunt viroid and Iresine viroid in
Verbena and
Vinca species, and Citrus exocortis viroid in
Impatiens species. Specificity of the primer pair became evident, where additional viroids were detected by R-PAGE in
Coleus and
Magilla species, but they were not amplified by the
Pospiviroid primer. This primer pair would be of benefit in indexing ornamental plants in quarantine samples or in viroid-free certification schemes, irrespective of their actual identity. |
| doi_str_mv | 10.1016/j.jviromet.2003.11.014 |
| format | article |
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Pospiviroid was designed to yield a fragment of about 200 base pairs (bp). Since pospiviroids infect a large number of plants species and a few members of the genus
Pospiviroid have been already detected in some ornamental plants, the primer pair was evaluated for its efficacy using ornamental plants. The method of return-polyacrylamide gel electrophoresis (R-PAGE) was used to determine the general presence of viroids in the test samples. Efficacy of the primer pair for members of genus
Pospiviroid was demonstrated by the detection of Potato spindle tuber viroid (PSTVd) and Tomato chlorotic dwarf viroid (TCDVd) in potato, Chrysanthemum stunt viroid and Iresine viroid in
Verbena and
Vinca species, and Citrus exocortis viroid in
Impatiens species. Specificity of the primer pair became evident, where additional viroids were detected by R-PAGE in
Coleus and
Magilla species, but they were not amplified by the
Pospiviroid primer. This primer pair would be of benefit in indexing ornamental plants in quarantine samples or in viroid-free certification schemes, irrespective of their actual identity.</description><identifier>ISSN: 0166-0934</identifier><identifier>EISSN: 1879-0984</identifier><identifier>DOI: 10.1016/j.jviromet.2003.11.014</identifier><identifier>PMID: 14738987</identifier><identifier>CODEN: JVMEDH</identifier><language>eng</language><publisher>London: Elsevier B.V</publisher><subject>Base Sequence ; Biological and medical sciences ; CEVd ; CLVd ; Coleus - virology ; CSVd ; DNA Primers ; Fundamental and applied biological sciences. Psychology ; Impatiens ; IrVd ; Microbiology ; Plant Diseases - virology ; Plants - virology ; potato spindle tuber virus ; Reverse Transcriptase Polymerase Chain Reaction - methods ; Techniques used in virology ; tomato chlorotic dwarf virus ; Verbena ; Vinca ; Viroids ; Viroids - genetics ; Viroids - isolation & purification ; Viroids - pathogenicity ; Virology</subject><ispartof>Journal of virological methods, 2004-03, Vol.116 (2), p.189-193</ispartof><rights>2003 Elsevier B.V.</rights><rights>2004 INIST-CNRS</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c491t-ffaeb01a613c2fbb3b41abf31adfc4e47e21a8f9e80aa6452914592cbc8621633</citedby><cites>FETCH-LOGICAL-c491t-ffaeb01a613c2fbb3b41abf31adfc4e47e21a8f9e80aa6452914592cbc8621633</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,776,780,27903,27904</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=15478183$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/14738987$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Bostan, Hidayet</creatorcontrib><creatorcontrib>Nie, Xianzhou</creatorcontrib><creatorcontrib>Singh, Rudra P</creatorcontrib><title>An RT-PCR primer pair for the detection of Pospiviroid and its application in surveying ornamental plants for viroids</title><title>Journal of virological methods</title><addtitle>J Virol Methods</addtitle><description>A primer pair for reverse transcription-polymerase chain reaction (RT-PCR), based on the conserved sequences of the members of genus
Pospiviroid was designed to yield a fragment of about 200 base pairs (bp). Since pospiviroids infect a large number of plants species and a few members of the genus
Pospiviroid have been already detected in some ornamental plants, the primer pair was evaluated for its efficacy using ornamental plants. The method of return-polyacrylamide gel electrophoresis (R-PAGE) was used to determine the general presence of viroids in the test samples. Efficacy of the primer pair for members of genus
Pospiviroid was demonstrated by the detection of Potato spindle tuber viroid (PSTVd) and Tomato chlorotic dwarf viroid (TCDVd) in potato, Chrysanthemum stunt viroid and Iresine viroid in
Verbena and
Vinca species, and Citrus exocortis viroid in
Impatiens species. Specificity of the primer pair became evident, where additional viroids were detected by R-PAGE in
Coleus and
Magilla species, but they were not amplified by the
Pospiviroid primer. This primer pair would be of benefit in indexing ornamental plants in quarantine samples or in viroid-free certification schemes, irrespective of their actual identity.</description><subject>Base Sequence</subject><subject>Biological and medical sciences</subject><subject>CEVd</subject><subject>CLVd</subject><subject>Coleus - virology</subject><subject>CSVd</subject><subject>DNA Primers</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Impatiens</subject><subject>IrVd</subject><subject>Microbiology</subject><subject>Plant Diseases - virology</subject><subject>Plants - virology</subject><subject>potato spindle tuber virus</subject><subject>Reverse Transcriptase Polymerase Chain Reaction - methods</subject><subject>Techniques used in virology</subject><subject>tomato chlorotic dwarf virus</subject><subject>Verbena</subject><subject>Vinca</subject><subject>Viroids</subject><subject>Viroids - genetics</subject><subject>Viroids - isolation & purification</subject><subject>Viroids - pathogenicity</subject><subject>Virology</subject><issn>0166-0934</issn><issn>1879-0984</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2004</creationdate><recordtype>article</recordtype><recordid>eNqFkc1u3CAURlHUKpmkeYWITbuzyzWMjXeNRm1TKVKjKF0jjC8tIxtcsEfK2xdnpsoyK1ic-_cdQm6AlcCg_rwv9wcXw4hzWTHGS4CSgTgjG5BNW7BWindkk8E6_7m4IJcp7Rlj24bzc3IBouGylc2GLLeePj4VD7tHOkU3YqSTdpHaEOn8B2mPM5rZBU-DpQ8hTW6d6nqqfU_dnKiepsEZ_YI4T9MSD_js_G8aotcj-lkPdBq0z-ja81idPpD3Vg8Jr0_vFfn17evT7q64__n9x-72vjCihbmwVmPHQNfATWW7jncCdGc56N4agaLBCrS0LUqmdS22VQti21amM7KuoOb8inw69p1i-LtgmtXoksEhL4RhSUoygBxE-yYITcuZaEQG6yNoYkgpolVrbDo-K2BqNaP26r8ZtZpRACqbyYU3pwlLN2L_WnZSkYGPJ0AnowcbtTcuvXJb0UiQ601fjhzm4A4Oo0rGoTfYu5hdqT64t3b5B7hJse0</recordid><startdate>20040315</startdate><enddate>20040315</enddate><creator>Bostan, Hidayet</creator><creator>Nie, Xianzhou</creator><creator>Singh, Rudra P</creator><general>Elsevier B.V</general><general>Elsevier</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>7QO</scope><scope>7T7</scope><scope>7U9</scope><scope>8FD</scope><scope>C1K</scope><scope>FR3</scope><scope>H94</scope><scope>P64</scope><scope>7X8</scope></search><sort><creationdate>20040315</creationdate><title>An RT-PCR primer pair for the detection of Pospiviroid and its application in surveying ornamental plants for viroids</title><author>Bostan, Hidayet ; Nie, Xianzhou ; Singh, Rudra P</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c491t-ffaeb01a613c2fbb3b41abf31adfc4e47e21a8f9e80aa6452914592cbc8621633</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2004</creationdate><topic>Base Sequence</topic><topic>Biological and medical sciences</topic><topic>CEVd</topic><topic>CLVd</topic><topic>Coleus - virology</topic><topic>CSVd</topic><topic>DNA Primers</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>Impatiens</topic><topic>IrVd</topic><topic>Microbiology</topic><topic>Plant Diseases - virology</topic><topic>Plants - virology</topic><topic>potato spindle tuber virus</topic><topic>Reverse Transcriptase Polymerase Chain Reaction - methods</topic><topic>Techniques used in virology</topic><topic>tomato chlorotic dwarf virus</topic><topic>Verbena</topic><topic>Vinca</topic><topic>Viroids</topic><topic>Viroids - genetics</topic><topic>Viroids - isolation & purification</topic><topic>Viroids - pathogenicity</topic><topic>Virology</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Bostan, Hidayet</creatorcontrib><creatorcontrib>Nie, Xianzhou</creatorcontrib><creatorcontrib>Singh, Rudra P</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>Biotechnology Research Abstracts</collection><collection>Industrial and Applied Microbiology Abstracts (Microbiology A)</collection><collection>Virology and AIDS Abstracts</collection><collection>Technology Research Database</collection><collection>Environmental Sciences and Pollution Management</collection><collection>Engineering Research Database</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Journal of virological methods</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Bostan, Hidayet</au><au>Nie, Xianzhou</au><au>Singh, Rudra P</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>An RT-PCR primer pair for the detection of Pospiviroid and its application in surveying ornamental plants for viroids</atitle><jtitle>Journal of virological methods</jtitle><addtitle>J Virol Methods</addtitle><date>2004-03-15</date><risdate>2004</risdate><volume>116</volume><issue>2</issue><spage>189</spage><epage>193</epage><pages>189-193</pages><issn>0166-0934</issn><eissn>1879-0984</eissn><coden>JVMEDH</coden><abstract>A primer pair for reverse transcription-polymerase chain reaction (RT-PCR), based on the conserved sequences of the members of genus
Pospiviroid was designed to yield a fragment of about 200 base pairs (bp). Since pospiviroids infect a large number of plants species and a few members of the genus
Pospiviroid have been already detected in some ornamental plants, the primer pair was evaluated for its efficacy using ornamental plants. The method of return-polyacrylamide gel electrophoresis (R-PAGE) was used to determine the general presence of viroids in the test samples. Efficacy of the primer pair for members of genus
Pospiviroid was demonstrated by the detection of Potato spindle tuber viroid (PSTVd) and Tomato chlorotic dwarf viroid (TCDVd) in potato, Chrysanthemum stunt viroid and Iresine viroid in
Verbena and
Vinca species, and Citrus exocortis viroid in
Impatiens species. Specificity of the primer pair became evident, where additional viroids were detected by R-PAGE in
Coleus and
Magilla species, but they were not amplified by the
Pospiviroid primer. This primer pair would be of benefit in indexing ornamental plants in quarantine samples or in viroid-free certification schemes, irrespective of their actual identity.</abstract><cop>London</cop><cop>Amsterdam</cop><cop>New York, NY</cop><pub>Elsevier B.V</pub><pmid>14738987</pmid><doi>10.1016/j.jviromet.2003.11.014</doi><tpages>5</tpages></addata></record> |
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| ispartof | Journal of virological methods, 2004-03, Vol.116 (2), p.189-193 |
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| language | eng |
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| source | ScienceDirect Journals |
| subjects | Base Sequence Biological and medical sciences CEVd CLVd Coleus - virology CSVd DNA Primers Fundamental and applied biological sciences. Psychology Impatiens IrVd Microbiology Plant Diseases - virology Plants - virology potato spindle tuber virus Reverse Transcriptase Polymerase Chain Reaction - methods Techniques used in virology tomato chlorotic dwarf virus Verbena Vinca Viroids Viroids - genetics Viroids - isolation & purification Viroids - pathogenicity Virology |
| title | An RT-PCR primer pair for the detection of Pospiviroid and its application in surveying ornamental plants for viroids |
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