Nucleotide sequence and RT-PCR detection of a virus associated with grapevine rupestris stem-pitting disease
Grapevine rupestris stem pitting (RSP) is a graft-transmissible disease of unknown etiology. We have characterized a virus associated with this disease. The entire genomic sequence (GenBank accession number AF026278) consisted of 8,725 nucleotides excluding a poly(A) tail. Six open reading frames (O...
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| Veröffentlicht in: | Phytopathology 1998-11, Vol.88 (11), p.1231-1237 |
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| creator | Zhang, Y.P Uyemoto, J.K Golino, D.A Rowhani, A |
| description | Grapevine rupestris stem pitting (RSP) is a graft-transmissible disease of unknown etiology. We have characterized a virus associated with this disease. The entire genomic sequence (GenBank accession number AF026278) consisted of 8,725 nucleotides excluding a poly(A) tail. Six open reading frames (ORE) were found. ORF1 potentially encodes a polypeptide with a methyltransferase domain, a papain-like proteinase domain, a helicase domain, and a RNA-dependent RNA polymerase domain; ORF2, ORF3, and ORF4 compose a triple-gene block; ORF5 encodes a coat protein; and ORF6 is located near the 3' end with unknown function. Sequence analysis indicated that the virus is most similar to apple stem-pitting virus and may be allied with the carla- and potexviruses and grouped with other viruses that infect woody hosts. A specific reverse-transcription polymerase chain reaction (RT-PCR)-based detection method was developed. Among 62 grapevine sources known to be infected with rupestris stem-pitting disease, 60 sources tested positive by RT-PCR. Among 43 healthy vines tested, all were negative. The name grapevine rupestris stem-pitting-associated virus is proposed. |
| doi_str_mv | 10.1094/PHYTO.1998.88.11.1231 |
| format | Article |
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We have characterized a virus associated with this disease. The entire genomic sequence (GenBank accession number AF026278) consisted of 8,725 nucleotides excluding a poly(A) tail. Six open reading frames (ORE) were found. ORF1 potentially encodes a polypeptide with a methyltransferase domain, a papain-like proteinase domain, a helicase domain, and a RNA-dependent RNA polymerase domain; ORF2, ORF3, and ORF4 compose a triple-gene block; ORF5 encodes a coat protein; and ORF6 is located near the 3' end with unknown function. Sequence analysis indicated that the virus is most similar to apple stem-pitting virus and may be allied with the carla- and potexviruses and grouped with other viruses that infect woody hosts. A specific reverse-transcription polymerase chain reaction (RT-PCR)-based detection method was developed. Among 62 grapevine sources known to be infected with rupestris stem-pitting disease, 60 sources tested positive by RT-PCR. Among 43 healthy vines tested, all were negative. The name grapevine rupestris stem-pitting-associated virus is proposed.</description><identifier>ISSN: 0031-949X</identifier><identifier>EISSN: 1943-7684</identifier><identifier>DOI: 10.1094/PHYTO.1998.88.11.1231</identifier><identifier>PMID: 18944859</identifier><identifier>CODEN: PHYTAJ</identifier><language>eng</language><publisher>St. Paul, MN: American Phytopathological Society</publisher><subject>amino acid sequences ; Biological and medical sciences ; coat proteins ; diagnostic techniques ; Fundamental and applied biological sciences. Psychology ; genbank/af026278 ; genomics ; molecular sequence data ; nucleotide sequences ; pathogenicity ; Phytopathology. Animal pests. Plant and forest protection ; plant viruses ; Plant viruses and viroids ; polymerase chain reaction ; rapid methods ; reverse transcription ; symptoms ; Systematics. Structure, properties and multiplication. Genetics ; Vitis rupestris</subject><ispartof>Phytopathology, 1998-11, Vol.88 (11), p.1231-1237</ispartof><rights>1999 INIST-CNRS</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c443t-5fdcc66e4497c70a7c324d690bf6f5231defa947be9b0a8c3b9c53d4c02a42663</citedby><cites>FETCH-LOGICAL-c443t-5fdcc66e4497c70a7c324d690bf6f5231defa947be9b0a8c3b9c53d4c02a42663</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,780,784,3722,27923,27924</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=1635300$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/18944859$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Zhang, Y.P</creatorcontrib><creatorcontrib>Uyemoto, J.K</creatorcontrib><creatorcontrib>Golino, D.A</creatorcontrib><creatorcontrib>Rowhani, A</creatorcontrib><title>Nucleotide sequence and RT-PCR detection of a virus associated with grapevine rupestris stem-pitting disease</title><title>Phytopathology</title><addtitle>Phytopathology</addtitle><description>Grapevine rupestris stem pitting (RSP) is a graft-transmissible disease of unknown etiology. We have characterized a virus associated with this disease. The entire genomic sequence (GenBank accession number AF026278) consisted of 8,725 nucleotides excluding a poly(A) tail. Six open reading frames (ORE) were found. ORF1 potentially encodes a polypeptide with a methyltransferase domain, a papain-like proteinase domain, a helicase domain, and a RNA-dependent RNA polymerase domain; ORF2, ORF3, and ORF4 compose a triple-gene block; ORF5 encodes a coat protein; and ORF6 is located near the 3' end with unknown function. Sequence analysis indicated that the virus is most similar to apple stem-pitting virus and may be allied with the carla- and potexviruses and grouped with other viruses that infect woody hosts. A specific reverse-transcription polymerase chain reaction (RT-PCR)-based detection method was developed. Among 62 grapevine sources known to be infected with rupestris stem-pitting disease, 60 sources tested positive by RT-PCR. Among 43 healthy vines tested, all were negative. The name grapevine rupestris stem-pitting-associated virus is proposed.</description><subject>amino acid sequences</subject><subject>Biological and medical sciences</subject><subject>coat proteins</subject><subject>diagnostic techniques</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>genbank/af026278</subject><subject>genomics</subject><subject>molecular sequence data</subject><subject>nucleotide sequences</subject><subject>pathogenicity</subject><subject>Phytopathology. Animal pests. Plant and forest protection</subject><subject>plant viruses</subject><subject>Plant viruses and viroids</subject><subject>polymerase chain reaction</subject><subject>rapid methods</subject><subject>reverse transcription</subject><subject>symptoms</subject><subject>Systematics. Structure, properties and multiplication. Genetics</subject><subject>Vitis rupestris</subject><issn>0031-949X</issn><issn>1943-7684</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>1998</creationdate><recordtype>article</recordtype><recordid>eNpFkcFu1DAQhi0EosuWRwB8QOKU1I4dxz6iFVCkilbtVoKT5diTxSibpB6nqG9Pll2pp7l8_4z-bwh5x1nJmZEXN5e_ttclN0aXWpecl7wS_AVZcSNF0SgtX5IVY4IXRpqfZ-QN4h_GWKNr9ZqccW2k1LVZkf7H7HsYcwxAER5mGDxQNwR6uy1uNrc0QAaf4zjQsaOOPsY0I3WIo48uQ6B_Y_5Nd8lN8BgHoGmeAHOKSDHDvphiznHY0RARHMI5edW5HuHtaa7J_dcv281lcXX97fvm81XhpRS5qLvgvVIgpWl8w1zjRSWDMqztVFcvNQN0zsimBdMyp71oja9FkJ5VTlZKiTX5dNw7pXGphNnuI3roezfAOKNthGhkI5RcyPpI-jQiJujslOLepSfLmT14tv8924Nnq7Xl3B48L7n3pwtzu4fwnDqJXYCPJ8Chd32X3OAjPnNK1GJ5z5p8OGKdG63bLeLs_V3FuGCVYULKWvwDwIGRWw</recordid><startdate>19981101</startdate><enddate>19981101</enddate><creator>Zhang, Y.P</creator><creator>Uyemoto, J.K</creator><creator>Golino, D.A</creator><creator>Rowhani, A</creator><general>American Phytopathological Society</general><scope>FBQ</scope><scope>IQODW</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope></search><sort><creationdate>19981101</creationdate><title>Nucleotide sequence and RT-PCR detection of a virus associated with grapevine rupestris stem-pitting disease</title><author>Zhang, Y.P ; Uyemoto, J.K ; Golino, D.A ; Rowhani, A</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c443t-5fdcc66e4497c70a7c324d690bf6f5231defa947be9b0a8c3b9c53d4c02a42663</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>1998</creationdate><topic>amino acid sequences</topic><topic>Biological and medical sciences</topic><topic>coat proteins</topic><topic>diagnostic techniques</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>genbank/af026278</topic><topic>genomics</topic><topic>molecular sequence data</topic><topic>nucleotide sequences</topic><topic>pathogenicity</topic><topic>Phytopathology. Animal pests. Plant and forest protection</topic><topic>plant viruses</topic><topic>Plant viruses and viroids</topic><topic>polymerase chain reaction</topic><topic>rapid methods</topic><topic>reverse transcription</topic><topic>symptoms</topic><topic>Systematics. Structure, properties and multiplication. Genetics</topic><topic>Vitis rupestris</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Zhang, Y.P</creatorcontrib><creatorcontrib>Uyemoto, J.K</creatorcontrib><creatorcontrib>Golino, D.A</creatorcontrib><creatorcontrib>Rowhani, A</creatorcontrib><collection>AGRIS</collection><collection>Pascal-Francis</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><jtitle>Phytopathology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Zhang, Y.P</au><au>Uyemoto, J.K</au><au>Golino, D.A</au><au>Rowhani, A</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Nucleotide sequence and RT-PCR detection of a virus associated with grapevine rupestris stem-pitting disease</atitle><jtitle>Phytopathology</jtitle><addtitle>Phytopathology</addtitle><date>1998-11-01</date><risdate>1998</risdate><volume>88</volume><issue>11</issue><spage>1231</spage><epage>1237</epage><pages>1231-1237</pages><issn>0031-949X</issn><eissn>1943-7684</eissn><coden>PHYTAJ</coden><abstract>Grapevine rupestris stem pitting (RSP) is a graft-transmissible disease of unknown etiology. We have characterized a virus associated with this disease. The entire genomic sequence (GenBank accession number AF026278) consisted of 8,725 nucleotides excluding a poly(A) tail. Six open reading frames (ORE) were found. ORF1 potentially encodes a polypeptide with a methyltransferase domain, a papain-like proteinase domain, a helicase domain, and a RNA-dependent RNA polymerase domain; ORF2, ORF3, and ORF4 compose a triple-gene block; ORF5 encodes a coat protein; and ORF6 is located near the 3' end with unknown function. Sequence analysis indicated that the virus is most similar to apple stem-pitting virus and may be allied with the carla- and potexviruses and grouped with other viruses that infect woody hosts. A specific reverse-transcription polymerase chain reaction (RT-PCR)-based detection method was developed. Among 62 grapevine sources known to be infected with rupestris stem-pitting disease, 60 sources tested positive by RT-PCR. Among 43 healthy vines tested, all were negative. The name grapevine rupestris stem-pitting-associated virus is proposed.</abstract><cop>St. Paul, MN</cop><pub>American Phytopathological Society</pub><pmid>18944859</pmid><doi>10.1094/PHYTO.1998.88.11.1231</doi><tpages>7</tpages><oa>free_for_read</oa></addata></record> |
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| source | EZB-FREE-00999 freely available EZB journals; Alma/SFX Local Collection; American Phytopathological Society Journal Back Issues |
| subjects | amino acid sequences Biological and medical sciences coat proteins diagnostic techniques Fundamental and applied biological sciences. Psychology genbank/af026278 genomics molecular sequence data nucleotide sequences pathogenicity Phytopathology. Animal pests. Plant and forest protection plant viruses Plant viruses and viroids polymerase chain reaction rapid methods reverse transcription symptoms Systematics. Structure, properties and multiplication. Genetics Vitis rupestris |
| title | Nucleotide sequence and RT-PCR detection of a virus associated with grapevine rupestris stem-pitting disease |
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