Sequence and relationships of sugarcane mosaic and sorghum mosaic virus strains and development of RT-PCR-based RFLPs for strain discrimination
Sugarcane mosaic is the most widespread virus disease affecting sugarcane production. We have established a collection of seven prominent sugarcane mosaic potyvirus (SCMV) strains currently causing disease in sugarcane throughout the world and originally found in sugarcane in the United States. This...
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| Veröffentlicht in: | Phytopathology 1997-09, Vol.87 (9), p.932-939 |
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| description | Sugarcane mosaic is the most widespread virus disease affecting sugarcane production. We have established a collection of seven prominent sugarcane mosaic potyvirus (SCMV) strains currently causing disease in sugarcane throughout the world and originally found in sugarcane in the United States. This collection includes SCMV strains A, B, D, and E, and the sorghum mosaic virus (SrMV) strains SCH, SCI, and SCM. These viruses were propagated on Sorghum bicolor cv. Rio and purified. Cloned cDNAs representing 2.0 kb of the 3' termini, obtained after a reverse-transcriptase-polymerase chain reaction (RT-PCR) on purified virions using an oligo(dT) primer and degenerate primers with sequences located in the NIb gene, have been sequenced for each of these strains. A comparative analysis of the deduced amino acid sequences in the NIb and coat protein genes and of the nucleotide sequences in the 3'-untranslated region, among these seven viruses and among six other members of the SCMV subgroup, confirms that there are at least four, but suggests that there are five, distinct viruses in the SCMV complex. Based on these seven new sequences and on the available sequence data for six other members of the SCMV subgroup, we have developed group-specific primers for use in RT-PCR-based restriction fragment length polymorphism analysis for rapid discrimination between strains of SCMV and SrMV. This is the first assay for differentiating strains of SCMV and SrMV that does not require interpretation of symptoms on differential hosts |
| doi_str_mv | 10.1094/PHYTO.1997.87.9.932 |
| format | Article |
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We have established a collection of seven prominent sugarcane mosaic potyvirus (SCMV) strains currently causing disease in sugarcane throughout the world and originally found in sugarcane in the United States. This collection includes SCMV strains A, B, D, and E, and the sorghum mosaic virus (SrMV) strains SCH, SCI, and SCM. These viruses were propagated on Sorghum bicolor cv. Rio and purified. Cloned cDNAs representing 2.0 kb of the 3' termini, obtained after a reverse-transcriptase-polymerase chain reaction (RT-PCR) on purified virions using an oligo(dT) primer and degenerate primers with sequences located in the NIb gene, have been sequenced for each of these strains. A comparative analysis of the deduced amino acid sequences in the NIb and coat protein genes and of the nucleotide sequences in the 3'-untranslated region, among these seven viruses and among six other members of the SCMV subgroup, confirms that there are at least four, but suggests that there are five, distinct viruses in the SCMV complex. Based on these seven new sequences and on the available sequence data for six other members of the SCMV subgroup, we have developed group-specific primers for use in RT-PCR-based restriction fragment length polymorphism analysis for rapid discrimination between strains of SCMV and SrMV. This is the first assay for differentiating strains of SCMV and SrMV that does not require interpretation of symptoms on differential hosts</description><identifier>ISSN: 0031-949X</identifier><identifier>EISSN: 1943-7684</identifier><identifier>DOI: 10.1094/PHYTO.1997.87.9.932</identifier><identifier>PMID: 18945064</identifier><identifier>CODEN: PHYTAJ</identifier><language>eng</language><publisher>St. Paul, MN: American Phytopathological Society</publisher><subject>ADN ; Biological and medical sciences ; BIOLOGICAL DIFFERENCES ; CLONE ; CLONES ; COAT PROTEINS ; COMPLEMENTARY DNA ; DIAGNOSIS ; DIAGNOSTIC ; DIAGNOSTICO ; DIFERENCIAS BIOLOGICAS ; DIFFERENCE BIOLOGIQUE ; DNA ; FILOGENIA ; Fundamental and applied biological sciences. Psychology ; GENBANK/D00094 ; GENBANK/D00947 ; GENBANK/D00948 ; GENBANK/U07216 ; GENBANK/U07217 ; GENBANK/U07218 ; GENBANK/U07219 ; GENBANK/U57354 ; GENBANK/U57355 ; GENBANK/U57356 ; GENBANK/U57357 ; GENBANK/U57358 ; GENBANK/U57359 ; GENBANK/U57360 ; GENE ; Generalities. Techniques. Transmission, epidemiology, ecology. Antiviral substances, control ; GENES ; GENETIC ANALYSIS ; GENETICA ; GENETICS ; GENETIQUE ; MICROBIAL PROTEINS ; MOLECULAR SEQUENCE DATA ; NIB GENES ; NUCLEOTIDE SEQUENCE ; PCR ; PHYLOGENIE ; PHYLOGENY ; Phytopathology. Animal pests. Plant and forest protection ; Plant viruses and viroids ; POLYMERASE CHAIN REACTION ; POTYVIRUS ; POTYVIRUS MOSAICO CANA DE AZUCAR ; POTYVIRUS MOSAIQUE CANNE A SUCRE ; POTYVIRUSES ; PROTEINAS MICROBIANAS ; PROTEINE MICROBIENNE ; REVERSE-TRANSCRIPTASE-POLYMERASE CHAIN REACTION ; SACCHARUM ; SECUENCIA NUCLEOTIDICA ; SEQUENCE NUCLEOTIDIQUE ; SORGHUM BICOLOR ; STRAIN DIFFERENCES ; SUGARCANE MOSAIC POTYVIRUS</subject><ispartof>Phytopathology, 1997-09, Vol.87 (9), p.932-939</ispartof><rights>1997 INIST-CNRS</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c398t-12fbbff21f7663f9268cb111de50f791d2cbf91b98a69545fc1e55f845bb0173</citedby><cites>FETCH-LOGICAL-c398t-12fbbff21f7663f9268cb111de50f791d2cbf91b98a69545fc1e55f845bb0173</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,776,780,3711,27901,27902</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=2838936$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/18945064$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Yang, Z.N</creatorcontrib><creatorcontrib>Mirkov, T.E</creatorcontrib><title>Sequence and relationships of sugarcane mosaic and sorghum mosaic virus strains and development of RT-PCR-based RFLPs for strain discrimination</title><title>Phytopathology</title><addtitle>Phytopathology</addtitle><description>Sugarcane mosaic is the most widespread virus disease affecting sugarcane production. We have established a collection of seven prominent sugarcane mosaic potyvirus (SCMV) strains currently causing disease in sugarcane throughout the world and originally found in sugarcane in the United States. This collection includes SCMV strains A, B, D, and E, and the sorghum mosaic virus (SrMV) strains SCH, SCI, and SCM. These viruses were propagated on Sorghum bicolor cv. Rio and purified. Cloned cDNAs representing 2.0 kb of the 3' termini, obtained after a reverse-transcriptase-polymerase chain reaction (RT-PCR) on purified virions using an oligo(dT) primer and degenerate primers with sequences located in the NIb gene, have been sequenced for each of these strains. A comparative analysis of the deduced amino acid sequences in the NIb and coat protein genes and of the nucleotide sequences in the 3'-untranslated region, among these seven viruses and among six other members of the SCMV subgroup, confirms that there are at least four, but suggests that there are five, distinct viruses in the SCMV complex. Based on these seven new sequences and on the available sequence data for six other members of the SCMV subgroup, we have developed group-specific primers for use in RT-PCR-based restriction fragment length polymorphism analysis for rapid discrimination between strains of SCMV and SrMV. This is the first assay for differentiating strains of SCMV and SrMV that does not require interpretation of symptoms on differential hosts</description><subject>ADN</subject><subject>Biological and medical sciences</subject><subject>BIOLOGICAL DIFFERENCES</subject><subject>CLONE</subject><subject>CLONES</subject><subject>COAT PROTEINS</subject><subject>COMPLEMENTARY DNA</subject><subject>DIAGNOSIS</subject><subject>DIAGNOSTIC</subject><subject>DIAGNOSTICO</subject><subject>DIFERENCIAS BIOLOGICAS</subject><subject>DIFFERENCE BIOLOGIQUE</subject><subject>DNA</subject><subject>FILOGENIA</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>GENBANK/D00094</subject><subject>GENBANK/D00947</subject><subject>GENBANK/D00948</subject><subject>GENBANK/U07216</subject><subject>GENBANK/U07217</subject><subject>GENBANK/U07218</subject><subject>GENBANK/U07219</subject><subject>GENBANK/U57354</subject><subject>GENBANK/U57355</subject><subject>GENBANK/U57356</subject><subject>GENBANK/U57357</subject><subject>GENBANK/U57358</subject><subject>GENBANK/U57359</subject><subject>GENBANK/U57360</subject><subject>GENE</subject><subject>Generalities. Techniques. Transmission, epidemiology, ecology. Antiviral substances, control</subject><subject>GENES</subject><subject>GENETIC ANALYSIS</subject><subject>GENETICA</subject><subject>GENETICS</subject><subject>GENETIQUE</subject><subject>MICROBIAL PROTEINS</subject><subject>MOLECULAR SEQUENCE DATA</subject><subject>NIB GENES</subject><subject>NUCLEOTIDE SEQUENCE</subject><subject>PCR</subject><subject>PHYLOGENIE</subject><subject>PHYLOGENY</subject><subject>Phytopathology. Animal pests. Plant and forest protection</subject><subject>Plant viruses and viroids</subject><subject>POLYMERASE CHAIN REACTION</subject><subject>POTYVIRUS</subject><subject>POTYVIRUS MOSAICO CANA DE AZUCAR</subject><subject>POTYVIRUS MOSAIQUE CANNE A SUCRE</subject><subject>POTYVIRUSES</subject><subject>PROTEINAS MICROBIANAS</subject><subject>PROTEINE MICROBIENNE</subject><subject>REVERSE-TRANSCRIPTASE-POLYMERASE CHAIN REACTION</subject><subject>SACCHARUM</subject><subject>SECUENCIA NUCLEOTIDICA</subject><subject>SEQUENCE NUCLEOTIDIQUE</subject><subject>SORGHUM BICOLOR</subject><subject>STRAIN DIFFERENCES</subject><subject>SUGARCANE MOSAIC POTYVIRUS</subject><issn>0031-949X</issn><issn>1943-7684</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>1997</creationdate><recordtype>article</recordtype><recordid>eNpFkV2L1DAUhoMo7rj6C0TpheBVa9Kk-biUwXWFgR1mR9CrkKTJbKRtxpx2wV_hX7YzU_XqwOF53_PxIvSa4IpgxT5sb7_v7yqilKikqFSlaP0ErYhitBRcsqdohTElpWLq2xV6AfADYyxkw5-jKyIVazBnK_T73v-c_OB8YYa2yL4zY0wDPMQjFCkUMB1MdmbwRZ_ARHemIOXDw9T_bT3GPEEBYzZxgDPQ-kffpWPvh_FkstuX2_WutAZ8W-xuNlsoQsqLomgjuBz7OJwnv0TPgunAv1rqNdrffNqvb8vN3ecv64-b0lElx5LUwdoQahIE5zSomktnCSGtb3AQirS1s0ERq6ThqmFNcMQ3TZCssRYTQa_R-4vtMaf5fhh1P6_hu24-NU2gBaWCiQtJL6TLCSD7oI_ztib_0gTrUw76nIM-5aCl0ErPOcyqt4v_ZHvf_tcsj5-BdwtgwJkuZDO4CP-4WlKpKJ-xNxcsmKTNIc_I1_vTKMwxI4r-AfCznJo</recordid><startdate>19970901</startdate><enddate>19970901</enddate><creator>Yang, Z.N</creator><creator>Mirkov, T.E</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>19970901</creationdate><title>Sequence and relationships of sugarcane mosaic and sorghum mosaic virus strains and development of RT-PCR-based RFLPs for strain discrimination</title><author>Yang, Z.N ; Mirkov, T.E</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c398t-12fbbff21f7663f9268cb111de50f791d2cbf91b98a69545fc1e55f845bb0173</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>1997</creationdate><topic>ADN</topic><topic>Biological and medical sciences</topic><topic>BIOLOGICAL DIFFERENCES</topic><topic>CLONE</topic><topic>CLONES</topic><topic>COAT PROTEINS</topic><topic>COMPLEMENTARY DNA</topic><topic>DIAGNOSIS</topic><topic>DIAGNOSTIC</topic><topic>DIAGNOSTICO</topic><topic>DIFERENCIAS BIOLOGICAS</topic><topic>DIFFERENCE BIOLOGIQUE</topic><topic>DNA</topic><topic>FILOGENIA</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>GENBANK/D00094</topic><topic>GENBANK/D00947</topic><topic>GENBANK/D00948</topic><topic>GENBANK/U07216</topic><topic>GENBANK/U07217</topic><topic>GENBANK/U07218</topic><topic>GENBANK/U07219</topic><topic>GENBANK/U57354</topic><topic>GENBANK/U57355</topic><topic>GENBANK/U57356</topic><topic>GENBANK/U57357</topic><topic>GENBANK/U57358</topic><topic>GENBANK/U57359</topic><topic>GENBANK/U57360</topic><topic>GENE</topic><topic>Generalities. Techniques. Transmission, epidemiology, ecology. Antiviral substances, control</topic><topic>GENES</topic><topic>GENETIC ANALYSIS</topic><topic>GENETICA</topic><topic>GENETICS</topic><topic>GENETIQUE</topic><topic>MICROBIAL PROTEINS</topic><topic>MOLECULAR SEQUENCE DATA</topic><topic>NIB GENES</topic><topic>NUCLEOTIDE SEQUENCE</topic><topic>PCR</topic><topic>PHYLOGENIE</topic><topic>PHYLOGENY</topic><topic>Phytopathology. Animal pests. Plant and forest protection</topic><topic>Plant viruses and viroids</topic><topic>POLYMERASE CHAIN REACTION</topic><topic>POTYVIRUS</topic><topic>POTYVIRUS MOSAICO CANA DE AZUCAR</topic><topic>POTYVIRUS MOSAIQUE CANNE A SUCRE</topic><topic>POTYVIRUSES</topic><topic>PROTEINAS MICROBIANAS</topic><topic>PROTEINE MICROBIENNE</topic><topic>REVERSE-TRANSCRIPTASE-POLYMERASE CHAIN REACTION</topic><topic>SACCHARUM</topic><topic>SECUENCIA NUCLEOTIDICA</topic><topic>SEQUENCE NUCLEOTIDIQUE</topic><topic>SORGHUM BICOLOR</topic><topic>STRAIN DIFFERENCES</topic><topic>SUGARCANE MOSAIC POTYVIRUS</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Yang, Z.N</creatorcontrib><creatorcontrib>Mirkov, T.E</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>Yang, Z.N</au><au>Mirkov, T.E</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Sequence and relationships of sugarcane mosaic and sorghum mosaic virus strains and development of RT-PCR-based RFLPs for strain discrimination</atitle><jtitle>Phytopathology</jtitle><addtitle>Phytopathology</addtitle><date>1997-09-01</date><risdate>1997</risdate><volume>87</volume><issue>9</issue><spage>932</spage><epage>939</epage><pages>932-939</pages><issn>0031-949X</issn><eissn>1943-7684</eissn><coden>PHYTAJ</coden><abstract>Sugarcane mosaic is the most widespread virus disease affecting sugarcane production. We have established a collection of seven prominent sugarcane mosaic potyvirus (SCMV) strains currently causing disease in sugarcane throughout the world and originally found in sugarcane in the United States. This collection includes SCMV strains A, B, D, and E, and the sorghum mosaic virus (SrMV) strains SCH, SCI, and SCM. These viruses were propagated on Sorghum bicolor cv. Rio and purified. Cloned cDNAs representing 2.0 kb of the 3' termini, obtained after a reverse-transcriptase-polymerase chain reaction (RT-PCR) on purified virions using an oligo(dT) primer and degenerate primers with sequences located in the NIb gene, have been sequenced for each of these strains. A comparative analysis of the deduced amino acid sequences in the NIb and coat protein genes and of the nucleotide sequences in the 3'-untranslated region, among these seven viruses and among six other members of the SCMV subgroup, confirms that there are at least four, but suggests that there are five, distinct viruses in the SCMV complex. Based on these seven new sequences and on the available sequence data for six other members of the SCMV subgroup, we have developed group-specific primers for use in RT-PCR-based restriction fragment length polymorphism analysis for rapid discrimination between strains of SCMV and SrMV. This is the first assay for differentiating strains of SCMV and SrMV that does not require interpretation of symptoms on differential hosts</abstract><cop>St. Paul, MN</cop><pub>American Phytopathological Society</pub><pmid>18945064</pmid><doi>10.1094/PHYTO.1997.87.9.932</doi><tpages>8</tpages><oa>free_for_read</oa></addata></record> |
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| ispartof | Phytopathology, 1997-09, Vol.87 (9), p.932-939 |
| issn | 0031-949X 1943-7684 |
| language | eng |
| recordid | cdi_proquest_miscellaneous_733747017 |
| source | Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; Alma/SFX Local Collection; American Phytopathological Society Journal Back Issues |
| subjects | ADN Biological and medical sciences BIOLOGICAL DIFFERENCES CLONE CLONES COAT PROTEINS COMPLEMENTARY DNA DIAGNOSIS DIAGNOSTIC DIAGNOSTICO DIFERENCIAS BIOLOGICAS DIFFERENCE BIOLOGIQUE DNA FILOGENIA Fundamental and applied biological sciences. Psychology GENBANK/D00094 GENBANK/D00947 GENBANK/D00948 GENBANK/U07216 GENBANK/U07217 GENBANK/U07218 GENBANK/U07219 GENBANK/U57354 GENBANK/U57355 GENBANK/U57356 GENBANK/U57357 GENBANK/U57358 GENBANK/U57359 GENBANK/U57360 GENE Generalities. Techniques. Transmission, epidemiology, ecology. Antiviral substances, control GENES GENETIC ANALYSIS GENETICA GENETICS GENETIQUE MICROBIAL PROTEINS MOLECULAR SEQUENCE DATA NIB GENES NUCLEOTIDE SEQUENCE PCR PHYLOGENIE PHYLOGENY Phytopathology. Animal pests. Plant and forest protection Plant viruses and viroids POLYMERASE CHAIN REACTION POTYVIRUS POTYVIRUS MOSAICO CANA DE AZUCAR POTYVIRUS MOSAIQUE CANNE A SUCRE POTYVIRUSES PROTEINAS MICROBIANAS PROTEINE MICROBIENNE REVERSE-TRANSCRIPTASE-POLYMERASE CHAIN REACTION SACCHARUM SECUENCIA NUCLEOTIDICA SEQUENCE NUCLEOTIDIQUE SORGHUM BICOLOR STRAIN DIFFERENCES SUGARCANE MOSAIC POTYVIRUS |
| title | Sequence and relationships of sugarcane mosaic and sorghum mosaic virus strains and development of RT-PCR-based RFLPs for strain discrimination |
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