Unique RNA 2 sequences of two Brazilian isolates of Pepper ringspot virus, a tobravirus
Pepper ringspot virus (PepRSV) is a tobravirus reported only in Brazil. Here, the sequences of the complete RNA 2 segments and the 3′ end of the RNA 1 genomic regions of two new isolates from tomato plants were analyzed. The main ORF encodes the CP gene as other tobraviruses and termed ORF 1 of RNA...
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| Veröffentlicht in: | Virus genes 2014-08, Vol.49 (1), p.169-173 |
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| creator | Batista, Adriana Ribeiro Silva Nicolini, Cícero Rodrigues, Kelly Barreto Melo, Fernando Lucas Vasques, Raquel Medeiros de Macêdo, Mônica Alves Inoue-Nagata, Alice Kazuko Nagata, Tatsuya |
| description | Pepper ringspot virus (PepRSV) is a tobravirus reported only in Brazil. Here, the sequences of the complete RNA 2 segments and the 3′ end of the RNA 1 genomic regions of two new isolates from tomato plants were analyzed. The main ORF encodes the CP gene as other tobraviruses and termed ORF 1 of RNA 2. The second ORF was found only in one of the new isolates, although this gene was absent in the type isolate, CAM (collected in the 1960’s). Interestingly, this ORF 2 gene did not show any nucleotide and amino acid sequence similarities with known 2b genes of tobraviruses, an essential gene of tobraviruses for nematodes-transmission. The 5′UTR sequence of RNA 2 segment of CAM isolate was previously reported showing two impaired direct repeats; however, the direct-repeats were absent in these new isolates. An additional ORF was predicted upstream of the CP gene. This putative protein possessed a transmembrane domain similar to the ORFN1 of RNA 2 of Tobacco rattle virus SYM isolate, although there was no sequence similarity. This is the first report on the diversity of the RNA 2 sequences of PepRSV. |
| doi_str_mv | 10.1007/s11262-014-1066-8 |
| format | Article |
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Here, the sequences of the complete RNA 2 segments and the 3′ end of the RNA 1 genomic regions of two new isolates from tomato plants were analyzed. The main ORF encodes the CP gene as other tobraviruses and termed ORF 1 of RNA 2. The second ORF was found only in one of the new isolates, although this gene was absent in the type isolate, CAM (collected in the 1960’s). Interestingly, this ORF 2 gene did not show any nucleotide and amino acid sequence similarities with known 2b genes of tobraviruses, an essential gene of tobraviruses for nematodes-transmission. The 5′UTR sequence of RNA 2 segment of CAM isolate was previously reported showing two impaired direct repeats; however, the direct-repeats were absent in these new isolates. An additional ORF was predicted upstream of the CP gene. This putative protein possessed a transmembrane domain similar to the ORFN1 of RNA 2 of Tobacco rattle virus SYM isolate, although there was no sequence similarity. This is the first report on the diversity of the RNA 2 sequences of PepRSV.</description><identifier>ISSN: 0920-8569</identifier><identifier>EISSN: 1572-994X</identifier><identifier>DOI: 10.1007/s11262-014-1066-8</identifier><identifier>PMID: 24756556</identifier><language>eng</language><publisher>Boston: Springer-Verlag</publisher><subject>amino acid sequences ; Biomedical and Life Sciences ; Biomedicine ; Brazil ; genes ; genomics ; Lycopersicon esculentum ; Lycopersicon esculentum - virology ; Medical Microbiology ; Molecular Sequence Data ; Nematoda ; Open Reading Frames ; Pepper ringspot virus ; Plant Diseases - virology ; Plant Sciences ; Plant Viruses - genetics ; Plant Viruses - isolation & purification ; RNA ; RNA Viruses - genetics ; RNA Viruses - isolation & purification ; RNA, Viral - genetics ; Sequence Analysis, DNA ; Sequence Homology ; Tobacco rattle virus ; Tobravirus ; tomatoes ; Viral Proteins - genetics ; Virology</subject><ispartof>Virus genes, 2014-08, Vol.49 (1), p.169-173</ispartof><rights>Springer Science+Business Media New York 2014</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c462t-66a5934db9d675d11e4d56d9521ac19450c8e9df8a1096f52d154e7e12663b9c3</citedby><cites>FETCH-LOGICAL-c462t-66a5934db9d675d11e4d56d9521ac19450c8e9df8a1096f52d154e7e12663b9c3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s11262-014-1066-8$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s11262-014-1066-8$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,780,784,27922,27923,41486,42555,51317</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/24756556$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Batista, Adriana Ribeiro Silva</creatorcontrib><creatorcontrib>Nicolini, Cícero</creatorcontrib><creatorcontrib>Rodrigues, Kelly Barreto</creatorcontrib><creatorcontrib>Melo, Fernando Lucas</creatorcontrib><creatorcontrib>Vasques, Raquel Medeiros</creatorcontrib><creatorcontrib>de Macêdo, Mônica Alves</creatorcontrib><creatorcontrib>Inoue-Nagata, Alice Kazuko</creatorcontrib><creatorcontrib>Nagata, Tatsuya</creatorcontrib><title>Unique RNA 2 sequences of two Brazilian isolates of Pepper ringspot virus, a tobravirus</title><title>Virus genes</title><addtitle>Virus Genes</addtitle><addtitle>Virus Genes</addtitle><description>Pepper ringspot virus (PepRSV) is a tobravirus reported only in Brazil. Here, the sequences of the complete RNA 2 segments and the 3′ end of the RNA 1 genomic regions of two new isolates from tomato plants were analyzed. The main ORF encodes the CP gene as other tobraviruses and termed ORF 1 of RNA 2. The second ORF was found only in one of the new isolates, although this gene was absent in the type isolate, CAM (collected in the 1960’s). Interestingly, this ORF 2 gene did not show any nucleotide and amino acid sequence similarities with known 2b genes of tobraviruses, an essential gene of tobraviruses for nematodes-transmission. The 5′UTR sequence of RNA 2 segment of CAM isolate was previously reported showing two impaired direct repeats; however, the direct-repeats were absent in these new isolates. An additional ORF was predicted upstream of the CP gene. This putative protein possessed a transmembrane domain similar to the ORFN1 of RNA 2 of Tobacco rattle virus SYM isolate, although there was no sequence similarity. This is the first report on the diversity of the RNA 2 sequences of PepRSV.</description><subject>amino acid sequences</subject><subject>Biomedical and Life Sciences</subject><subject>Biomedicine</subject><subject>Brazil</subject><subject>genes</subject><subject>genomics</subject><subject>Lycopersicon esculentum</subject><subject>Lycopersicon esculentum - virology</subject><subject>Medical Microbiology</subject><subject>Molecular Sequence Data</subject><subject>Nematoda</subject><subject>Open Reading Frames</subject><subject>Pepper ringspot virus</subject><subject>Plant Diseases - virology</subject><subject>Plant Sciences</subject><subject>Plant Viruses - genetics</subject><subject>Plant Viruses - isolation & purification</subject><subject>RNA</subject><subject>RNA Viruses - genetics</subject><subject>RNA Viruses - isolation & purification</subject><subject>RNA, Viral - genetics</subject><subject>Sequence Analysis, DNA</subject><subject>Sequence Homology</subject><subject>Tobacco rattle virus</subject><subject>Tobravirus</subject><subject>tomatoes</subject><subject>Viral Proteins - genetics</subject><subject>Virology</subject><issn>0920-8569</issn><issn>1572-994X</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2014</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNqNkUFPFTEUhRuDkQf6A9hAEzcuGLy303baJRJBEyJGeNFd0zfTISXzpkM7o9Ffbx-DhrAgLJq2ud85vbeHkD2EIwSo3idEJlkByAsEKQv1gixQVKzQmv_YIgvQDAolpN4mOyndAIBSjL8i24xXQgohF-T7sve3k6PfvhxTRpPL5752iYaWjr8C_RDtH99521OfQmfHufLVDYOLNPr-Og1hpD99nNIhtXQMq2jvbq_Jy9Z2yb2533fJ8vTj1cmn4vzi7PPJ8XlRc8nGQkordMmblW5kJRpExxshGy0Y2ho1F1Arp5tWWQQtW8EaFNxVLs8ty5Wuy13ybvYdYsi9p9Gsfapd19nehSkZFIJrritWPQPlSpZYocjo20foTZhinwe5o0qVl84UzlQdQ0rRtWaIfm3jb4NgNgGZOSCTAzKbgIzKmv1752m1ds1_xb9EMsBmIA2b_3XxwdNPuB7MotYGY6-jT2Z5yTIAgKUE4OVfQTCiFQ</recordid><startdate>20140801</startdate><enddate>20140801</enddate><creator>Batista, Adriana Ribeiro Silva</creator><creator>Nicolini, Cícero</creator><creator>Rodrigues, Kelly Barreto</creator><creator>Melo, Fernando Lucas</creator><creator>Vasques, Raquel Medeiros</creator><creator>de Macêdo, Mônica Alves</creator><creator>Inoue-Nagata, Alice Kazuko</creator><creator>Nagata, Tatsuya</creator><general>Springer-Verlag</general><general>Springer US</general><general>Springer Nature B.V</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>3V.</scope><scope>7TM</scope><scope>7U9</scope><scope>7X7</scope><scope>7XB</scope><scope>88A</scope><scope>88E</scope><scope>8AO</scope><scope>8C1</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M7P</scope><scope>P64</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>20140801</creationdate><title>Unique RNA 2 sequences of two Brazilian isolates of Pepper ringspot virus, a tobravirus</title><author>Batista, Adriana Ribeiro Silva ; Nicolini, Cícero ; Rodrigues, Kelly Barreto ; Melo, Fernando Lucas ; Vasques, Raquel Medeiros ; de Macêdo, Mônica Alves ; Inoue-Nagata, Alice Kazuko ; Nagata, Tatsuya</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c462t-66a5934db9d675d11e4d56d9521ac19450c8e9df8a1096f52d154e7e12663b9c3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2014</creationdate><topic>amino acid sequences</topic><topic>Biomedical and Life Sciences</topic><topic>Biomedicine</topic><topic>Brazil</topic><topic>genes</topic><topic>genomics</topic><topic>Lycopersicon esculentum</topic><topic>Lycopersicon esculentum - virology</topic><topic>Medical Microbiology</topic><topic>Molecular Sequence Data</topic><topic>Nematoda</topic><topic>Open Reading Frames</topic><topic>Pepper ringspot virus</topic><topic>Plant Diseases - virology</topic><topic>Plant Sciences</topic><topic>Plant Viruses - genetics</topic><topic>Plant Viruses - isolation & purification</topic><topic>RNA</topic><topic>RNA Viruses - genetics</topic><topic>RNA Viruses - isolation & purification</topic><topic>RNA, Viral - genetics</topic><topic>Sequence Analysis, DNA</topic><topic>Sequence Homology</topic><topic>Tobacco rattle virus</topic><topic>Tobravirus</topic><topic>tomatoes</topic><topic>Viral Proteins - genetics</topic><topic>Virology</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Batista, Adriana Ribeiro Silva</creatorcontrib><creatorcontrib>Nicolini, Cícero</creatorcontrib><creatorcontrib>Rodrigues, Kelly Barreto</creatorcontrib><creatorcontrib>Melo, Fernando Lucas</creatorcontrib><creatorcontrib>Vasques, Raquel Medeiros</creatorcontrib><creatorcontrib>de Macêdo, Mônica Alves</creatorcontrib><creatorcontrib>Inoue-Nagata, Alice Kazuko</creatorcontrib><creatorcontrib>Nagata, Tatsuya</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>ProQuest Central (Corporate)</collection><collection>Nucleic Acids Abstracts</collection><collection>Virology and AIDS Abstracts</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Biology Database (Alumni Edition)</collection><collection>Medical Database (Alumni Edition)</collection><collection>ProQuest Pharma Collection</collection><collection>Public Health Database</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Engineering Research Database</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>ProQuest Biological Science Collection</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Biological Science Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central China</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Virus genes</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Batista, Adriana Ribeiro Silva</au><au>Nicolini, Cícero</au><au>Rodrigues, Kelly Barreto</au><au>Melo, Fernando Lucas</au><au>Vasques, Raquel Medeiros</au><au>de Macêdo, Mônica Alves</au><au>Inoue-Nagata, Alice Kazuko</au><au>Nagata, Tatsuya</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Unique RNA 2 sequences of two Brazilian isolates of Pepper ringspot virus, a tobravirus</atitle><jtitle>Virus genes</jtitle><stitle>Virus Genes</stitle><addtitle>Virus Genes</addtitle><date>2014-08-01</date><risdate>2014</risdate><volume>49</volume><issue>1</issue><spage>169</spage><epage>173</epage><pages>169-173</pages><issn>0920-8569</issn><eissn>1572-994X</eissn><abstract>Pepper ringspot virus (PepRSV) is a tobravirus reported only in Brazil. Here, the sequences of the complete RNA 2 segments and the 3′ end of the RNA 1 genomic regions of two new isolates from tomato plants were analyzed. The main ORF encodes the CP gene as other tobraviruses and termed ORF 1 of RNA 2. The second ORF was found only in one of the new isolates, although this gene was absent in the type isolate, CAM (collected in the 1960’s). Interestingly, this ORF 2 gene did not show any nucleotide and amino acid sequence similarities with known 2b genes of tobraviruses, an essential gene of tobraviruses for nematodes-transmission. The 5′UTR sequence of RNA 2 segment of CAM isolate was previously reported showing two impaired direct repeats; however, the direct-repeats were absent in these new isolates. An additional ORF was predicted upstream of the CP gene. This putative protein possessed a transmembrane domain similar to the ORFN1 of RNA 2 of Tobacco rattle virus SYM isolate, although there was no sequence similarity. This is the first report on the diversity of the RNA 2 sequences of PepRSV.</abstract><cop>Boston</cop><pub>Springer-Verlag</pub><pmid>24756556</pmid><doi>10.1007/s11262-014-1066-8</doi><tpages>5</tpages></addata></record> |
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| subjects | amino acid sequences Biomedical and Life Sciences Biomedicine Brazil genes genomics Lycopersicon esculentum Lycopersicon esculentum - virology Medical Microbiology Molecular Sequence Data Nematoda Open Reading Frames Pepper ringspot virus Plant Diseases - virology Plant Sciences Plant Viruses - genetics Plant Viruses - isolation & purification RNA RNA Viruses - genetics RNA Viruses - isolation & purification RNA, Viral - genetics Sequence Analysis, DNA Sequence Homology Tobacco rattle virus Tobravirus tomatoes Viral Proteins - genetics Virology |
| title | Unique RNA 2 sequences of two Brazilian isolates of Pepper ringspot virus, a tobravirus |
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