Targeting RNA structures by antisense oligonucleotides
Identifieur interne : 000975 ( Istex/Corpus ); précédent : 000974; suivant : 000976Targeting RNA structures by antisense oligonucleotides
Auteurs : Jj Toulmé ; R. Le Tinévez ; E. BrossalinaSource :
- Biochimie [ 0300-9084 ] ; 1996.
English descriptors
- Teeft :
- Acad, Amazonensis, Analogue, Anchor motif, Antisense, Antisense effect, Antisense efficiency, Antisense oligodeoxynucleotides, Antisense oligomer, Antisense oligomers, Antisense oligonucleotide, Antisense oligonucleotides, Antisense sequence, Antisense sequences, Base pair, Base pairs, Base triplets, Binding site, Biochim biophys acta, Chem, Cleavage, Combinatorial approach, Complementary, Complementary oligonucleotide, Conformation changes, Cultured cells, Discontinuous transcription, Double hairpin, Double hairpin complexes, Double hairpin formation, Double helical, Double helix, Double strand, Duplex, Duplex formation, Gene expression, Hairpin, Hairpin loop, Hairpin structure, Helene, Helix, High affinity, Human immunodeficiency virus, Hybridization, Intact structure, Intercalating agents, Internal loops, Latter case, Leader sequence, Leishmania, Luciferase gene, Mrna, Mrna hairpin, Mrna translation, Nat1, Nucleic, Nucleic acid, Nucleic acids, Nucleotide, Numerous derivatives, Oligodeoxynucleotides, Oligomer, Oligomers, Oligonucleotide, Oligonucleotide library, Oligonucleotide probes, Oligonucleotides, Other words, Overall organization, Personal communication, Proc, Proc nat1 acad, Proc nat1acad, Proc nut1 acad, Pseudoknot structure, Purine, Purine strand, Pyrimidine, Pyrimidine motif, Rnase, Rsai, Rsai restriction site, Secondary structure, Selective binding, Single position, Singlestranded region, Strand, Such structures, Target hairpin, Target sequence, Target structure, Terminal sequence, Thermodynamic cost, Third strand, Thuong, Toulmc, Toulme, Transcription, Triple helical structure, Triple helices, Triple helix, Triple helix formation, Triplet, Trypanosoma brucei, Trypanosome mrnas, Unmodified, Unmodified phosphodiester, Unpublished results, Untranslated region, Wheat germ.
Abstract
Abstract: The presence of folded regions in RNA competes with the binding of a complementary oligonucleotide, resulting in a weak antisense effect. Due to the key role played by a number of RNA structures in the natural regulation of gene expression it might be of interest to design antisense sequences able to selectively interact with such motifs in order to interfere with the biological processes they mediate. Different possibilities have been explored. A high affinity oligomer will disrupt the structure; if the target structure is solved one can take advantage of unpaired bases (bulges, loops) to minimize the thermodynamic cost of the binding. Alternatively, the folded structure can be accommodated within the complex via the formation of a local triple helix. Oligomers able to adapt to the RNA structure (aptamers) can be extracted by in vitro selection from randomly synthesized libraries comprising several billions of sequences.
Url:
DOI: 10.1016/S0300-9084(96)80012-5
Links to Exploration step
ISTEX:7A7A77DE7CAF13A293045D94A2633B352EF2CE02Le document en format XML
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Brossalina</name><affiliation><mods:affiliation>INSERM U386, IFR Pathologies Infectieuses, Université Victor Segalen, Bordeaux II, 146, rue Léo-Saignat, 33076 Bordeaux, France</mods:affiliation></affiliation></author></analytic><monogr></monogr><series><title level="j">Biochimie</title><title level="j" type="abbrev">BIOCHI</title><idno type="ISSN">0300-9084</idno><imprint><publisher>ELSEVIER</publisher><date type="published" when="1996">1996</date><biblScope unit="volume">78</biblScope><biblScope unit="issue">7</biblScope><biblScope unit="page" from="663">663</biblScope><biblScope unit="page" to="673">673</biblScope></imprint><idno type="ISSN">0300-9084</idno></series></biblStruct></sourceDesc><seriesStmt><idno type="ISSN">0300-9084</idno></seriesStmt></fileDesc><profileDesc><textClass><keywords scheme="Teeft" xml:lang="en"><term>Acad</term><term>Amazonensis</term><term>Analogue</term><term>Anchor motif</term><term>Antisense</term><term>Antisense effect</term><term>Antisense efficiency</term><term>Antisense oligodeoxynucleotides</term><term>Antisense oligomer</term><term>Antisense oligomers</term><term>Antisense oligonucleotide</term><term>Antisense oligonucleotides</term><term>Antisense sequence</term><term>Antisense sequences</term><term>Base pair</term><term>Base pairs</term><term>Base triplets</term><term>Binding site</term><term>Biochim biophys acta</term><term>Chem</term><term>Cleavage</term><term>Combinatorial approach</term><term>Complementary</term><term>Complementary oligonucleotide</term><term>Conformation changes</term><term>Cultured cells</term><term>Discontinuous transcription</term><term>Double hairpin</term><term>Double hairpin complexes</term><term>Double hairpin formation</term><term>Double helical</term><term>Double helix</term><term>Double strand</term><term>Duplex</term><term>Duplex formation</term><term>Gene expression</term><term>Hairpin</term><term>Hairpin loop</term><term>Hairpin structure</term><term>Helene</term><term>Helix</term><term>High affinity</term><term>Human immunodeficiency virus</term><term>Hybridization</term><term>Intact structure</term><term>Intercalating agents</term><term>Internal loops</term><term>Latter case</term><term>Leader sequence</term><term>Leishmania</term><term>Luciferase gene</term><term>Mrna</term><term>Mrna hairpin</term><term>Mrna translation</term><term>Nat1</term><term>Nucleic</term><term>Nucleic acid</term><term>Nucleic acids</term><term>Nucleotide</term><term>Numerous derivatives</term><term>Oligodeoxynucleotides</term><term>Oligomer</term><term>Oligomers</term><term>Oligonucleotide</term><term>Oligonucleotide library</term><term>Oligonucleotide probes</term><term>Oligonucleotides</term><term>Other words</term><term>Overall organization</term><term>Personal communication</term><term>Proc</term><term>Proc nat1 acad</term><term>Proc nat1acad</term><term>Proc nut1 acad</term><term>Pseudoknot structure</term><term>Purine</term><term>Purine strand</term><term>Pyrimidine</term><term>Pyrimidine motif</term><term>Rnase</term><term>Rsai</term><term>Rsai restriction site</term><term>Secondary structure</term><term>Selective binding</term><term>Single position</term><term>Singlestranded region</term><term>Strand</term><term>Such structures</term><term>Target hairpin</term><term>Target sequence</term><term>Target structure</term><term>Terminal sequence</term><term>Thermodynamic cost</term><term>Third strand</term><term>Thuong</term><term>Toulmc</term><term>Toulme</term><term>Transcription</term><term>Triple helical structure</term><term>Triple helices</term><term>Triple helix</term><term>Triple helix formation</term><term>Triplet</term><term>Trypanosoma brucei</term><term>Trypanosome mrnas</term><term>Unmodified</term><term>Unmodified phosphodiester</term><term>Unpublished results</term><term>Untranslated region</term><term>Wheat germ</term></keywords></textClass><langUsage><language ident="en">en</language></langUsage></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Abstract: The presence of folded regions in RNA competes with the binding of a complementary oligonucleotide, resulting in a weak antisense effect. 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France</json:string></affiliations></json:item></author><subject><json:item><lang><json:string>eng</json:string></lang><value>translation inhibition / stem-loop structure / triple helix / aptamer</value></json:item></subject><arkIstex>ark:/67375/6H6-GWKMDV7Q-M</arkIstex><language><json:string>eng</json:string></language><originalGenre><json:string>Full-length article</json:string></originalGenre><abstract>Abstract: The presence of folded regions in RNA competes with the binding of a complementary oligonucleotide, resulting in a weak antisense effect. Due to the key role played by a number of RNA structures in the natural regulation of gene expression it might be of interest to design antisense sequences able to selectively interact with such motifs in order to interfere with the biological processes they mediate. Different possibilities have been explored. A high affinity oligomer will disrupt the structure; if the target structure is solved one can take advantage of unpaired bases (bulges, loops) to minimize the thermodynamic cost of the binding. Alternatively, the folded structure can be accommodated within the complex via the formation of a local triple helix. Oligomers able to adapt to the RNA structure (aptamers) can be extracted by in vitro selection from randomly synthesized libraries comprising several billions of sequences.</abstract><qualityIndicators><score>8.752</score><pdfWordCount>8086</pdfWordCount><pdfCharCount>51537</pdfCharCount><pdfVersion>1.2</pdfVersion><pdfPageCount>11</pdfPageCount><pdfPageSize>577 x 764 pts</pdfPageSize><refBibsNative>true</refBibsNative><abstractWordCount>146</abstractWordCount><abstractCharCount>945</abstractCharCount><keywordCount>1</keywordCount></qualityIndicators><title>Targeting RNA structures by antisense oligonucleotides</title><pmid><json:string>8955909</json:string></pmid><pii><json:string>S0300-9084(96)80012-5</json:string></pii><genre><json:string>research-article</json:string></genre><serie><title>Advances in virus research</title><language><json:string>unknown</json:string></language><pages><first>193</first><last>239</last></pages></serie><host><title>Biochimie</title><language><json:string>unknown</json:string></language><publicationDate>1996</publicationDate><issn><json:string>0300-9084</json:string></issn><pii><json:string>S0300-9084(00)X0065-X</json:string></pii><volume>78</volume><issue>7</issue><pages><first>663</first><last>673</last></pages><genre><json:string>journal</json:string></genre></host><namedEntities><unitex><date><json:string>1996</json:string></date><geogName></geogName><orgName><json:string>Russia Therefore</json:string><json:string>Agence Nationale</json:string></orgName><orgName_funder><json:string>Agence Nationale</json:string></orgName_funder><orgName_provider></orgName_provider><persName><json:string>Ecker</json:string><json:string>Cs</json:string><json:string>Ct</json:string></persName><placeName><json:string>Heidelberg</json:string><json:string>Seattle</json:string><json:string>France</json:string></placeName><ref_url></ref_url><ref_bibl><json:string>[72]</json:string><json:string>[4]</json:string><json:string>[78]</json:string><json:string>[37,38]</json:string><json:string>[29]</json:string><json:string>[6]</json:string><json:string>[2,3]</json:string><json:string>[77]</json:string><json:string>[39]</json:string><json:string>[80,81]</json:string><json:string>[76]</json:string><json:string>[49]</json:string><json:string>[53]</json:string><json:string>[26]</json:string><json:string>[52]</json:string><json:string>Le TinCvez et al</json:string><json:string>[25]</json:string><json:string>[62]</json:string><json:string>[79]</json:string></ref_bibl><bibl></bibl></unitex></namedEntities><ark><json:string>ark:/67375/6H6-GWKMDV7Q-M</json:string></ark><categories><wos><json:string>1 - 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Due to the key role played by a number of RNA structures in the natural regulation of gene expression it might be of interest to design antisense sequences able to selectively interact with such motifs in order to interfere with the biological processes they mediate. Different possibilities have been explored. A high affinity oligomer will disrupt the structure; if the target structure is solved one can take advantage of unpaired bases (bulges, loops) to minimize the thermodynamic cost of the binding. Alternatively, the folded structure can be accommodated within the complex via the formation of a local triple helix. Oligomers able to adapt to the RNA structure (aptamers) can be extracted by in vitro selection from randomly synthesized libraries comprising several billions of sequences.</p></abstract><textClass><keywords scheme="keyword"><list><head>Keywords</head><item><term>translation inhibition / stem-loop structure / triple helix / aptamer</term></item></list></keywords></textClass></profileDesc><revisionDesc><change when="1996">Published</change></revisionDesc></teiHeader></istex:fulltextTEI><json:item><extension>txt</extension><original>false</original><mimetype>text/plain</mimetype><uri>https://api.istex.fr/ark:/67375/6H6-GWKMDV7Q-M/fulltext.txt</uri></json:item></fulltext><metadata><istex:metadataXml wicri:clean="Elsevier, elements deleted: tail"><istex:xmlDeclaration>version="1.0" encoding="utf-8"</istex:xmlDeclaration><istex:docType PUBLIC="-//ES//DTD journal article DTD version 4.5.2//EN//XML" URI="art452.dtd" name="istex:docType"></istex:docType><istex:document><converted-article version="4.5.2" docsubtype="fla"><item-info><jid>PXBC</jid><aid>96800125</aid><ce:pii>S0300-9084(96)80012-5</ce:pii><ce:doi>10.1016/S0300-9084(96)80012-5</ce:doi><ce:copyright type="unknown" year="1996"></ce:copyright></item-info><head><ce:title>Targeting RNA structures by antisense oligonucleotides</ce:title><ce:author-group><ce:author><ce:given-name>JJ</ce:given-name><ce:surname>Toulmé</ce:surname></ce:author><ce:author><ce:given-name>R</ce:given-name><ce:surname>Le Tinévez</ce:surname></ce:author><ce:author><ce:given-name>E</ce:given-name><ce:surname>Brossalina</ce:surname><ce:cross-ref refid="FN1"><ce:sup>1</ce:sup></ce:cross-ref></ce:author><ce:affiliation><ce:textfn>INSERM U386, IFR Pathologies Infectieuses, Université Victor Segalen, Bordeaux II, 146, rue Léo-Saignat, 33076 Bordeaux, France</ce:textfn></ce:affiliation><ce:footnote id="FN1"><ce:label>1</ce:label><ce:note-para>Present address: Institute of Bioorganic Chemistry, Academy of Sciences of Russia, Lavrentiev prospekt 8, 630 090, Novossibirsk, Russia</ce:note-para></ce:footnote></ce:author-group><ce:date-received day="13" month="5" year="1996"></ce:date-received><ce:date-accepted day="5" month="7" year="1996"></ce:date-accepted><ce:abstract><ce:section-title>Abstract</ce:section-title><ce:abstract-sec><ce:simple-para>The presence of folded regions in RNA competes with the binding of a complementary oligonucleotide, resulting in a weak antisense effect. Due to the key role played by a number of RNA structures in the natural regulation of gene expression it might be of interest to design antisense sequences able to selectively interact with such motifs in order to interfere with the biological processes they mediate. Different possibilities have been explored. A high affinity oligomer will disrupt the structure; if the target structure is solved one can take advantage of unpaired bases (bulges, loops) to minimize the thermodynamic cost of the binding. Alternatively, the folded structure can be accommodated within the complex <ce:italic>via</ce:italic> the formation of a local triple helix. Oligomers able to adapt to the RNA structure (aptamers) can be extracted by <ce:italic>in vitro</ce:italic> selection from randomly synthesized libraries comprising several billions of sequences.</ce:simple-para></ce:abstract-sec></ce:abstract><ce:keywords><ce:section-title>Keywords</ce:section-title><ce:keyword><ce:text>translation inhibition / stem-loop structure / triple helix / aptamer</ce:text></ce:keyword></ce:keywords></head></converted-article></istex:document></istex:metadataXml><mods version="3.6"><titleInfo><title>Targeting RNA structures by antisense oligonucleotides</title></titleInfo><titleInfo type="alternative" contentType="CDATA"><title>Targeting RNA structures by antisense oligonucleotides</title></titleInfo><name type="personal"><namePart type="given">JJ</namePart><namePart type="family">Toulmé</namePart><affiliation>INSERM U386, IFR Pathologies Infectieuses, Université Victor Segalen, Bordeaux II, 146, rue Léo-Saignat, 33076 Bordeaux, France</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">R</namePart><namePart type="family">Le Tinévez</namePart><affiliation>INSERM U386, IFR Pathologies Infectieuses, Université Victor Segalen, Bordeaux II, 146, rue Léo-Saignat, 33076 Bordeaux, France</affiliation><role><roleTerm type="text">author</roleTerm></role></name><name type="personal"><namePart type="given">E</namePart><namePart type="family">Brossalina</namePart><affiliation>INSERM U386, IFR Pathologies Infectieuses, Université Victor Segalen, Bordeaux II, 146, rue Léo-Saignat, 33076 Bordeaux, France</affiliation><description>Present address: Institute of Bioorganic Chemistry, Academy of Sciences of Russia, Lavrentiev prospekt 8, 630 090, Novossibirsk, Russia</description><role><roleTerm type="text">author</roleTerm></role></name><typeOfResource>text</typeOfResource><genre type="research-article" displayLabel="Full-length article" authority="ISTEX" authorityURI="https://content-type.data.istex.fr" valueURI="https://content-type.data.istex.fr/ark:/67375/XTP-1JC4F85T-7">research-article</genre><originInfo><publisher>ELSEVIER</publisher><dateIssued encoding="w3cdtf">1996</dateIssued><copyrightDate encoding="w3cdtf">1996</copyrightDate></originInfo><language><languageTerm type="code" authority="iso639-2b">eng</languageTerm><languageTerm type="code" authority="rfc3066">en</languageTerm></language><abstract lang="en">Abstract: The presence of folded regions in RNA competes with the binding of a complementary oligonucleotide, resulting in a weak antisense effect. Due to the key role played by a number of RNA structures in the natural regulation of gene expression it might be of interest to design antisense sequences able to selectively interact with such motifs in order to interfere with the biological processes they mediate. Different possibilities have been explored. A high affinity oligomer will disrupt the structure; if the target structure is solved one can take advantage of unpaired bases (bulges, loops) to minimize the thermodynamic cost of the binding. Alternatively, the folded structure can be accommodated within the complex via the formation of a local triple helix. Oligomers able to adapt to the RNA structure (aptamers) can be extracted by in vitro selection from randomly synthesized libraries comprising several billions of sequences.</abstract><subject><genre>Keywords</genre><topic>translation inhibition / stem-loop structure / triple helix / aptamer</topic></subject><relatedItem type="host"><titleInfo><title>Biochimie</title></titleInfo><titleInfo type="abbreviated"><title>BIOCHI</title></titleInfo><genre type="journal" authority="ISTEX" authorityURI="https://publication-type.data.istex.fr" valueURI="https://publication-type.data.istex.fr/ark:/67375/JMC-0GLKJH51-B">journal</genre><originInfo><publisher>ELSEVIER</publisher><dateIssued encoding="w3cdtf">1996</dateIssued></originInfo><identifier type="ISSN">0300-9084</identifier><identifier type="PII">S0300-9084(00)X0065-X</identifier><part><date>1996</date><detail type="volume"><number>78</number><caption>vol.</caption></detail><detail type="issue"><number>7</number><caption>no.</caption></detail><extent unit="issue-pages"><start>543</start><end>680</end></extent><extent unit="pages"><start>663</start><end>673</end></extent></part></relatedItem><identifier type="istex">7A7A77DE7CAF13A293045D94A2633B352EF2CE02</identifier><identifier type="ark">ark:/67375/6H6-GWKMDV7Q-M</identifier><identifier type="DOI">10.1016/S0300-9084(96)80012-5</identifier><identifier type="PII">S0300-9084(96)80012-5</identifier><recordInfo><recordContentSource authority="ISTEX" authorityURI="https://loaded-corpus.data.istex.fr" valueURI="https://loaded-corpus.data.istex.fr/ark:/67375/XBH-HKKZVM7B-M">elsevier</recordContentSource></recordInfo></mods><json:item><extension>json</extension><original>false</original><mimetype>application/json</mimetype><uri>https://api.istex.fr/ark:/67375/6H6-GWKMDV7Q-M/record.json</uri></json:item></metadata></istex></record>Pour manipuler ce document sous Unix (Dilib)
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