Identification of aptamers against the DNA template for in vitro transcription of the HIV-1 TAR element.
Identifieur interne : 003C21 ( Main/Exploration ); précédent : 003C20; suivant : 003C22Identification of aptamers against the DNA template for in vitro transcription of the HIV-1 TAR element.
Auteurs : C. Boiziau [France] ; E. Dausse ; R. Mishra ; F. Ducongé ; J J ToulméSource :
- Antisense & nucleic acid drug development [ 1087-2906 ] ; 1997.
Descripteurs français
- KwdFr :
- ADN viral (), ADN viral (métabolisme), ARN viral (), ARN viral (métabolisme), Alignement de séquences, Composition en bases nucléiques, Données de séquences moléculaires, Humains, Matrices (génétique), Oligonucléotides antisens (pharmacologie), Répétition terminale longue du VIH, Séquence consensus, Séquence nucléotidique, Transcription génétique (), VIH-1 (Virus de l'Immunodéficience Humaine de type 1) (génétique), VIH-1 (Virus de l'Immunodéficience Humaine de type 1) (métabolisme).
- MESH :
- génétique : VIH-1 (Virus de l'Immunodéficience Humaine de type 1).
- métabolisme : ADN viral, ARN viral, VIH-1 (Virus de l'Immunodéficience Humaine de type 1).
- pharmacologie : Oligonucléotides antisens.
- ADN viral, ARN viral, Alignement de séquences, Composition en bases nucléiques, Données de séquences moléculaires, Humains, Matrices (génétique), Répétition terminale longue du VIH, Séquence consensus, Séquence nucléotidique, Transcription génétique.
English descriptors
- KwdEn :
- Base Composition, Base Sequence, Consensus Sequence, DNA, Viral (chemistry), DNA, Viral (metabolism), HIV Long Terminal Repeat, HIV-1 (genetics), HIV-1 (metabolism), Humans, Molecular Sequence Data, Oligonucleotides, Antisense (pharmacology), RNA, Viral (chemistry), RNA, Viral (metabolism), Sequence Alignment, Templates, Genetic, Transcription, Genetic (drug effects).
- MESH :
- chemical , chemistry : DNA, Viral, RNA, Viral.
- chemical , metabolism : DNA, Viral, RNA, Viral.
- drug effects : Transcription, Genetic.
- genetics : HIV-1.
- metabolism : HIV-1.
- chemical , pharmacology : Oligonucleotides, Antisense.
- Base Composition, Base Sequence, Consensus Sequence, HIV Long Terminal Repeat, Humans, Molecular Sequence Data, Sequence Alignment, Templates, Genetic.
Abstract
We have extracted from a random population of about 10(9) oligodeoxynucleotides a series of 21-mers that are able to bind to a folded DNA 76-mer used as a template for in vitro transcription of the TAR element of the retrovirus HIV-1, by the T7 RNA polymerase. Five aptastrucs, that is, aptamers able to bind to the structure, out of 15 analyzed sequences, share the consensus motif 5'-PyGGG(TG)PyC, complementary in part to a weak double-stranded region of the target. (The parentheses indicate that either T or G is missing in one of these aptastrucs.) A dissociation constant of about 3 microM was evaluated by electrophoretic mobility shift assay for the winner sequence. Interactions between the aptastruc and the target sequences involve more than Watson-Crick base pairing of the consensus octamer. The binding is chemistry dependent. Phosphorothioate oligodeoxyribonucleotides and 2'-O-methyl oligoribonucleotides derived from the selected aptastrucs exhibit a weak if any affinity for the target.
DOI: 10.1089/oli.1.1997.7.369
PubMed: 9303189
Affiliations:
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Le document en format XML
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Boiziau</name><affiliation wicri:level="3"><nlm:affiliation>INSERM U 386, IFR Pathologies Infectieuses, Université Victor Segalen, Bordeaux, France.</nlm:affiliation><country xml:lang="fr">France</country><wicri:regionArea>INSERM U 386, IFR Pathologies Infectieuses, Université Victor Segalen, Bordeaux</wicri:regionArea><placeName><region type="region">Nouvelle-Aquitaine</region><region type="old region">Aquitaine</region><settlement type="city">Bordeaux</settlement></placeName></affiliation></author><author><name sortKey="Dausse, E" sort="Dausse, E" uniqKey="Dausse E" first="E" last="Dausse">E. Dausse</name></author><author><name sortKey="Mishra, R" sort="Mishra, R" uniqKey="Mishra R" first="R" last="Mishra">R. Mishra</name></author><author><name sortKey="Duconge, F" sort="Duconge, F" uniqKey="Duconge F" first="F" last="Ducongé">F. Ducongé</name></author><author><name sortKey="Toulme, J J" sort="Toulme, J J" uniqKey="Toulme J" first="J J" last="Toulmé">J J Toulmé</name></author></analytic><series><title level="j">Antisense & nucleic acid drug development</title><idno type="ISSN">1087-2906</idno><imprint><date when="1997" type="published">1997</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Base Composition</term><term>Base Sequence</term><term>Consensus Sequence</term><term>DNA, Viral (chemistry)</term><term>DNA, Viral (metabolism)</term><term>HIV Long Terminal Repeat</term><term>HIV-1 (genetics)</term><term>HIV-1 (metabolism)</term><term>Humans</term><term>Molecular Sequence Data</term><term>Oligonucleotides, Antisense (pharmacology)</term><term>RNA, Viral (chemistry)</term><term>RNA, Viral (metabolism)</term><term>Sequence Alignment</term><term>Templates, Genetic</term><term>Transcription, Genetic (drug effects)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ADN viral ()</term><term>ADN viral (métabolisme)</term><term>ARN viral ()</term><term>ARN viral (métabolisme)</term><term>Alignement de séquences</term><term>Composition en bases nucléiques</term><term>Données de séquences moléculaires</term><term>Humains</term><term>Matrices (génétique)</term><term>Oligonucléotides antisens (pharmacologie)</term><term>Répétition terminale longue du VIH</term><term>Séquence consensus</term><term>Séquence nucléotidique</term><term>Transcription génétique ()</term><term>VIH-1 (Virus de l'Immunodéficience Humaine de type 1) (génétique)</term><term>VIH-1 (Virus de l'Immunodéficience Humaine de type 1) (métabolisme)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>DNA, Viral</term><term>RNA, Viral</term></keywords><keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>DNA, Viral</term><term>RNA, Viral</term></keywords><keywords scheme="MESH" qualifier="drug effects" xml:lang="en"><term>Transcription, Genetic</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>HIV-1</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>VIH-1 (Virus de l'Immunodéficience Humaine de type 1)</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>HIV-1</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>ADN viral</term><term>ARN viral</term><term>VIH-1 (Virus de l'Immunodéficience Humaine de type 1)</term></keywords><keywords scheme="MESH" qualifier="pharmacologie" xml:lang="fr"><term>Oligonucléotides antisens</term></keywords><keywords scheme="MESH" type="chemical" qualifier="pharmacology" xml:lang="en"><term>Oligonucleotides, Antisense</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Base Composition</term><term>Base Sequence</term><term>Consensus Sequence</term><term>HIV Long Terminal Repeat</term><term>Humans</term><term>Molecular Sequence Data</term><term>Sequence Alignment</term><term>Templates, Genetic</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>ADN viral</term><term>ARN viral</term><term>Alignement de séquences</term><term>Composition en bases nucléiques</term><term>Données de séquences moléculaires</term><term>Humains</term><term>Matrices (génétique)</term><term>Répétition terminale longue du VIH</term><term>Séquence consensus</term><term>Séquence nucléotidique</term><term>Transcription génétique</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">We have extracted from a random population of about 10(9) oligodeoxynucleotides a series of 21-mers that are able to bind to a folded DNA 76-mer used as a template for in vitro transcription of the TAR element of the retrovirus HIV-1, by the T7 RNA polymerase. Five aptastrucs, that is, aptamers able to bind to the structure, out of 15 analyzed sequences, share the consensus motif 5'-PyGGG(TG)PyC, complementary in part to a weak double-stranded region of the target. (The parentheses indicate that either T or G is missing in one of these aptastrucs.) A dissociation constant of about 3 microM was evaluated by electrophoretic mobility shift assay for the winner sequence. Interactions between the aptastruc and the target sequences involve more than Watson-Crick base pairing of the consensus octamer. The binding is chemistry dependent. Phosphorothioate oligodeoxyribonucleotides and 2'-O-methyl oligoribonucleotides derived from the selected aptastrucs exhibit a weak if any affinity for the target.</div></front></TEI><affiliations><list><country><li>France</li></country><region><li>Aquitaine</li><li>Nouvelle-Aquitaine</li></region><settlement><li>Bordeaux</li></settlement></list><tree><noCountry><name sortKey="Dausse, E" sort="Dausse, E" uniqKey="Dausse E" first="E" last="Dausse">E. Dausse</name><name sortKey="Duconge, F" sort="Duconge, F" uniqKey="Duconge F" first="F" last="Ducongé">F. Ducongé</name><name sortKey="Mishra, R" sort="Mishra, R" uniqKey="Mishra R" first="R" last="Mishra">R. Mishra</name><name sortKey="Toulme, J J" sort="Toulme, J J" uniqKey="Toulme J" first="J J" last="Toulmé">J J Toulmé</name></noCountry><country name="France"><region name="Nouvelle-Aquitaine"><name sortKey="Boiziau, C" sort="Boiziau, C" uniqKey="Boiziau C" first="C" last="Boiziau">C. 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