An oligonucleotide hybridization approach to DNA sequencing.
Identifieur interne : 001455 ( Ncbi/Curation ); précédent : 001454; suivant : 001456An oligonucleotide hybridization approach to DNA sequencing.
Auteurs : K R Khrapko [Russie] ; Lysov YuP ; A A Khorlyn ; V V Shick ; V L Florentiev ; A D MirzabekovSource :
- FEBS letters [ 0014-5793 ] ; 1989.
Descripteurs français
- KwdFr :
- MESH :
English descriptors
- KwdEn :
- MESH :
- chemical , analysis : DNA, Oligonucleotides, Peptide Fragments.
- Base Sequence, Computers, Genes, Genes, Overlapping, Genetic Techniques, Molecular Probe Techniques, Nucleic Acid Hybridization.
Abstract
We have proposed a DNA sequencing method based on hybridization of a DNA fragment to be sequenced with the complete set of fixed-length oligonucleotides (e.g., 4(8) = 65,536 possible 8-mers) immobilized individually as dots of a 2-D matrix [(1989) Dokl. Akad. Nauk SSSR 303, 1508-1511]. It was shown that the list of hybridizing octanucleotides is sufficient for the computer-assisted reconstruction of the structures for 80% of random-sequence fragments up to 200 bases long, based on the analysis of the octanucleotide overlapping. Here a refinement of the method and some experimental data are presented. We have performed hybridizations with oligonucleotides immobilized on a glass plate, and obtained their dissociation curves down to heptanucleotides. Other approaches, e.g., an additional hybridization of short oligonucleotides which continuously extend duplexes formed between the fragment and immobilized oligonucleotides, should considerably increase either the probability of unambiguous reconstruction, or the length of reconstructed sequences, or decrease the size of immobilized oligonucleotides.
DOI: 10.1016/0014-5793(89)81730-2
PubMed: 2680594
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">An oligonucleotide hybridization approach to DNA sequencing.</title><author><name sortKey="Khrapko, K R" sort="Khrapko, K R" uniqKey="Khrapko K" first="K R" last="Khrapko">K R Khrapko</name><affiliation wicri:level="3"><nlm:affiliation>V.A. Engelhardt Institute of Molecular Biology, Academy of Sciences of the USSR, Moscow.</nlm:affiliation><country>Russie</country><placeName><settlement type="city">Moscou</settlement><region>District fédéral central</region></placeName><wicri:orgArea>V.A. Engelhardt Institute of Molecular Biology, Academy of Sciences of the USSR</wicri:orgArea></affiliation></author><author><name sortKey="Lysov Yup" sort="Lysov Yup" uniqKey="Lysov Yup" last="Lysov Yup">Lysov YuP</name></author><author><name sortKey="Khorlyn, A A" sort="Khorlyn, A A" uniqKey="Khorlyn A" first="A A" last="Khorlyn">A A Khorlyn</name></author><author><name sortKey="Shick, V V" sort="Shick, V V" uniqKey="Shick V" first="V V" last="Shick">V V Shick</name></author><author><name sortKey="Florentiev, V L" sort="Florentiev, V L" uniqKey="Florentiev V" first="V L" last="Florentiev">V L Florentiev</name></author><author><name sortKey="Mirzabekov, A D" sort="Mirzabekov, A D" uniqKey="Mirzabekov A" first="A D" last="Mirzabekov">A D Mirzabekov</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="1989">1989</date><idno type="RBID">pubmed:2680594</idno><idno type="pmid">2680594</idno><idno type="doi">10.1016/0014-5793(89)81730-2</idno><idno type="wicri:Area/PubMed/Corpus">002A36</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">002A36</idno><idno type="wicri:Area/PubMed/Curation">002A36</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">002A36</idno><idno type="wicri:Area/PubMed/Checkpoint">002889</idno><idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">002889</idno><idno type="wicri:Area/Ncbi/Merge">001455</idno><idno type="wicri:Area/Ncbi/Curation">001455</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">An oligonucleotide hybridization approach to DNA sequencing.</title><author><name sortKey="Khrapko, K R" sort="Khrapko, K R" uniqKey="Khrapko K" first="K R" last="Khrapko">K R Khrapko</name><affiliation wicri:level="3"><nlm:affiliation>V.A. Engelhardt Institute of Molecular Biology, Academy of Sciences of the USSR, Moscow.</nlm:affiliation><country>Russie</country><placeName><settlement type="city">Moscou</settlement><region>District fédéral central</region></placeName><wicri:orgArea>V.A. Engelhardt Institute of Molecular Biology, Academy of Sciences of the USSR</wicri:orgArea></affiliation></author><author><name sortKey="Lysov Yup" sort="Lysov Yup" uniqKey="Lysov Yup" last="Lysov Yup">Lysov YuP</name></author><author><name sortKey="Khorlyn, A A" sort="Khorlyn, A A" uniqKey="Khorlyn A" first="A A" last="Khorlyn">A A Khorlyn</name></author><author><name sortKey="Shick, V V" sort="Shick, V V" uniqKey="Shick V" first="V V" last="Shick">V V Shick</name></author><author><name sortKey="Florentiev, V L" sort="Florentiev, V L" uniqKey="Florentiev V" first="V L" last="Florentiev">V L Florentiev</name></author><author><name sortKey="Mirzabekov, A D" sort="Mirzabekov, A D" uniqKey="Mirzabekov A" first="A D" last="Mirzabekov">A D Mirzabekov</name></author></analytic><series><title level="j">FEBS letters</title><idno type="ISSN">0014-5793</idno><imprint><date when="1989" type="published">1989</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Base Sequence</term><term>Computers</term><term>DNA (analysis)</term><term>Genes</term><term>Genes, Overlapping</term><term>Genetic Techniques</term><term>Molecular Probe Techniques</term><term>Nucleic Acid Hybridization</term><term>Oligonucleotides (analysis)</term><term>Peptide Fragments (analysis)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ADN (analyse)</term><term>Fragments peptidiques (analyse)</term><term>Gènes</term><term>Gènes chevauchants</term><term>Hybridation d'acides nucléiques</term><term>Oligonucléotides (analyse)</term><term>Ordinateurs</term><term>Séquence nucléotidique</term><term>Techniques de sonde moléculaire</term><term>Techniques génétiques</term></keywords><keywords scheme="MESH" type="chemical" qualifier="analysis" xml:lang="en"><term>DNA</term><term>Oligonucleotides</term><term>Peptide Fragments</term></keywords><keywords scheme="MESH" qualifier="analyse" xml:lang="fr"><term>ADN</term><term>Fragments peptidiques</term><term>Oligonucléotides</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Base Sequence</term><term>Computers</term><term>Genes</term><term>Genes, Overlapping</term><term>Genetic Techniques</term><term>Molecular Probe Techniques</term><term>Nucleic Acid Hybridization</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Gènes</term><term>Gènes chevauchants</term><term>Hybridation d'acides nucléiques</term><term>Ordinateurs</term><term>Séquence nucléotidique</term><term>Techniques de sonde moléculaire</term><term>Techniques génétiques</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">We have proposed a DNA sequencing method based on hybridization of a DNA fragment to be sequenced with the complete set of fixed-length oligonucleotides (e.g., 4(8) = 65,536 possible 8-mers) immobilized individually as dots of a 2-D matrix [(1989) Dokl. Akad. Nauk SSSR 303, 1508-1511]. It was shown that the list of hybridizing octanucleotides is sufficient for the computer-assisted reconstruction of the structures for 80% of random-sequence fragments up to 200 bases long, based on the analysis of the octanucleotide overlapping. Here a refinement of the method and some experimental data are presented. We have performed hybridizations with oligonucleotides immobilized on a glass plate, and obtained their dissociation curves down to heptanucleotides. Other approaches, e.g., an additional hybridization of short oligonucleotides which continuously extend duplexes formed between the fragment and immobilized oligonucleotides, should considerably increase either the probability of unambiguous reconstruction, or the length of reconstructed sequences, or decrease the size of immobilized oligonucleotides.</div></front></TEI></record>Pour manipuler ce document sous Unix (Dilib)
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