Mini-antisense Oligonucleotides

Pyshnyi, D. V.; Pyshnaya, I. A.; Lokhov, S. G.; Иванова, Е. М.; Зарытова, В. Ф.

doi:10.1080/07328319708006231

Cited by 4 publications

(6 citation statements)

References 1 publication

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“…Apparently, this is associated with an inappropriate orientation of the catalytic groups bound to the oligonucleotide via a linker that acts as an intercalator [53].…”

Section: Design and Synthesis Of Oligonucleotide Conjugates With Rnasmentioning

confidence: 99%

Design and Synthesis of Metal-Free Artificial Ribonucleases

Королева¹,

Serpokrylova²,

Vlassov³

et al. 2007

PPL

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“…Apparently, this is associated with an inappropriate orientation of the catalytic groups bound to the oligonucleotide via a linker that acts as an intercalator [53].…”

Section: Design and Synthesis Of Oligonucleotide Conjugates With Rnasmentioning

confidence: 99%

Design and Synthesis of Metal-Free Artificial Ribonucleases

Королева¹,

Serpokrylova²,

Vlassov³

et al. 2007

PPL

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“…The use of oligonucleotide probes bearing nonnucleotide insertions into the carbohydrate–phosphate backbone also exhibited increased single mismatch discrimination efficiency of DNA–substrates during enzymatic ligation using T4 phage DNA–ligase, and during elongation by Taq DNA–polymerase as compared to the use of native DNA primers [13, 113]. The presence of insertions based on phosphodiesters of oligoethyleneglycol and oligomethylene diols inside the enzyme–binding site on the DNA–substrate or at its border caused a significant increase in the selectivity of the modified probe conversion.…”

Section: Modifications Of the Internucleotide Phosphodiester Residuementioning

confidence: 99%

Selectivity of Enzymatic Conversion of Oligonucleotide Probes during Nucleotide Polymorphism Analysis of DN

Vinogradova

Пышный

2010

Acta Naturae

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The analysis of DNA nucleotide polymorphisms is one of the main goals of DNA diagnostics. DNA–dependent enzymes (DNA polymerases and DNA ligases) are widely used to enhance the sensitivity and reliability of systems intended for the detection of point mutations in genetic material. In this article, we have summarized the data on the selectiveness of DNA–dependent enzymes and on the structural factors in enzymes and DNA which influence the effectiveness of mismatch discrimination during enzymatic conversion of oligonucleotide probes on a DNA template. The data presented characterize the sensitivity of a series of DNA–dependent enzymes that are widely used in the detection of noncomplementary base pairs in nucleic acid substrate complexes. We have analyzed the spatial properties of the enzyme–substrate complexes. These properties are vital for the enzymatic reaction and the recognition of perfect DNA–substrates. We also discuss relevant approaches to increasing the selectivity of enzyme–dependent reactions. These approaches involve the use of modified oligonucleotide probes which “disturb” the native structure of the DNA–substrate complexes.

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“…Internucleotide phosphate modifications 3-nitropyroll [30,96] 4-nitroimidazole [97] С2, С4-thiothymidine [109] 2'-O, 4'-c methyleneribose (LnA) [98][99][100][101][102], 2'-O, 4'-c ethyleneribose (enA) [103] С4'-alkylribose [105][106][107][108][109] thiophosphate [110][111][112] oligoethyleneglycol [13,113] oligomethylenediol [13,113] -----er that bore only the smallest available methyl side chain. Taq polymerase could not elongate modified oligonucleotides.…”

Section: Heterocyclic Base Modifications Carbohydrate Backbone Modifimentioning

confidence: 99%

“…This section will review the structural traits of the DNA–complex which can increase the selectivity of the enzymatic reaction. One of the simplest ways to increase enzymatic ligation effectiveness is to use a method based on “modified” probes, which consist of tandems of short oligonucleotides [ 83 – 85 ]. The presence among the ligated components of mini–probes of penta– and even tetra–nucleotides makes these composite complexes less effective as substrates, and their enzymatic selectivity appears to be high [ 83 , 85 ].…”

Section: Effect Of Structural Disruptions Of the Dna Substrate On Thementioning

confidence: 99%

“…One of the simplest ways to increase enzymatic ligation effectiveness is to use a method based on “modified” probes, which consist of tandems of short oligonucleotides [ 83 – 85 ]. The presence among the ligated components of mini–probes of penta– and even tetra–nucleotides makes these composite complexes less effective as substrates, and their enzymatic selectivity appears to be high [ 83 , 85 ]. If a tetranucleotide is used as the central part of a three–part tandem, the discrimination factor for any type of mismatch in the region of the substrate complex is more than 300 when using the mesophilic Т 4 DNA–ligase [ 85 ].…”

Section: Effect Of Structural Disruptions Of the Dna Substrate On Thementioning

confidence: 99%

See 1 more Smart Citation

Selectivity of Enzymatic Conversion of Oligonucleotide Probes during Nucleotide Polymorphism Analysis of DN

Vinogradova¹,

Pyshnyi²

2010

Acta Naturae

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The analysis of DNA nucleotide polymorphisms is one of the main goals of DNA diagnostics. DNA-dependent enzymes (DNA polymerases and DNA ligases) are widely used to enhance the sensitivity and reliability of systems intended for the detection of point mutations in genetic material. In this article, we have summarized the data on the selectiveness of DNA-dependent enzymes and on the structural factors in enzymes and DNA which influence the effectiveness of mismatch discrimination during enzymatic conversion of oligonucleotide probes on a DNA template. The data presented characterize the sensitivity of a series of DNA-dependent enzymes that are widely used in the detection of noncomplementary base pairs in nucleic acid substrate complexes. We have analyzed the spatial properties of the enzyme-substrate complexes. These properties are vital for the enzymatic reaction and the recognition of perfect DNA-substrates. We also discuss relevant approaches to increasing the selectivity of enzyme-dependent reactions. These approaches involve the use of modified oligonucleotide probes which "disturb" the native structure of the DNA-substrate complexes. KEYWORDS DNA complexes, mismatch, selectivity, DNA ligase, DNA polymerase, modified oligonucleotide probes. ABBREvIATIONS PCR-polymerase chain reaction, NA-nucleic acid, AdD-nucleotidyltransferase domain of DNA ligases, OB-oligonucleotide/oligosaccharide binding domain of DNA ligases, DBD-DNA binding domain of DNA ligases, HhH-motif of DNA ligases helix-hairpin-helix, Zn-zinc-fingers, BRCT-C-terminal domain of DNA ligases, PNA-Peptide Nucleic Acids, LNA-Locked Nucleic Acid, ENA-Ethylene Nucleic Acid, dNTP-deoxyribonucleosidetriphosphate, PPi-inorganic pyrophosphate, mc-main chain of protein backbone.

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Mini-antisense Oligonucleotides

Cited by 4 publications

References 1 publication

Design and Synthesis of Metal-Free Artificial Ribonucleases

Design and Synthesis of Metal-Free Artificial Ribonucleases

Selectivity of Enzymatic Conversion of Oligonucleotide Probes during Nucleotide Polymorphism Analysis of DN

Selectivity of Enzymatic Conversion of Oligonucleotide Probes during Nucleotide Polymorphism Analysis of DN

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