A1 Refereed original research article in a scientific journal
Prompt site-selective DNA hydrolysis by Ce(IV)-EDTA using oligonucleotide multiphosphonate conjugates
Authors: Lonnberg T, Suzuki Y, Komiyama M
Publisher: ROYAL SOC CHEMISTRY
Publication year: 2008
Journal:: Organic and Biomolecular Chemistry
Journal name in source: ORGANIC & BIOMOLECULAR CHEMISTRY
Journal acronym: ORG BIOMOL CHEM
Volume: 6
Issue: 19
First page : 3580
Last page: 3587
Number of pages: 8
ISSN: 1477-0520
DOI: https://doi.org/10.1039/b807789d
Abstract
Oligodeoxyribonucleotide multiphosphonate conjugates have been prepared by on-support oximation of aminooxy-functionalized of oligonucleotides with 2-(4-formylphenoxy)ethyl esters of nitrilotris(methylenephosphonic acid) (NTP) and ethylenediaminetetrakis(methylenephosphonic acid) (EDTP). These conjugates, along with the corresponding of oligonucleotides bearing hydroxy or monophosphate termini, were hybridized with a longer substrate DNA leaving a narrow single-stranded gap site in the substrate between the two additive oligonucleotides. Gap sites flanked by two of the multiphosphonate groups, in particular EDTP, were hydrolyzed by the Ce(IV)-EDTA complex significantly faster than the corresponding gap sites flanked by only hydroxy or monophosphate termini. Using the new oligonucleotide conjugates, efficient site-selective hydrolysis of the substrate DNA can be achieved at Ce(IV) concentrations where other single-stranded regions remain intact. At high Ce(IV) concentrations, the cleavage rate becomes independent on [Ce(IV)] and little improvement by the new, multiphosphonate conjugates over oligonucleotides with monophosphate termini is observed, suggesting that the origin of the rate acceleration is the higher affinity of the NTP or EDTP ligands to Ce(IV) compared to hydroxy or monophosphate ligands.
Oligodeoxyribonucleotide multiphosphonate conjugates have been prepared by on-support oximation of aminooxy-functionalized of oligonucleotides with 2-(4-formylphenoxy)ethyl esters of nitrilotris(methylenephosphonic acid) (NTP) and ethylenediaminetetrakis(methylenephosphonic acid) (EDTP). These conjugates, along with the corresponding of oligonucleotides bearing hydroxy or monophosphate termini, were hybridized with a longer substrate DNA leaving a narrow single-stranded gap site in the substrate between the two additive oligonucleotides. Gap sites flanked by two of the multiphosphonate groups, in particular EDTP, were hydrolyzed by the Ce(IV)-EDTA complex significantly faster than the corresponding gap sites flanked by only hydroxy or monophosphate termini. Using the new oligonucleotide conjugates, efficient site-selective hydrolysis of the substrate DNA can be achieved at Ce(IV) concentrations where other single-stranded regions remain intact. At high Ce(IV) concentrations, the cleavage rate becomes independent on [Ce(IV)] and little improvement by the new, multiphosphonate conjugates over oligonucleotides with monophosphate termini is observed, suggesting that the origin of the rate acceleration is the higher affinity of the NTP or EDTP ligands to Ce(IV) compared to hydroxy or monophosphate ligands.
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