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Related Concept Videos

Phosphodiester Linkages01:01

Phosphodiester Linkages

Overview
Phosphodiester bond forms when a phosphoric acid molecule (H3PO4) links with two hydroxyl groups (–OH) of two other molecules, forming two ester bonds. Two water molecules are released in this process. The phosphodiester bond is commonly found in nucleic acids (DNA and RNA) and plays a critical role in their structure and function.
Phosphodiester Bonds Link Nucleotides Together
DNA and RNA are polynucleotides or long chains of nucleotides that are linked together. A nucleotide is...
Homologous Recombination02:31

Homologous Recombination

The basic reaction of homologous recombination (HR) involves two chromatids that contain DNA sequences sharing a significant stretch of identity. One of these sequences uses a strand from another as a template to synthesize DNA in an enzyme-catalyzed reaction. The final product is a novel amalgamation of the two substrates. To ensure an accurate recombination of sequences, HR is restricted to the S and G2 phases of the cell cycle. At these stages, the DNA has been replicated already and the...
Maxam-Gilbert Sequencing01:05

Maxam-Gilbert Sequencing

In the same year as the discovery of the Sanger sequencing method, another group of scientists, Allan Maxam and Walter Gilbert, demonstrated their chemical-cleavage method for DNA sequencing. The Maxam-Gilbert method relies on using different chemicals that can cleave the DNA sequence at specific sites, the separation of resulting DNA fragments of variable size using electrophoresis, and deciphering the DNA sequence from the resulting gel bands.
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Fixing Double-strand Breaks

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Using Modified Synthetic Oligonucleotides to Assay Nucleic Acid-Metabolizing Enzymes
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Using Modified Synthetic Oligonucleotides to Assay Nucleic Acid-Metabolizing Enzymes

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Engineering specific cross-links in nucleic acids using glycol linkers.

T O'Dea1, L W McLaughlin

  • 1Boston College, Chestnut Hill, Massachusetts, USA.

Current Protocols in Nucleic Acid Chemistry
|April 23, 2008
PubMed
Summary

Synthesize DNA and RNA cross-links using convenient oligoethylene glycol bridges via solid-phase synthesis. This method allows for studying the structural and thermodynamic impacts of these nucleic acid modifications.

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Area of Science:

  • Biochemistry
  • Molecular Biology
  • Organic Chemistry

Background:

  • Oligonucleotides are crucial in molecular biology and therapeutics.
  • Introducing cross-links into nucleic acids can alter their properties for various applications.
  • Existing cross-linking methods may have limitations in convenience or characterization.

Purpose of the Study:

  • To present a convenient method for generating oligonucleotides with intra- or interstrand cross-links.
  • To highlight the utility of oligoethylene glycol bridges for nucleic acid modification.
  • To facilitate the study of structural and thermodynamic impacts of such modifications.

Main Methods:

  • Solid-phase synthesis of oligonucleotides incorporating oligoethylene glycol bridges.
  • Preparation of glycol linkers, including protection and phosphitylation.
  • Utilizing commercially available or easily synthesized reagents.

Main Results:

  • Demonstrated a convenient approach for synthesizing cross-linked oligonucleotides.
  • Oligoethylene glycol bridges offer a versatile modification for nucleic acids.
  • The structural and thermodynamic effects of these modifications have been investigated.

Conclusions:

  • Oligoethylene glycol bridges provide an accessible and effective means for creating cross-linked oligonucleotides.
  • This methodology supports further research into the functional consequences of nucleic acid cross-linking.
  • The described synthetic strategies are practical for laboratory implementation.