Stable transmission of targeted gene modification using single-stranded oligonucleotides with flanking LNAs

Nucleic Acids Res. 2005 Jul 7;33(12):3733-42. doi: 10.1093/nar/gki686. Print 2005.


Targeted mutagenesis directed by oligonucleotides (ONs) is a promising method for manipulating the genome in higher eukaryotes. In this study, we have compared gene editing by different ONs on two new target sequences, the eBFP and the rd1 mutant photoreceptor betaPDE cDNAs, which were integrated as single copy transgenes at the same genomic site in 293T cells. Interestingly, antisense ONs were superior to sense ONs for one target only, showing that target sequence can by itself impart strand-bias in gene editing. The most efficient ONs were short 25 nt ONs with flanking locked nucleic acids (LNAs), a chemistry that had only been tested for targeted nucleotide mutagenesis in yeast, and 25 nt ONs with phosphorothioate linkages. We showed that LNA-modified ONs mediate dose-dependent target modification and analyzed the importance of LNA position and content. Importantly, when using ONs with flanking LNAs, targeted gene modification was stably transmitted during cell division, which allowed reliable cloning of modified cells, a feature essential for further applications in functional genomics and gene therapy. Finally, we showed that ONs with flanking LNAs aimed at correcting the rd1 stop mutation could promote survival of photoreceptors in retinas of rd1 mutant mice, suggesting that they are also active in vivo.

Publication types

  • Comparative Study
  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • 3',5'-Cyclic-GMP Phosphodiesterases / genetics
  • Animals
  • Cell Line
  • Cell Survival
  • Chromosomes, Mammalian
  • Cyclic Nucleotide Phosphodiesterases, Type 6
  • DNA, Single-Stranded / chemistry
  • Green Fluorescent Proteins / genetics
  • Luminescent Proteins / genetics
  • Mice
  • Mutagenesis*
  • Mutation
  • Oligonucleotides
  • Oligonucleotides, Antisense / chemistry*
  • Photoreceptor Cells, Vertebrate / cytology
  • Plasmids
  • Sequence Analysis, DNA
  • Transgenes


  • DNA, Single-Stranded
  • Luminescent Proteins
  • Oligonucleotides
  • Oligonucleotides, Antisense
  • blue fluorescent protein, Aequorea victoria
  • locked nucleic acid
  • Green Fluorescent Proteins
  • 3',5'-Cyclic-GMP Phosphodiesterases
  • Cyclic Nucleotide Phosphodiesterases, Type 6
  • Pde6b protein, mouse