Home LiteratureArticle Details
PMID: 19072762 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Review

Repair of DNA lesions associated with triplex-forming oligonucleotides.

Molecular carcinogenesis ·Vol. 48 ·No. 4 ·2009-04-00 ·Pages 389-99

Chin JY, Glazer PM

Abstract

Triplex-forming oligonucleotides (TFOs) are gene targeting tools that can bind in the major groove of duplex DNA in a sequence-specific manner. When bound to DNA, TFOs can inhibit gene expression, can position DNA-reactive agents to specific locations in the genome, or can induce targeted mutagenesis and recombination. There is evidence that third strand binding, alone or with an associated cross-link, is recognized and metabolized by DNA repair factors, particularly the nucleotide excision repair pathway. This review examines the evidence for DNA repair of triplex-associated lesions.

MeSH Terms
Animals DNA/chemistry,genetics,metabolism DNA Damage DNA Repair Humans Nucleic Acid Conformation Oligonucleotides/chemistry,genetics,metabolism
Chemicals
Oligonucleotides triplex DNA DNA
Authors & Affiliations
2 authors, click to expand affiliations / ORCID
Chin Joanna Y
Departments of Therapeutic Radiology and Genetics, Yale University School of Medicine, 15 York Street, New Haven, CT 06510, USA.
Glazer Peter M
References (56)
56 references, click to expand
  1. Repair of triplex-directed DNA alkylation by nucleotide excision repair.
    Nucleic Acids Res. 2001 Nov 1;29(21):4257-63 PMID: 11691913
  2. Site-specific oligonucleotide binding represses transcription of the human c-myc gene in vitro.
    Science. 1988 Jul 22;241(4864):456-9 PMID: 3293213
  3. Targeted gene knock in and sequence modulation mediated by a psoralen-linked triplex-forming oligonucleotide.
    J Biol Chem. 2008 Apr 25;283(17):11244-52 PMID: 18303025
  4. Distance and affinity dependence of triplex-induced recombination.
    Biochemistry. 2005 Mar 15;44(10):3856-64 PMID: 15751961
  5. Targeting DNA with triplex-forming oligonucleotides to modify gene sequence.
    Biochimie. 2008 Aug;90(8):1109-16 PMID: 18460344
  6. Targeted gene knockout mediated by triple helix forming oligonucleotides.
    Nat Genet. 1998 Oct;20(2):212-4 PMID: 9771719
  7. Recombination induced by triple-helix-targeted DNA damage in mammalian cells.
    Mol Cell Biol. 1996 Dec;16(12):6820-8 PMID: 8943337
  8. Repair of sequence-specific 125I-induced double-strand breaks by nonhomologous DNA end joining in mammalian cell-free extracts.
    J Biol Chem. 2002 Apr 5;277(14):11756-64 PMID: 11821407
  9. Intermolecular triplex formation distorts the DNA duplex in the regulatory region of human papillomavirus type-11.
    J Biol Chem. 1992 Mar 15;267(8):5488-94 PMID: 1312091
  10. Homologous recombination in DNA repair and DNA damage tolerance.
    Cell Res. 2008 Jan;18(1):99-113 PMID: 18166982
  11. Triple-helix formation induces recombination in mammalian cells via a nucleotide excision repair-dependent pathway.
    Mol Cell Biol. 2000 Feb;20(3):990-1000 PMID: 10629056
  12. Site-directed recombination via bifunctional PNA-DNA conjugates.
    Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16695-700 PMID: 12461167
  13. Extensive sugar modification improves triple helix forming oligonucleotide activity in vitro but reduces activity in vivo.
    Biochemistry. 2007 Sep 4;46(35):10222-33 PMID: 17691818
  14. Defining the function of XPC protein in psoralen and cisplatin-mediated DNA repair and mutagenesis.
    Carcinogenesis. 2003 Jun;24(6):1111-21 PMID: 12807748
  15. Targeted correction of an episomal gene in mammalian cells by a short DNA fragment tethered to a triplex-forming oligonucleotide.
    J Biol Chem. 1999 Apr 23;274(17):11541-8 PMID: 10206960
  16. Human XPA and RPA DNA repair proteins participate in specific recognition of triplex-induced helical distortions.
    Proc Natl Acad Sci U S A. 2002 Apr 30;99(9):5848-53 PMID: 11972036
  17. Psoralen interstrand cross-link repair is specifically altered by an adjacent triple-stranded structure.
    Nucleic Acids Res. 2004 Feb 13;32(3):1143-53 PMID: 14966263
  18. A triplex-forming sequence from the human c-MYC promoter interferes with DNA transcription.
    J Biol Chem. 2007 Nov 2;282(44):32433-41 PMID: 17785457
  19. Gene targeted DNA double-strand break induction by (125)I-labeled triplex-forming oligonucleotides is highly mutagenic following repair in human cells.
    Nucleic Acids Res. 1999 Nov 1;27(21):4282-90 PMID: 10518622
  20. Endonuclease-induced, targeted homologous extrachromosomal recombination in Xenopus oocytes.
    Proc Natl Acad Sci U S A. 1995 Jan 31;92(3):806-10 PMID: 7846056
  21. Repair of DNA containing interstrand crosslinks in Escherichia coli: sequential excision and recombination.
    Proc Natl Acad Sci U S A. 1973 Apr;70(4):1064-8 PMID: 4577788
  22. Nucleotide excision repair.
    Prog Nucleic Acid Res Mol Biol. 2005;79:183-235 PMID: 16096029
  23. Triplex-induced recombination in human cell-free extracts. Dependence on XPA and HsRad51.
    J Biol Chem. 2001 May 25;276(21):18018-23 PMID: 11278954
  24. Sequence-specific cleavage of double helical DNA by triple helix formation.
    Science. 1987 Oct 30;238(4827):645-50 PMID: 3118463
  25. Asymmetric recognition of psoralen interstrand crosslinks by the nucleotide excision repair and the error-prone repair pathways.
    J Mol Biol. 1999 Mar 12;286(5):1379-87 PMID: 10064704
  26. Human XPC-hHR23B interacts with XPA-RPA in the recognition of triplex-directed psoralen DNA interstrand crosslinks.
    Nucleic Acids Res. 2005 May 24;33(9):2993-3001 PMID: 15914671
  27. Mutagenesis in mammalian cells induced by triple helix formation and transcription-coupled repair.
    Science. 1996 Feb 9;271(5250):802-5 PMID: 8628995
  28. Mutational response of Fanconi anaemia cells to shuttle vector site-specific psoralen cross-links.
    Carcinogenesis. 1995 Mar;16(3):555-61 PMID: 7697813
  29. Specific mutations induced by triplex-forming oligonucleotides in mice.
    Science. 2000 Oct 20;290(5491):530-3 PMID: 11039937
  30. Altered repair of targeted psoralen photoadducts in the context of an oligonucleotide-mediated triple helix.
    J Biol Chem. 1995 Sep 22;270(38):22595-601 PMID: 7673252
  31. Specificity in formation of triple-stranded nucleic acid helical complexes: studies with agarose-linked polyribonucleotide affinity columns.
    Biochemistry. 1988 Dec 27;27(26):9108-12 PMID: 3242616
  32. Trapping DNA polymerases using triplex-forming oligodeoxyribonucleotides.
    Gene. 1994 Nov 4;149(1):127-36 PMID: 7958976
  33. Triple helix-directed psoralen crosslinks are recognized by Uvr(A)BC excinuclease.
    J Mol Biol. 1998 May 15;278(4):815-25 PMID: 9614944
  34. Targeted mutagenesis in mammalian cells mediated by intracellular triple helix formation.
    Mol Cell Biol. 1995 Mar;15(3):1759-68 PMID: 7862165
  35. Triplex-forming oligonucleotide-orthophenanthroline conjugates for efficient targeted genome modification.
    Proc Natl Acad Sci U S A. 2008 Jul 15;105(28):9576-81 PMID: 18599454
  36. Sequence-specific artificial photo-induced endonucleases based on triple helix-forming oligonucleotides.
    Nature. 1990 Mar 22;344(6264):358-60 PMID: 2156170
  37. Triplex-induced recombination and repair in the pyrimidine motif.
    Nucleic Acids Res. 2005 Jun 16;33(11):3492-502 PMID: 15961731
  38. Site-specific cleavage of a yeast chromosome by oligonucleotide-directed triple-helix formation.
    Science. 1990 Jul 6;249(4964):73-5 PMID: 2195655
  39. Self-association of G-rich oligodeoxyribonucleotides under conditions promoting purine-motif triplex formation.
    Antisense Nucleic Acid Drug Dev. 1998 Jun;8(3):215-25 PMID: 9669659
  40. Triple helix-forming oligonucleotides target psoralen adducts to specific chromosomal sequences in human cells.
    Nucleic Acids Res. 1999 Dec 15;27(24):4734-42 PMID: 10572173
  41. Covalent crosslinks introduced via a triple helix-forming oligonucleotide coupled to psoralen are inefficiently repaired.
    Nucleic Acids Res. 1999 Feb 1;27(3):743-9 PMID: 9889268
  42. Efficient inhibition of transcription elongation in vitro by oligonucleotide phosphoramidates targeted to proviral HIV DNA.
    J Mol Biol. 1996 Aug 23;261(3):386-98 PMID: 8780781
  43. Detection and determination of oligonucleotide triplex formation-mediated transcription-coupled DNA repair in HeLa nuclear extracts.
    Nucleic Acids Res. 2001 Apr 15;29(8):1801-7 PMID: 11292853
  44. Mismatch repair participates in error-free processing of DNA interstrand crosslinks in human cells.
    EMBO Rep. 2005 Jun;6(6):551-7 PMID: 15891767
  45. Site-specific inhibition of EcoRI restriction/modification enzymes by a DNA triple helix.
    Nucleic Acids Res. 1990 Jan 11;18(1):157-61 PMID: 2308821
  46. Correction of a splice-site mutation in the beta-globin gene stimulated by triplex-forming peptide nucleic acids.
    Proc Natl Acad Sci U S A. 2008 Sep 9;105(36):13514-9 PMID: 18757759
  47. Damage recognition in nucleotide excision repair of DNA.
    Gene. 2000 Jan 11;241(2):193-204 PMID: 10675030
  48. Single-site enzymatic cleavage of yeast genomic DNA mediated by triple helix formation.
    Nature. 1991 Mar 14;350(6314):172-4 PMID: 1848684
  49. Sequence-specific binding and photocrosslinking of alpha and beta oligodeoxynucleotides to the major groove of DNA via triple-helix formation.
    Proc Natl Acad Sci U S A. 1988 Mar;85(5):1349-53 PMID: 3422738
  50. Repair of triple helix directed psoralen adducts in human cells.
    Nucleic Acids Res. 1994 Jun 11;22(11):2051-6 PMID: 8029011
  51. PNA Technology.
    Mol Biotechnol. 2004 Mar;26(3):233-48 PMID: 15004293
  52. Repair and recombination induced by triple helix DNA.
    Front Biosci. 2007 May 01;12:4288-97 PMID: 17485375
  53. Psoralen adducts induced by triplex-forming oligonucleotides are refractory to repair in HeLa cells.
    J Mol Biol. 2000 Feb 18;296(2):373-83 PMID: 10669595
  54. Reversible inhibition of gene expression by a psoralen functionalized triple helix forming oligonucleotide in intact cells.
    J Biol Chem. 1994 Jun 17;269(24):16933-7 PMID: 8207016
  55. In vivo persistence of DNA triple helices containing psoralen-conjugated oligodeoxyribonucleotides.
    Nucleic Acids Res. 1996 Dec 15;24(24):4924-32 PMID: 9016662
  56. Triplex targeted genomic crosslinks enter separable deletion and base substitution pathways.
    Nucleic Acids Res. 2005 Sep 25;33(17):5382-93 PMID: 16186129
Article Info
Journal
Molecular carcinogenesis
Abbr.
Mol Carcinog
ISSN
1098-2744
DOI
10.1002/mc.20501
Published
2009-04-00
Pages
389-99
Language
English
Region
United States
NLM ID
8811105
PMCID
PMC2745299
Subset
IM
Grants
NCI NIH HHS · R01 CA064186-14 · United States
NCI NIH HHS · R01 CA064186 · United States
NIGMS NIH HHS · T32 GM007205 · United States
NIGMS NIH HHS · 5T32 GM 07205 · United States
NHLBI NIH HHS · R01 HL 082655 · United States
NCI NIH HHS · R01 CA 64186 · United States
NHLBI NIH HHS · R01 HL082655 · United States
External Links
PubMed source DOI: 10.1002/mc.20501 PMC Full Text View journal details
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: product@genelibs.com

Copyright © 2026.Genelibs Jinan Honghui Biotechnology Co., Ltd. 鲁ICP备20007159号-2