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Literature DB >> 22941605

Measuring the formation and repair of UV damage at the DNA sequence level by ligation-mediated PCR.

Abstract

The formation and repair of DNA damage at specific locations in the genome is modulated by DNA sequence context, by DNA cytosine-5 methylation patterns, by the transcriptional status of the locus and by proteins associated with the DNA. The only method currently available to allow precise sequence mapping of DNA lesions in mammalian cells is the ligation-mediated polymerase chain reaction (LM-PCR) technique. We provide an update on technical details of LM-PCR. LM-PCR can be used, for example, for mapping of ultraviolet (UV) light-induced DNA photoproducts such as cyclobutane pyrimidine dimers.

Entities: CellLine Chemical Disease Gene Species

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Year: 2012 PMID： 22941605 PMCID： PMC3543819 DOI： 10.1007/978-1-61779-998-3_14

Source DB: PubMed Journal: Methods Mol Biol ISSN： 1064-3745

24 in total

1. Decreased DNA repair efficiency by loss or disruption of p53 function preferentially affects removal of cyclobutane pyrimidine dimers from non-transcribed strand and slow repair sites in transcribed strand.

Authors: Q Zhu; M A Wani; M El-Mahdy; A A Wani
Journal: J Biol Chem Date: 2000-04-14 Impact factor: 5.157

2. Cell cycle-independent removal of UV-induced pyrimidine dimers from the promoter and the transcription initiation domain of the human CDC2 gene.

Authors: S Tommasi; A B Oxyzoglou; G P Pfeifer
Journal: Nucleic Acids Res Date: 2000-10-15 Impact factor: 16.971

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Authors: J E Cleaver
Journal: Nature Date: 1968-05-18 Impact factor: 49.962

4. DNA repair in an active gene: removal of pyrimidine dimers from the DHFR gene of CHO cells is much more efficient than in the genome overall.

Authors: V A Bohr; C A Smith; D S Okumoto; P C Hanawalt
Journal: Cell Date: 1985-02 Impact factor: 41.582

5. Distribution of UV light-induced damage in a defined sequence of human DNA: detection of alkaline-sensitive lesions at pyrimidine nucleoside-cytidine sequences.

Authors: J A Lippke; L K Gordon; D E Brash; W A Haseltine
Journal: Proc Natl Acad Sci U S A Date: 1981-06 Impact factor: 11.205

6. Cyclobutane pyrimidine dimers are responsible for the vast majority of mutations induced by UVB irradiation in mammalian cells.

Authors: Y H You; D H Lee; J H Yoon; S Nakajima; A Yasui; G P Pfeifer
Journal: J Biol Chem Date: 2001-09-25 Impact factor: 5.157

7. Different types of DNA damage play different roles in the etiology of sunlight-induced melanoma.

Authors: David L Mitchell; André A Fernandez
Journal: Pigment Cell Melanoma Res Date: 2010-10-29 Impact factor: 4.693

8. Transcription-coupled and transcription-independent repair of cyclobutane pyrimidine dimers in the dihydrofolate reductase gene.

Authors: Wenwei Hu; Zhaohui Feng; Lawrence A Chasin; Moon-shong Tang
Journal: J Biol Chem Date: 2002-08-06 Impact factor: 5.157

9. Comparison of the cleavage of pyrimidine dimers by the bacteriophage T4 and Micrococcus luteus UV-specific endonucleases.

Authors: L K Gordon; W A Haseltine
Journal: J Biol Chem Date: 1980-12-25 Impact factor: 5.157

10. A pyrimidine dimer-DNA glycosylase activity associated with the v gene product of bacterophage T4.

Authors: E H Radany; E C Friedberg
Journal: Nature Date: 1980-07-10 Impact factor: 49.962

12 in total

Review 1. Molecular mechanisms and genomic maps of DNA excision repair in Escherichia coli and humans.

Authors: Jinchuan Hu; Christopher P Selby; Sheera Adar; Ogun Adebali; Aziz Sancar
Journal: J Biol Chem Date: 2017-08-10 Impact factor: 5.157

2. Quantifying DNA double-strand breaks induced by site-specific endonucleases in living cells by ligation-mediated purification.

Authors: Catherine Chailleux; François Aymard; Pierre Caron; Virginie Daburon; Céline Courilleau; Yvan Canitrot; Gaëlle Legube; Didier Trouche
Journal: Nat Protoc Date: 2014-02-06 Impact factor: 13.491

3. Genome-wide mapping of nucleotide excision repair with XR-seq.

Authors: Jinchuan Hu; Wentao Li; Ogun Adebali; Yanyan Yang; Onur Oztas; Christopher P Selby; Aziz Sancar
Journal: Nat Protoc Date: 2019-01 Impact factor: 13.491

Review 4. The Cartography of UV-induced DNA Damage Formation and DNA Repair.

Authors: Jinchuan Hu; Sheera Adar
Journal: Photochem Photobiol Date: 2017-01-30 Impact factor: 3.421

5. Dynamic maps of UV damage formation and repair for the human genome.

Authors: Jinchuan Hu; Ogun Adebali; Sheera Adar; Aziz Sancar
Journal: Proc Natl Acad Sci U S A Date: 2017-06-12 Impact factor: 11.205

Review 6. Detecting Rare Mutations and DNA Damage with Sequencing-Based Methods.

Authors: Daniel B Sloan; Amanda K Broz; Joel Sharbrough; Zhiqiang Wu
Journal: Trends Biotechnol Date: 2018-03-14 Impact factor: 19.536

7. High-resolution Digital Mapping of N-Methylpurines in Human Cells Reveals Modulation of Their Induction and Repair by Nearest-neighbor Nucleotides.

Authors: Mingyang Li; Tengyu Ko; Shisheng Li
Journal: J Biol Chem Date: 2015-08-03 Impact factor: 5.157