Evidence map›Paper›PMID 26733197›Full record

ArticleThe Journal of biological chemistry2016

Base and Nucleotide Excision Repair of Oxidatively Generated Guanine Lesions in DNA.

Vladimir Shafirovich, Konstantin Kropachev, Thomas Anderson, Zhi Liu, Marina Kolbanovskiy, Brooke D Martin, Kent Sugden, Yoonjung Shim, Xuejing Chen, Jung-Hyun Min and 1 more

Open access · hybridAbstract read
In one paragraph

Article in The Journal of biological chemistry, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers.

0numbers the graph read from it
0cells of the map it votes in
37citing papers in PubMed
4.9field-weighted citation impact, top 5% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

37 citing papers in PubMed, 62 citations in OpenAlex.

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  12. Xeroderma Pigmentosum: A Model for Human Premature Aging.The Journal of investigative dermatology · 2021
    Review
  13. Review
  14. Effect of DNA Glycosylases OGG1 and Neil1 on Oxidized G-Rich Motif in theInternational journal of molecular sciences · 2021
    Article
  15. Article
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  19. RNA polymerase II stalls on oxidative DNA damage via a torsion-latch mechanism involving lone pair-π and CH-π interactions.Proceedings of the National Academy of Sciences of the United States of America · 2020
    Article
  20. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

11 authors at 3 institutions in 1 country.

Vladimir ShafirovichFrom the Department of Chemistry, New York University, New York, New York 10003, vs5@nyu.edu.
Konstantin KropachevFrom the Department of Chemistry, New York University, New York, New York 10003.
Thomas AndersonFrom the Department of Chemistry, New York University, New York, New York 10003.
Zhi LiuFrom the Department of Chemistry, New York University, New York, New York 10003.
Marina KolbanovskiyFrom the Department of Chemistry, New York University, New York, New York 10003.
Brooke D MartinDepartment of Chemistry, University of Montana, Missoula, Montana 59812, and.
Kent SugdenDepartment of Chemistry, University of Montana, Missoula, Montana 59812, and.
Yoonjung ShimDepartment of Chemistry, University of Illinois, Chicago, Illinois 60607.
Xuejing ChenDepartment of Chemistry, University of Illinois, Chicago, Illinois 60607.
Jung-Hyun MinDepartment of Chemistry, University of Illinois, Chicago, Illinois 60607.
Nicholas E GeacintovFrom the Department of Chemistry, New York University, New York, New York 10003, ng1@nyu.edu.
New York University · USUniversity of Illinois Chicago · USUniversity of Montana · US

Funding

Vaccine FacilityP30CA016087 · NCI · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI ANIRBAN MAITRA · 1985 to 2026
$83.1M
Reaction pathways &products of guanine radicals in DNAR01ES011589 · NIEHS · NEW YORK UNIVERSITY · PI SHAFIROVICH, VLADIMIR · 2002 to 2014
$4.1M
Oxidative DNA Lesion Formation from Chromate ExposureR01ES014872 · NIEHS · UNIVERSITY OF MONTANA · PI SUGDEN, KENT D · 2006 to 2010
$1.3M
SHARED INSTR FACILITIY FOR THE LIFE SCIC06RR016572 · NCRR · NEW YORK UNIVERSITY · PI LENNIE, PETER · 2001 to 2001
$665k
NCI NIH HHS P30 CA016087NCRR NIH HHS C06 RR016572NCRR NIH HHS C06 RR-16572NIEHS NIH HHS R01 ES 011589NIEHS NIH HHS R01 ES011589NIEHS NIH HHS R01 ES 014872NIEHS NIH HHS R01 ES014872
6 · The paper itself

Abstract

The well known biomarker of oxidative stress, 8-oxo-7,8-dihydroguanine, is more susceptible to further oxidation than the parent guanine base and can be oxidatively transformed to the genotoxic spiroiminodihydantoin (Sp) and 5-guanidinohydantoin (Gh) lesions. Incubation of 135-mer duplexes with single Sp or Gh lesions in human cell extracts yields a characteristic nucleotide excision repair (NER)-induced ladder of short dual incision oligonucleotide fragments in addition to base excision repair (BER) incision products. The ladders were not observed when NER was inhibited either by mouse monoclonal antibody (5F12) to human XPA or in XPC(-/-) fibroblast cell extracts. However, normal NER activity appeared when the XPC(-/-) cell extracts were complemented with XPC-RAD23B proteins. The Sp and Gh lesions are excellent substrates of both BER and NER. In contrast, 5-guanidino-4-nitroimidazole, a product of the oxidation of guanine in DNA by peroxynitrite, is an excellent substrate of BER only. In the case of mouse embryonic fibroblasts, BER of the Sp lesion is strongly reduced in NEIL1(-/-) relative to NEIL1(+/+) extracts. In summary, in human cell extracts, BER and NER activities co-exist and excise Gh and Sp DNA lesions, suggesting that the relative NER/BER product ratios may depend on competitive BER and NER protein binding to these lesions.

Indexed as

DNA RepairOxidative StressAnimalsCell LineCellsDNA-Binding ProteinsDNA GlycosylasesGuanineHeLa CellsHumansMice8-hydroxyguanineDNA-Binding ProteinsDNA GlycosylasesGuanineNEIL1 protein, humanXPC protein, humanbase excision repair (BER)DNA damageDNA repairnucleotide excision repairoxidative stress

Identifiers

PMID26733197
PMCPMC4777862
OpenAlexW2232961728

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.