Evidence map›Paper›PMID 38908029›Full record

ArticleNucleic acids research2024

Promoter dependent RNA polymerase II bypass of the epimerizable DNA lesion, Fapy•dG and 8-Oxo-2'-deoxyguanosine.

Shijun Gao, Yuki Tahara, Eric T Kool, Marc M Greenberg

Abstract read
In one paragraph

Article in Nucleic acids research, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
–field-weighted citation impact
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

2 citing papers in PubMed.

  1. Article
  2. Review
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

4 authors.

Shijun GaoDepartment of Chemistry, Johns Hopkins University, Baltimore, MD 21218, USA.
Yuki TaharaDepartment of Chemistry, Stanford University, Stanford, CA 94305, USA.
Eric T KoolDepartment of Chemistry, Stanford University, Stanford, CA 94305, USA.ORCID 0000-0002-7310-2935
Marc M GreenbergDepartment of Chemistry, Johns Hopkins University, Baltimore, MD 21218, USA.ORCID 0000-0002-5786-6118

Funding

How Damaged DNA Forms, and its Subsequent Chemistry: Fundamental Studies and ApplicationsR35GM131736 · NIGMS · JOHNS HOPKINS UNIVERSITY · PI MARC M GREENBERG · 2019 to 2026
$4.3M
Measuring and Modulating Oxidative DNA Damage Surveillance PathwaysR01CA217809 · NCI · STANFORD UNIVERSITY · PI KOOL, ERIC T. · 2017 to 2024
$3.7M
Biochemical studies on Fapy-dG with eukaryotic enzymes and in mammalian cellsR01ES027558 · NIEHS · JOHNS HOPKINS UNIVERSITY · PI GREENBERG, MARC M · 2017 to 2021
$1.7M
NCI NIH HHS R01 CA217809NIEHS NIH HHS R01 ES027558NIGMS NIH HHS R35 GM131736NIH HHS GM-131736
6 · The paper itself

Abstract

Formamidopyrimidine (Fapy•dG) is a major lesion arising from oxidation of dG that is produced from a common chemical precursor of 8-oxo-7,8-dihydro-2'-deoxyguanosine (8-OxodGuo). In human cells, replication of single-stranded shuttle vectors containing Fapy•dG is more mutagenic than 8-OxodGuo. Here, we present the first data regarding promoter dependent RNA polymerase II bypass of Fapy•dG. 8-OxodGuo bypass was examined side-by-side. Experiments were carried out using double-stranded shuttle vectors in HeLa cell nuclear lysates and in HEK 293T cells. The lesions do not significantly block transcriptional bypass efficiency. Less than 2% adenosine incorporation occurred in cells when the lesions were base paired with dC. Inhibiting base excision repair in HEK 293T cells significantly increased adenosine incorporation, particularly from Fapy•dG:dC bypass which yielded ∼25% adenosine incorporation. No effect was detected upon transcriptional bypass of either lesion in nucleotide excision repair deficient cells. Transcriptional mutagenesis was significantly higher when shuttle vectors containing dA opposite one of the lesions were employed. For Fapy•dG:dA bypass, adenosine incorporation was greater than 85%; whereas 8-OxodGuo:dA yielded >20% point mutations. The combination of more frequent replication mistakes and greater error-prone Pol II bypass suggest that Fapy•dG is more mutagenic than 8-OxodGuo.

Indexed as

8-Hydroxy-2'-DeoxyguanosineDeoxyguanosineDNA DamagePromoter Regions, GeneticRNA Polymerase IIDNA RepairHEK293 CellsHeLa CellsHumansPyrimidine DimersPyrimidinesTranscription, Genetic2,6-diamino-4-hydroxy-5-formamidopyrimidine8-Hydroxy-2'-DeoxyguanosineDeoxyguanosinePyrimidine DimersPyrimidinesRNA Polymerase II

Identifiers

PMID38908029
PMCPMC11260475

What Socratic holds

Textmetadata
LicenceCC BY-NC
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 Socratic graph.