Evidence map›Paper›PMID 26824723›Full record

ArticleBiochimica et biophysica acta2016

Core promoter-specific gene regulation: TATA box selectivity and Initiator-dependent bi-directionality of serum response factor-activated transcription.

Muyu Xu, Elsie Gonzalez-Hurtado, Ernest Martinez

Open access · greenAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Biochimica et biophysica acta, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.

0numbers the graph read from it
0cells of the map it votes in
15citing papers in PubMed
0.7field-weighted citation impact, top 27% 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

15 citing papers in PubMed, 26 citations in OpenAlex.

  1. Review
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  10. Functional Analysis of Two Zinc (Zn) Transporters (International journal of molecular sciences · 2020
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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

3 authors at 1 institution in 1 country.

Muyu XuDepartment of Biochemistry, University of California, Riverside, CA 92521, USA.
Elsie Gonzalez-HurtadoDepartment of Biochemistry, University of California, Riverside, CA 92521, USA; MARC U-STAR Program, University of California, Riverside, CA 92521, USA.
Ernest MartinezDepartment of Biochemistry, University of California, Riverside, CA 92521, USA; MARC U-STAR Program, University of California, Riverside, CA 92521, USA. Electronic address: ernest.martinez@ucr.edu.
University of California, Riverside · US

Funding

UC Riverside MARC U* Star Undergraduate Research ProgramT34GM062756 · NIGMS · UNIVERSITY OF CALIFORNIA RIVERSIDE · PI MARTINEZ, ERNEST · 2001 to 2022
$8.7M
NIGMS NIH HHS T34 GM062756NIGMS NIH HHS T34GM062756
6 · The paper itself

Abstract

Gene-specific activation by enhancers involves their communication with the basal RNA polymerase II transcription machinery at the core promoter. Core promoters are diverse and may contain a variety of sequence elements such as the TATA box, the Initiator (INR), and the downstream promoter element (DPE) recognized, respectively, by the TATA-binding protein (TBP) and TBP-associated factors of the TFIID complex. Core promoter elements contribute to the gene selectivity of enhancers, and INR/DPE-specific enhancers and activators have been identified. Here, we identify a TATA box-selective activating sequence upstream of the human β-actin (ACTB) gene that mediates serum response factor (SRF)-induced transcription from TATA-dependent but not INR-dependent promoters and requires the TATA-binding/bending activity of TBP, which is otherwise dispensable for transcription from a TATA-less promoter. The SRF-dependent ACTB sequence is stereospecific on TATA promoters but activates in an orientation-independent manner a composite TATA/INR-containing promoter. More generally, we show that SRF-regulated genes of the actin/cytoskeleton/contractile family tend to have a TATA box. These results suggest distinct TATA-dependent and INR-dependent mechanisms of TFIID-mediated transcription in mammalian cells that are compatible with only certain stereospecific combinations of activators, and that a TBP-TATA binding mechanism is important for SRF activation of the actin/cytoskeleton-related gene family.

Indexed as

ActinsAnimalsGene Expression RegulationHumansMacromolecular SubstancesPromoter Regions, GeneticProtein BindingRegulatory Sequences, Nucleic AcidRNA Polymerase IISerum Response FactorTATA-Binding Protein Associated FactorsTATA BoxTATA-Box Binding ProteinTranscription Factor TFIIDTranscription, GeneticActinsMacromolecular SubstancesRNA Polymerase IISerum Response FactorTATA-Binding Protein Associated FactorsTATA-Box Binding ProteinTranscription Factor TFIIDCore promoter-selective transcription activationGene regulationRNA polymerase IITATA-binding proteinTATA box

Identifiers

PMID26824723
PMCPMC4818687
OpenAlexW2288176106

What OpenQuestion holds

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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.