Evidence map›Paper›PMID 12183367›Full record

ArticleGenes & development2002

CDK-9/cyclin T (P-TEFb) is required in two postinitiation pathways for transcription in the C. elegans embryo.

Eun Yong Shim, Amy K Walker, Yang Shi, T Keith Blackwell

Open access · diamondAbstract read
In one paragraph

Article in Genes & development, 2002. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 98 papers.

0numbers the graph read from it
0cells of the map it votes in
98citing 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

98 citing papers in PubMed, 198 citations in OpenAlex.

  1. Article
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  6. OncogenicScience (New York, N.Y.) · 2023
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  9. Review
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  11. Genetics · 2020
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  15. Article
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  18. Article
  19. Article
  20. Review

38 more citing papers are in PubMed but not listed here.

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 at 2 institutions in 1 country.

Eun Yong ShimCenter for Blood Research, Harvard Medical School, Boston, Massachusetts 02115, USA.
Amy K Walker
Yang Shi
T Keith Blackwell
Dana-Farber/Boston Children's Cancer and Blood Disorders Center · USHarvard University Press · US

Funding

SKN-1 Regulation and Oxidative Stress Resistance in C. elegansR01GM062891 · NIGMS · JOSLIN DIABETES CENTER · PI BLACKWELL, T KEITH · 2001 to 2016
$5.6M
TRANSCRIPTION COFACTORS IN DIFFERENTIATIONR01GM058012 · NIGMS · HARVARD UNIVERSITY (MEDICAL SCHOOL) · PI SHI, YANG · 1999 to 2011
$4.1M
NIGMS NIH HHS GM58012NIGMS NIH HHS GM62891NIGMS NIH HHS R01 GM058012NIGMS NIH HHS R01 GM062891
6 · The paper itself

Abstract

The metazoan transcription elongation factor P-TEFb (CDK-9/cyclin T) is essential for HIV transcription, and is recruited by some cellular activators. P-TEFb promotes elongation in vitro by overcoming pausing that requires the SPT-4/SPT-5 complex, but considerable evidence indicates that SPT-4/SPT-5 facilitates elongation in vivo. Here we used RNA interference to investigate P-TEFb functions in vivo, in the Caenorhabditis elegans embryo. We found that P-TEFb is broadly essential for expression of early embryonic genes. P-TEFb is required for phosphorylation of Ser 2 of the RNA Polymerase II C-terminal domain (CTD) repeat, but not for most CTD Ser 5 phosphorylation, supporting the model that P-TEFb phosphorylates CTD Ser 2 during elongation. Remarkably, although heat shock genes are cdk-9-dependent, they can be activated when spt-4 and spt-5 expression is inhibited along with cdk-9. This observation suggests that SPT-4/SPT-5 has an inhibitory function in vivo, and that mutually opposing influences of P-TEFb and SPT-4/SPT-5 may combine to facilitate elongation, or insure fidelity of mRNA production. Other genes are not expressed when cdk-9, spt-4, and spt-5 are inhibited simultaneously, suggesting that these genes require P-TEFb in an additional mechanism, and that they and heat shock genes are regulated through different P-TEFb-dependent elongation pathways.

Indexed as

Caenorhabditis elegans ProteinsTranscriptional Elongation FactorsTranscription, GeneticAnimalsCaenorhabditis elegansCyclin-Dependent Kinase 9Cyclin-Dependent KinasesGene Expression Regulation, DevelopmentalMicroscopy, FluorescenceModels, BiologicalModels, GeneticNuclear ProteinsPhenotypePhosphorylationPositive Transcriptional Elongation Factor BProtein Serine-Threonine KinasesCaenorhabditis elegans Proteinscdk9 protein kinase, C elegansCyclin-Dependent Kinase 9Cyclin-Dependent KinasesDSIF protein, C elegansNuclear ProteinsPositive Transcriptional Elongation Factor BProtein Serine-Threonine KinasesRNASaccharomyces cerevisiae ProteinsSPT4 protein, S cerevisiaeTranscriptional Elongation FactorsTranscription Factors

Identifiers

PMID12183367
PMCPMC186450
OpenAlexW2147390648

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.