Evidence map›Paper›PMID 39373531›Full record

ArticleNucleic acids research2024

Establishment of closed 35S ribosomal RNA gene chromatin in stationary Saccharomyces cerevisiae cells.

Virginia Babl, Philipp Girke, Sebastian Kruse, Sophia Pinz, Katharina Hannig, Christopher Schächner, Kristin Hergert, Manuel Wittner, Wolfgang Seufert, Philipp Milkereit and 2 more

Abstract read
PubMed Full text at PMC Publisher
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 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. 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

12 authors.

Virginia BablRegensburg Center of Biochemistry (RCB), Institut für Biochemie, Genetik und Mikrobiologie, Universität Regensburg, Lehrstühle Biochemie III und Genetik, Universitätsstr. 31, 93053 Regensburg, Germany.
Philipp GirkeRegensburg Center of Biochemistry (RCB), Institut für Biochemie, Genetik und Mikrobiologie, Universität Regensburg, Lehrstühle Biochemie III und Genetik, Universitätsstr. 31, 93053 Regensburg, Germany.
Sebastian KruseRegensburg Center of Biochemistry (RCB), Institut für Biochemie, Genetik und Mikrobiologie, Universität Regensburg, Lehrstühle Biochemie III und Genetik, Universitätsstr. 31, 93053 Regensburg, Germany.
Sophia PinzRegensburg Center of Biochemistry (RCB), Institut für Biochemie, Genetik und Mikrobiologie, Universität Regensburg, Lehrstühle Biochemie III und Genetik, Universitätsstr. 31, 93053 Regensburg, Germany.
Katharina HannigRegensburg Center of Biochemistry (RCB), Institut für Biochemie, Genetik und Mikrobiologie, Universität Regensburg, Lehrstühle Biochemie III und Genetik, Universitätsstr. 31, 93053 Regensburg, Germany.
Christopher SchächnerRegensburg Center of Biochemistry (RCB), Institut für Biochemie, Genetik und Mikrobiologie, Universität Regensburg, Lehrstühle Biochemie III und Genetik, Universitätsstr. 31, 93053 Regensburg, Germany.
Kristin HergertRegensburg Center of Biochemistry (RCB), Institut für Biochemie, Genetik und Mikrobiologie, Universität Regensburg, Lehrstühle Biochemie III und Genetik, Universitätsstr. 31, 93053 Regensburg, Germany.
Manuel WittnerRegensburg Center of Biochemistry (RCB), Institut für Biochemie, Genetik und Mikrobiologie, Universität Regensburg, Lehrstühle Biochemie III und Genetik, Universitätsstr. 31, 93053 Regensburg, Germany.
Wolfgang SeufertRegensburg Center of Biochemistry (RCB), Institut für Biochemie, Genetik und Mikrobiologie, Universität Regensburg, Lehrstühle Biochemie III und Genetik, Universitätsstr. 31, 93053 Regensburg, Germany.
Philipp MilkereitRegensburg Center of Biochemistry (RCB), Institut für Biochemie, Genetik und Mikrobiologie, Universität Regensburg, Lehrstühle Biochemie III und Genetik, Universitätsstr. 31, 93053 Regensburg, Germany.
Herbert TschochnerRegensburg Center of Biochemistry (RCB), Institut für Biochemie, Genetik und Mikrobiologie, Universität Regensburg, Lehrstühle Biochemie III und Genetik, Universitätsstr. 31, 93053 Regensburg, Germany.
Joachim GriesenbeckRegensburg Center of Biochemistry (RCB), Institut für Biochemie, Genetik und Mikrobiologie, Universität Regensburg, Lehrstühle Biochemie III und Genetik, Universitätsstr. 31, 93053 Regensburg, Germany.ORCID 0000-0002-7817-6095

Funding

Collaborative Reserarch Centre 960Deutsche Forschungsgemeinschaft GR 1706/7-1
6 · The paper itself

Abstract

As a first step in eukaryotic ribosome biogenesis RNA polymerase (Pol) I synthesizes a large ribosomal RNA (rRNA) precursor from multicopy rRNA gene loci. This process is essential for cellular growth and regulated in response to the cell's physiological state. rRNA gene transcription is downregulated upon growth to stationary phase in the yeast Saccharomyces cerevisiae. This reduction correlates with characteristic changes in rRNA gene chromatin structure from a transcriptionally active 'open' state to a non-transcribed 'closed' state. The conserved lysine deacetylase Rpd3 was shown to be required for this chromatin transition. We found that Rpd3 is needed for tight repression of Pol I transcription upon growth to stationary phase as a prerequisite for the establishment of the closed chromatin state. We provide evidence that Rpd3 regulates Pol I transcription by adjusting cellular levels of the Pol I preinitiation complex component core factor (CF). Importantly, our study identifies CF as the complex limiting the number of open rRNA genes in exponentially growing and stationary cells.

Indexed as

ChromatinGenes, rRNARNA Polymerase ISaccharomyces cerevisiaeSaccharomyces cerevisiae ProteinsGene Expression Regulation, FungalHistone DeacetylasesRNA, RibosomalTranscription, GeneticChromatinHistone DeacetylasesRNA Polymerase IRNA, RibosomalRPD3 protein, S cerevisiaeSaccharomyces cerevisiae Proteins

Identifiers

PMID39373531
PMCPMC11551728

What OpenQuestion holds

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LicenceCC BY
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.