Evidence map›Paper›PMID 25002536›Full record

ArticleMolecular and cellular biology2014

A novel histone deacetylase complex in the control of transcription and genome stability.

Nicola Zilio, Sandra Codlin, Ajay A Vashisht, Danny A Bitton, Steven R Head, James A Wohlschlegel, Jürg Bähler, Michael N Boddy

Open access · greenAbstract read
In one paragraph

Article in Molecular and cellular biology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.

0numbers the graph read from it
0cells of the map it votes in
20citing papers in PubMed
1.0field-weighted citation impact, top 24% 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

20 citing papers in PubMed, 43 citations in OpenAlex.

  1. RiboCop surveils pre-rRNA processing by Dicer in cellular quiescence.bioRxiv : the preprint server for biology · 2025
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  5. Class I histone deacetylase complex: Structure and functional correlates.Proceedings of the National Academy of Sciences of the United States of America · 2023
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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

8 authors at 3 institutions in 2 countries.

Nicola ZilioDepartment of Cell and Molecular Biology, The Scripps Research Institute, La Jolla, California, USA.
Sandra CodlinUniversity College London, Department of Genetics, Evolution & Environment, and UCL Cancer Institute, London, United Kingdom.
Ajay A VashishtDepartment of Biological Chemistry, David Geffen School of Medicine, University of California, Los Angeles, California, USA.
Danny A BittonUniversity College London, Department of Genetics, Evolution & Environment, and UCL Cancer Institute, London, United Kingdom.
Steven R HeadNext Generation Sequencing Core, The Scripps Research Institute, La Jolla, California, USA.
James A WohlschlegelDepartment of Biological Chemistry, David Geffen School of Medicine, University of California, Los Angeles, California, USA.
Jürg BählerUniversity College London, Department of Genetics, Evolution & Environment, and UCL Cancer Institute, London, United Kingdom.
Michael N BoddyDepartment of Cell and Molecular Biology, The Scripps Research Institute, La Jolla, California, USA nboddy@scripps.edu.
Scripps Research Institute · USUniversity College London · GBUniversity of California, Los Angeles · US

Funding

Studies of the Rad60-Smc5-Smc6 DNA Repair ComplexR01GM068608 · NIGMS · SCRIPPS RESEARCH INSTITUTE, THE · PI BODDY, MICHAEL N · 2003 to 2020
$6.2M
Proteolytic Control of Iron Metabolism by the Ubiquitin Ligase FBXL5R01GM089778 · NIGMS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI WOHLSCHLEGEL, JAMES AKIRA · 2010 to 2023
$4.0M
SUMO-dependent Regulation of Ubiquitin Ligases in Genomic StabilityR01GM081840 · NIGMS · SCRIPPS RESEARCH INSTITUTE, THE · PI BODDY, MICHAEL N · 2009 to 2018
$3.0M
NIGMS NIH HHS GM068608NIGMS NIH HHS GM081840NIGMS NIH HHS GM089778NIGMS NIH HHS R01 GM068608NIGMS NIH HHS R01 GM081840NIGMS NIH HHS R01 GM089778Wellcome Trust 095598
6 · The paper itself

Abstract

The acetylation state of histones, controlled by histone acetyltransferases (HATs) and deacetylases (HDACs), profoundly affects DNA transcription and repair by modulating chromatin accessibility to the cellular machinery. The Schizosaccharomyces pombe HDAC Clr6 (human HDAC1) binds to different sets of proteins that define functionally distinct complexes: I, I', and II. Here, we determine the composition, architecture, and functions of a new Clr6 HDAC complex, I'', delineated by the novel proteins Nts1, Mug165, and Png3. Deletion of nts1 causes increased sensitivity to genotoxins and deregulated expression of Tf2 elements, long noncoding RNA, and subtelomeric and stress-related genes. Similar, but more pervasive, phenotypes are observed upon Clr6 inactivation, supporting the designation of complex I'' as a mediator of a key subset of Clr6 functions. We also reveal that with the exception of Tf2 elements, the genome-wide loading sites and loci regulated by Clr6 I″ do not correlate. Instead, Nts1 loads at genes that are expressed in midmeiosis, following oxidative stress, or are periodically expressed. Collective data suggest that Clr6 I'' has (i) indirect effects on gene expression, conceivably by mediating higher-order chromatin organization of subtelomeres and Tf2 elements, and (ii) direct effects on the transcription of specific genes in response to certain cellular or environmental stimuli.

Indexed as

Cell Cycle ProteinsChromatinChromosomes, FungalEpigenesis, GeneticGene Expression Regulation, FungalGenome, FungalGenomic InstabilityHistone DeacetylasesMeiosisPhenotypeRNA, FungalRNA, Long NoncodingSchizosaccharomycesSchizosaccharomyces pombe ProteinsStress, PhysiologicalCell Cycle ProteinsChromatinClr6 protein, S pombeHistone DeacetylasesRNA, FungalRNA, Long NoncodingSchizosaccharomyces pombe ProteinsTf2-6 protein, S pombe

Identifiers

PMID25002536
PMCPMC4135615
OpenAlexW2169279835

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.