Evidence map›Paper›PMID 42380116›Full record

ArticleNature communications2026

Context-dependent interplay of Swi-Snf and Tup1-Cyc8 influences chromatin and transcription at antagonistically regulated genes.

Xuyuan Guo, Mohamed M Alhussain, Brenda Lee, Nicole Byrne, Karsten Hokamp, Hadel Aljaeed, Reham H Alnajjar, Zain M F Baazeem, Georgina Smethurst, Carsten Kröger and 5 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Nature communications, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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

15 authors.

Xuyuan Guo *Department of Microbiology, School of Genetics and Microbiology, Moyne Institute of Preventive Medicine, University of Dublin, Trinity College Dublin, Dublin, Ireland.ORCID http://orcid.org/0000-0001-8283-5105
Mohamed M Alhussain *Department of Microbiology, School of Genetics and Microbiology, Moyne Institute of Preventive Medicine, University of Dublin, Trinity College Dublin, Dublin, Ireland.
Brenda LeeDepartment of Microbiology, School of Genetics and Microbiology, Moyne Institute of Preventive Medicine, University of Dublin, Trinity College Dublin, Dublin, Ireland.
Nicole ByrneDepartment of Microbiology, School of Genetics and Microbiology, Moyne Institute of Preventive Medicine, University of Dublin, Trinity College Dublin, Dublin, Ireland.
Karsten HokampDepartment of Genetics, School of Genetics and Microbiology, Smurfit Institute, University of Dublin, Trinity College Dublin, Dublin, Ireland.ORCID http://orcid.org/0000-0001-7464-2370
Hadel AljaeedDepartment of Microbiology, School of Genetics and Microbiology, Moyne Institute of Preventive Medicine, University of Dublin, Trinity College Dublin, Dublin, Ireland.
Reham H AlnajjarDepartment of Microbiology, School of Genetics and Microbiology, Moyne Institute of Preventive Medicine, University of Dublin, Trinity College Dublin, Dublin, Ireland.ORCID http://orcid.org/0009-0006-1502-3266
Zain M F BaazeemDepartment of Microbiology, School of Genetics and Microbiology, Moyne Institute of Preventive Medicine, University of Dublin, Trinity College Dublin, Dublin, Ireland.ORCID http://orcid.org/0009-0005-0335-3017
Georgina SmethurstCardiff School of Biosciences, Cardiff University, Museum Avenue, Cardiff, CF10 3AX, UK.ORCID http://orcid.org/0000-0003-4668-0374
Carsten KrögerDepartment of Microbiology, School of Genetics and Microbiology, Moyne Institute of Preventive Medicine, University of Dublin, Trinity College Dublin, Dublin, Ireland.ORCID http://orcid.org/0000-0003-0461-1530
Charles A S BanksStowers Institute for Medical Research, Kansas City, Missouri, USA.
Michael C ChurchStowers Institute for Medical Research, Kansas City, Missouri, USA.
Jerry L WorkmanStowers Institute for Medical Research, Kansas City, Missouri, USA.ORCID http://orcid.org/0000-0001-8163-1952
Nicholas A KentCardiff School of Biosciences, Cardiff University, Museum Avenue, Cardiff, CF10 3AX, UK.
Alastair B FlemingDepartment of Microbiology, School of Genetics and Microbiology, Moyne Institute of Preventive Medicine, University of Dublin, Trinity College Dublin, Dublin, Ireland. alastair.fleming@tcd.ie.ORCID http://orcid.org/0000-0003-0083-3240

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The yeast Swi-Snf co-activator was the first chromatin remodelling complex discovered which can disrupt promoter nucleosomes to enable transcription. The Tup1-Cyc8 complex was the first global co-repressor identified which can position nucleosomes across promoters to block transcription. However, the global extent of their antagonistic regulation of gene transcription in yeast is unknown. We have identified the genes repressed by Tup1-Cyc8 and activated by Swi-Snf in glucose-grown cells which include inactive and actively transcribed genes. We show that Swi-Snf and Tup1-Cyc8 are present at both active and inactive gene promoters, where SNF2 is required for full Tup1-Cyc8 occupancy. The influence of Swi-Snf and Tup1-Cyc8 upon nucleosome positioning is specific to each co-regulated gene and extends over the available upstream intergenic region. We propose Tup1-Cyc8 and Swi-Snf are constitutively present at co-regulated gene promoters where their interplay influences the entire intergenic upstream chromatin environment of target genes and transcription.

Indexed as

ChromatinChromosomal Proteins, Non-HistoneGene Expression Regulation, FungalNuclear ProteinsRepressor ProteinsSaccharomyces cerevisiaeSaccharomyces cerevisiae ProteinsTranscription FactorsTranscription, GeneticAdenosine TriphosphatasesChromatin Assembly and DisassemblyNucleosomesPromoter Regions, GeneticAdenosine TriphosphatasesChromatinChromosomal Proteins, Non-HistoneCYC8 protein, S cerevisiaeNuclear ProteinsNucleosomesRepressor ProteinsSaccharomyces cerevisiae ProteinsSNF2 protein, S cerevisiaeTranscription FactorsTUP1 protein, S cerevisiae

Identifiers

PMID42380116
PMCPMC13458707

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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.