Evidence map›Paper›PMID 40118040›Full record

ArticleMolecular cell2025

Isogenic comparison of Airn and Xist reveals core principles of Polycomb recruitment by lncRNAs.

Jackson B Trotman, Elizabeth W Abrash, McKenzie M Murvin, Aki K Braceros, Shuang Li, Samuel P Boyson, Ryan T Salcido, Rachel E Cherney, Steven R Bischoff, Kyle Kaufmann and 4 more

Abstract readComparative Study
PubMed Full text at PMC Publisher
In one paragraph

Article in Molecular cell, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing 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

5 citing papers in PubMed.

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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

14 authors.

Jackson B TrotmanDepartment of Pharmacology, University of North Carolina, Chapel Hill, NC 27599, USA; RNA Discovery Center, University of North Carolina, Chapel Hill, NC 27599, USA; Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, NC 27599, USA.
Elizabeth W AbrashDepartment of Pharmacology, University of North Carolina, Chapel Hill, NC 27599, USA; RNA Discovery Center, University of North Carolina, Chapel Hill, NC 27599, USA; Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, NC 27599, USA; Curriculum in Genetics and Molecular Biology, University of North Carolina, Chapel Hill, NC 27599, USA.
McKenzie M MurvinDepartment of Pharmacology, University of North Carolina, Chapel Hill, NC 27599, USA; RNA Discovery Center, University of North Carolina, Chapel Hill, NC 27599, USA; Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, NC 27599, USA; Curriculum in Genetics and Molecular Biology, University of North Carolina, Chapel Hill, NC 27599, USA; Curriculum in Mechanistic, Interdisciplinary Studies of Biological Systems, University of North Carolina, Chapel Hill, NC 27599, USA.
Aki K BracerosDepartment of Pharmacology, University of North Carolina, Chapel Hill, NC 27599, USA; RNA Discovery Center, University of North Carolina, Chapel Hill, NC 27599, USA; Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, NC 27599, USA; Curriculum in Mechanistic, Interdisciplinary Studies of Biological Systems, University of North Carolina, Chapel Hill, NC 27599, USA; Curriculum in Biochemistry and Biophysics, University of North Carolina, Chapel Hill, NC 27599, USA.
Shuang LiDepartment of Pharmacology, University of North Carolina, Chapel Hill, NC 27599, USA; RNA Discovery Center, University of North Carolina, Chapel Hill, NC 27599, USA; Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, NC 27599, USA.
Samuel P BoysonDepartment of Pharmacology, University of North Carolina, Chapel Hill, NC 27599, USA; RNA Discovery Center, University of North Carolina, Chapel Hill, NC 27599, USA; Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, NC 27599, USA; Curriculum in Genetics and Molecular Biology, University of North Carolina, Chapel Hill, NC 27599, USA.
Ryan T SalcidoDepartment of Pharmacology, University of North Carolina, Chapel Hill, NC 27599, USA; RNA Discovery Center, University of North Carolina, Chapel Hill, NC 27599, USA; Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, NC 27599, USA; Curriculum in Genetics and Molecular Biology, University of North Carolina, Chapel Hill, NC 27599, USA.
Rachel E CherneyDepartment of Pharmacology, University of North Carolina, Chapel Hill, NC 27599, USA; RNA Discovery Center, University of North Carolina, Chapel Hill, NC 27599, USA; Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, NC 27599, USA; Curriculum in Genetics and Molecular Biology, University of North Carolina, Chapel Hill, NC 27599, USA.
Steven R BischoffAnimal Models Core, University of North Carolina, Chapel Hill, NC 27599, USA.
Kyle KaufmannAnimal Models Core, University of North Carolina, Chapel Hill, NC 27599, USA; Transviragen, Inc., Chapel Hill, NC 27599, USA.
Quinn E EberhardDepartment of Pharmacology, University of North Carolina, Chapel Hill, NC 27599, USA; RNA Discovery Center, University of North Carolina, Chapel Hill, NC 27599, USA; Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, NC 27599, USA; Curriculum in Bioinformatics and Computational Biology, University of North Carolina, Chapel Hill, NC 27599, USA.
Zhiyue ZhangDepartment of Pharmacology, University of North Carolina, Chapel Hill, NC 27599, USA.
Dale O CowleyAnimal Models Core, University of North Carolina, Chapel Hill, NC 27599, USA; Department of Genetics, University of North Carolina, Chapel Hill, NC 27599, USA; Transviragen, Inc., Chapel Hill, NC 27599, USA.
J Mauro CalabreseDepartment of Pharmacology, University of North Carolina, Chapel Hill, NC 27599, USA; RNA Discovery Center, University of North Carolina, Chapel Hill, NC 27599, USA; Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, NC 27599, USA. Electronic address: jmcalabr@med.unc.edu.

Funding

NRSA IN GENETICST32GM007092 · NIGMS · UNIV OF NORTH CAROLINA CHAPEL HILL · PI SEKELSKY, JEFF J. · 1985 to 2019
$5.9M
NRSA in GeneticsT32GM135128 · NIGMS · UNIV OF NORTH CAROLINA CHAPEL HILL · PI Daniel J McKay, JEFF J. SEKELSKY · 2020 to 2026
$5.1M
Mechanisms of gene silencing induced by long noncoding RNAsR01GM121806 · NIGMS · UNIV OF NORTH CAROLINA CHAPEL HILL · PI CALABRESE, JOSEPH MAURO · 2017 to 2023
$2.3M
Mechanisms of gene regulation by long noncoding RNAsR35GM153293 · NIGMS · UNIV OF NORTH CAROLINA CHAPEL HILL · PI Joseph Mauro Calabrese · 2024 to 2026
$1.9M
Cancer Epigenetics Training GrantT32CA217824 · NCI · UNIV OF NORTH CAROLINA CHAPEL HILL · PI WEISSMAN, BERNARD E. · 2017 to 2021
$1.8M
Cooperative control of Polycomb Repressive Complexes by long noncoding RNAs, CpG island DNA, and RNA-binding proteinsR01GM136819 · NIGMS · UNIV OF NORTH CAROLINA CHAPEL HILL · PI CALABRESE, JOSEPH MAURO · 2020 to 2023
$1.5M
Training in Mechanistic, Interdisciplinary Studies of Biological SystemsT32GM119999 · NIGMS · UNIV OF NORTH CAROLINA CHAPEL HILL · PI RAMSDEN, DALE A · 2017 to 2021
$1.2M
Dissecting mechanisms of gene silencing by the lncRNA Kcnq1ot1 in mouse trophoblast stem cellsF31HD111292 · NICHD · UNIV OF NORTH CAROLINA CHAPEL HILL · PI MURVIN, MCKENZIE · 2023 to 2025
$126k
Control of gene silencing by long noncoding RNAs in trophoblast stem cellsF31HD103370 · NICHD · UNIV OF NORTH CAROLINA CHAPEL HILL · PI BRACEROS, AKI KEEAN · 2020 to 2022
$114k
Regulation of Polycomb by long noncoding RNAs during pre-implantation developmentF31HD103334 · NICHD · UNIV OF NORTH CAROLINA CHAPEL HILL · PI CHERNEY, RACHEL ELIZABETH · 2020 to 2022
$113k
Decoding Repression: Recruitment of epigenetic silencers by RNA binding proteins and long non-coding RNAsF31HD114456 · NICHD · UNIV OF NORTH CAROLINA CHAPEL HILL · PI Elizabeth Abrash · 2024 to 2026
$81k
NCI NIH HHS T32 CA217824NICHD NIH HHS F31 HD103334NICHD NIH HHS F31 HD103370NICHD NIH HHS F31 HD111292NICHD NIH HHS F31 HD114456NIGMS NIH HHS R01 GM121806NIGMS NIH HHS R01 GM136819NIGMS NIH HHS R35 GM153293NIGMS NIH HHS T32 GM007092NIGMS NIH HHS T32 GM119999NIGMS NIH HHS T32 GM135128
6 · The paper itself

Abstract

The mechanisms and biological roles of Polycomb repressive complex (PRC) recruitment by long noncoding RNAs (lncRNAs) remain unclear. To gain insight, we expressed two lncRNAs that recruit PRCs to multi-megabase domains, Airn and Xist, from an ectopic locus in mouse stem cells and compared effects. Unexpectedly, ectopic Airn recruited PRC1 and PRC2 to chromatin with a potency resembling Xist yet did not repress genes. Compared with PRC2, PRC1 was more proximal to Airn and Xist, where its enrichment over C-rich elements required the RNA-binding protein HNRNPK. Fusing Airn to Repeat A, the domain required for gene silencing by Xist, enabled gene silencing and altered local patterns but not relative levels of PRC-directed modifications. Our data suggest that, endogenously, Airn recruits PRCs to maintain rather than initiate gene silencing, that PRC recruitment occurs independently of Repeat A, and that protein-bridged interactions, not direct RNA contacts, underlie PRC recruitment by Airn, Xist, and other lncRNAs.

Indexed as

Mouse Embryonic Stem CellsPolycomb Repressive Complex 1Polycomb Repressive Complex 2RNA, Long NoncodingTranscription FactorsAnimalsChromatinGene SilencingHeterogeneous-Nuclear Ribonucleoprotein KMicePolycomb-Group ProteinsChromatinHeterogeneous-Nuclear Ribonucleoprotein KPolycomb-Group ProteinsPolycomb Repressive Complex 1Polycomb Repressive Complex 2RNA, Long NoncodingTranscription FactorsXIST non-coding RNAAirnKcnq1ot1lncRNAPolycombPRC1PRC2Repeat ArepressionsilencingtranscriptionXist

Identifiers

PMID40118040
PMCPMC11932450

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Registered trials

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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.