Evidence map›Paper›PMID 35545632›Full record

ArticleNature communications2022

Activation of Xist by an evolutionarily conserved function of KDM5C demethylase.

Milan Kumar Samanta, Srimonta Gayen, Clair Harris, Emily Maclary, Yumie Murata-Nakamura, Rebecca M Malcore, Robert S Porter, Patricia M Garay, Christina N Vallianatos, Paul B Samollow and 2 more

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.

0numbers the graph read from it
0cells of the map it votes in
26citing papers in PubMed
8.2field-weighted citation impact, top 2% 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

26 citing papers in PubMed, 45 citations in OpenAlex.

  1. Metamorphosis and lncRNAs: A Close Relationship.Genesis (New York, N.Y. : 2000) · 2026
    Review
  2. Xist in X chromosome inactivation: mechanisms and disease relevance.Cell communication and signaling : CCS · 2025
    Review
  3. Article
  4. Genome research · 2025
    Article
  5. Review
  6. Article
  7. Article
  8. Article
  9. Article
  10. Review
  11. Review
  12. Versatile JMJD proteins: juggling histones and much more.Trends in biochemical sciences · 2024
    Review
  13. Review
  14. Review
  15. Article
  16. Review
  17. Review
  18. Article
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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

12 authors at 3 institutions in 2 countries.

Milan Kumar Samanta *Department of Human Genetics, University of Michigan Medical School, Ann Arbor, MI, 48109-5618, USA.ORCID 0000-0002-0199-8170
Srimonta Gayen *Department of Human Genetics, University of Michigan Medical School, Ann Arbor, MI, 48109-5618, USA.ORCID 0000-0002-8395-7283
Clair HarrisDepartment of Human Genetics, University of Michigan Medical School, Ann Arbor, MI, 48109-5618, USA.
Emily MaclaryDepartment of Human Genetics, University of Michigan Medical School, Ann Arbor, MI, 48109-5618, USA.
Yumie Murata-NakamuraDepartment of Human Genetics, University of Michigan Medical School, Ann Arbor, MI, 48109-5618, USA.
Rebecca M MalcoreDepartment of Human Genetics, University of Michigan Medical School, Ann Arbor, MI, 48109-5618, USA.
Robert S PorterDepartment of Human Genetics, University of Michigan Medical School, Ann Arbor, MI, 48109-5618, USA.ORCID 0000-0003-1627-4877
Patricia M GarayDepartment of Human Genetics, University of Michigan Medical School, Ann Arbor, MI, 48109-5618, USA.ORCID 0000-0003-1659-8126
Christina N VallianatosDepartment of Human Genetics, University of Michigan Medical School, Ann Arbor, MI, 48109-5618, USA.ORCID 0000-0003-3159-3200
Paul B SamollowDepartment of Veterinary Integrative Biosciences, College of Veterinary Medicine and Biomedical Sciences, Texas A&M University, College Station, TX, 77843-4458, USA.
Shigeki IwaseDepartment of Human Genetics, University of Michigan Medical School, Ann Arbor, MI, 48109-5618, USA.ORCID 0000-0003-2280-7422
Sundeep KalantryDepartment of Human Genetics, University of Michigan Medical School, Ann Arbor, MI, 48109-5618, USA. kalantry@umich.edu.ORCID 0000-0003-0763-8050
University of Michigan · USTexas A&M University · USUniversity of Utah · US

Funding

PREDOCTORAL TRAINING IN GENETICST32GM007544 · NIGMS · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI MORAN, JOHN V. · 1985 to 2022
$11.3M
A Neuron-specific Methyl-histone Regulatory ComplexR01NS116008 · NINDS · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI Shigeki Iwase · 2020 to 2026
$3.6M
X-chromosome Inactivation Catalyzed by Genes That Escape X-inactivationR01GM124571 · NIGMS · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI SUNDEEP KALANTRY · 2017 to 2026
$3.2M
Investigating Novel Modes of Epigenetic Regulation Through the Polycomb GroupR01HD095463 · NICHD · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI KALANTRY, SUNDEEP · 2018 to 2022
$2.4M
Initiation of Epigenetic Transcriptional RegulationDP2OD008646 · OD · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI KALANTRY, SUNDEEP · 2011 to 2011
$2.3M
Career Training in Reproductive BiologyT32HD079342 · NICHD · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI Suzanne M MOENTER · 2014 to 2026
$2.3M
Neutralizing epigenomes in neurodevelopment disordersR01NS089896 · NINDS · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI IWASE, SHIGEKI · 2015 to 2019
$2.1M
Neuronal Activity-dependent Pomoter UsageR21MH127485 · NIMH · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI IWASE, SHIGEKI · 2022 to 2023
$418k
Mechanistic Analysis of Parent-of-Origin-Specific Gene Expression in the PlacentaF31HD080280 · NICHD · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI MACLARY, EMILY TOMPKINS · 2014 to 2015
$67k
NICHD NIH HHS F31 HD080280NICHD NIH HHS R01 HD095463NICHD NIH HHS T32 HD079342NIGMS NIH HHS R01 GM124571NIGMS NIH HHS T32 GM007544NIH HHS DP2 OD008646NINDS NIH HHS R01 NS089896NINDS NIH HHS R01 NS116008
6 · The paper itself

Abstract

XX female and XY male therian mammals equalize X-linked gene expression through the mitotically-stable transcriptional inactivation of one of the two X chromosomes in female somatic cells. Here, we describe an essential function of the X-linked homolog of an ancestral X-Y gene pair, Kdm5c-Kdm5d, in the expression of Xist lncRNA, which is required for stable X-inactivation. Ablation of Kdm5c function in females results in a significant reduction in Xist RNA expression. Kdm5c encodes a demethylase that enhances Xist expression by converting histone H3K4me2/3 modifications into H3K4me1. Ectopic expression of mouse and human KDM5C, but not the Y-linked homolog KDM5D, induces Xist in male mouse embryonic stem cells (mESCs). Similarly, marsupial (opossum) Kdm5c but not Kdm5d also upregulates Xist in male mESCs, despite marsupials lacking Xist, suggesting that the KDM5C function that activates Xist in eutherians is strongly conserved and predates the divergence of eutherian and metatherian mammals. In support, prototherian (platypus) Kdm5c also induces Xist in male mESCs. Together, our data suggest that eutherian mammals co-opted the ancestral demethylase KDM5C during sex chromosome evolution to upregulate Xist for the female-specific induction of X-inactivation.

Indexed as

MarsupialiaPlatypusRNA, Long NoncodingAnimalsFemaleGenes, X-LinkedHistone DemethylasesMaleMammalsMiceX ChromosomeX Chromosome InactivationHistone DemethylasesKdm5c protein, mouseRNA, Long NoncodingXIST non-coding RNA

Identifiers

PMID35545632
PMCPMC9095838
OpenAlexW4280560744

What Socratic holds

Textmetadata
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 Socratic graph.