Evidence map›Paper›PMID 37333181›Full record

ArticleResearch square2023

H2A.X promotes endosperm-specific DNA methylation in Arabidopsis thaliana.

Jennifer M Frost, Jaehoon Lee, Ping-Hung Hsieh, Samuel J H Lin, Yunsook Min, Matthew Bauer, Anne M Runkel, Hyung-Taeg Cho, Tzung-Fu Hsieh, Robert L Fischer and 1 more

Open access · greenAbstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in Research square, 2023. 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, 1 citations in OpenAlex.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

11 authors at 3 institutions in 2 countries.

Jennifer M FrostDepartment of Plant and Microbial Biology, University of California, Berkeley.
Jaehoon LeeDepartment of Biological Sciences, Seoul National University.
Ping-Hung HsiehDepartment of Plant and Microbial Biology, University of California, Berkeley.
Samuel J H LinDepartment of Plant and Microbial Biology, University of California, Berkeley.
Yunsook MinDepartment of Biological Sciences, Seoul National University.
Matthew BauerDepartment of Plant and Microbial Biology, University of California, Berkeley.
Anne M RunkelDepartment of Plant and Microbial Biology, University of California, Berkeley.
Hyung-Taeg ChoDepartment of Biological Sciences, Seoul National University.
Tzung-Fu HsiehDepartment of Plant and Microbial Biology, North Carolina State University.
Robert L FischerDepartment of Plant and Microbial Biology, University of California, Berkeley.
Yeonhee ChoiDepartment of Biological Sciences, Seoul National University.
North Carolina State University · USSeoul National University · KRUniversity of California, Berkeley · US

Funding

Regulation and Function of DNA Demethylation in ArabidopsisR01GM069415 · NIGMS · UNIVERSITY OF CALIFORNIA BERKELEY · PI FISCHER, ROBERT L, ZILBERMAN, DANIEL · 2004 to 2016
$3.8M
Genome Sequencer FLXS10RR029668 · NCRR · UNIVERSITY OF CALIFORNIA BERKELEY · PI NGAI, JOHN J. · 2010 to 2010
$623k
Pacific Biosciences PacBio RS Single Molecule Real Time SequencerS10OD018174 · OD · UNIVERSITY OF CALIFORNIA BERKELEY · PI ROKHSAR, DANIEL SOLEYMAN · 2014 to 2014
$600k
Illumina Sequencer to Facilitate Functional Genomics at BerkeleyS10RR027303 · NCRR · UNIVERSITY OF CALIFORNIA BERKELEY · PI TAYLOR, JOHN W. · 2010 to 2010
$500k
NCRR NIH HHS S10 RR027303NCRR NIH HHS S10 RR029668NIGMS NIH HHS R01 GM069415NIH HHS S10 OD018174
6 · The paper itself

Abstract

Background: H2A.X is an H2A variant histone in eukaryotes, unique for its ability to respond to DNA damage, initiating the DNA repair pathway. H2A.X replacement within the histone octamer is mediated by the FAcilitates Chromatin Transactions (FACT) complex, a key chromatin remodeler. FACT is required for DEMETER (DME)-mediated DNA demethylation at certain loci in Results: H2A.X is encoded by two genes in Arabidopsis genome, Conclusions: Our genome-wide methylation analyses suggest that H2A.X could function in preventing access of the DME demethylase to non-canonical sites. Alternatively, H2A.X may be involved in recruiting methyltransferases to those sites. Overall, our data suggest that H2A.X is required to maintain DNA methylation homeostasis in the unique chromatin environment of the Arabidopsis endosperm.

Indexed as

DEMETERDNA damage responseDNA demethylationDNA glycosylaseEpigeneticsH2A.X

Identifiers

PMID37333181
PMCPMC10275051
OpenAlexW4379523885

What OpenQuestion holds

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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.