Evidence map›Paper›PMID 41726944›Full record

ArticlebioRxiv : the preprint server for biology2026

A toolkit for programmable transcriptional engineering across eukaryotic kingdoms.

Izaiah J Ornelas, Lauren A Owens, Simon Alamos, Niklas F C Hummel, Mitzi G Hernández Zamora, Ngan T Phan, Rithu K Pattali, Patrick M Shih, James K Nuñez

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 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

9 authors.

Izaiah J OrnelasDepartment of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA, USA.
Lauren A OwensDepartment of Plant and Microbial Biology, University of California, Berkeley, Berkeley, CA, USA.
Simon AlamosDepartment of Plant and Microbial Biology, University of California, Berkeley, Berkeley, CA, USA.
Niklas F C HummelJoint BioEnergy Institute, Emeryville, California, USA.
Mitzi G Hernández ZamoraDepartment of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA, USA.
Ngan T PhanDepartment of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA, USA.
Rithu K PattaliDepartment of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA, USA.
Patrick M ShihDepartment of Plant and Microbial Biology, University of California, Berkeley, Berkeley, CA, USA.
James K NuñezDepartment of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA, USA.

Funding

Genetic Dissection of Cells and Organisms Training ProgramT32GM132022 · NIGMS · UNIVERSITY OF CALIFORNIA BERKELEY · PI Nicole King, NOAH K WHITEMAN · 2019 to 2026
$5.2M
Mechanisms of epigenetic memory in human cellsR35GM155044 · NIGMS · UNIVERSITY OF CALIFORNIA BERKELEY · PI James Karlo Nunez · 2024 to 2026
$1.2M
Illumina NovaSeq 6000 Sequencing SystemS10OD028511 · OD · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI CHOW, ERIC D · 2020 to 2020
$583k
NIGMS NIH HHS R35 GM155044NIGMS NIH HHS T32 GM132022NIH HHS S10 OD028511
6 · The paper itself

Abstract

Chromatin is essential for eukaryotic life. Tens of thousands of chromatin regulator (CR) proteins exist in eukaryotic genomes that are predicted to modulate chromatin states; however, their molecular functions remain largely untested experimentally. Here, we construct a library of over 300 full-length CRs from humans, plants, yeast, protozoa, and virus, each fused to DNA-binding domains, and test their direct effect on transcriptional repression and activation in plants and human cells. We discover CRs with cross-kingdom functionality when transferred across eukaryotes, including CRs that outperform existing tools for programmable transcriptional repression and activation in plants and human cells. Using pooled CRISPR screens, we demonstrate a suite of CRISPR repressors that titrate gene expression at intermediate levels. Finally, we identify RCOR1 and MTA2 as universal eukaryotic repressors that retain repressive activity in plants, yeast, and human cells. Our toolkit advances synthetic eukaryotic engineering and expands our understanding of CR functionality across eukaryotes.

Identifiers

PMID41726944
PMCPMC12919101

What OpenQuestion holds

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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.