Evidence map›Paper›PMID 42880282›Full record

ArticleCell2026

Functional diversification of the cephalopod proteome by RNA editing.

Jack M Moen, Alicia L Richards, Einar K Krogsaeter, Benjamin J Polacco, Martin Gordon, Erica Stevenson, Rhiana Boyles, Maximilien Burq, Dejan Stepec, Bryan Crampton and 7 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Cell, 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

5 · Who and what money

Authors and funding

17 authors.

Jack M MoenQuantitative Biosciences Institute (QBI), University of California, San Francisco, San Francisco, CA 94143, USA; Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, CA 94143, USA; Data Science and Biotechnology Institute, J. David Gladstone Institutes, San Francisco, CA 94158, USA.
Alicia L RichardsQuantitative Biosciences Institute (QBI), University of California, San Francisco, San Francisco, CA 94143, USA; Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, CA 94143, USA; Data Science and Biotechnology Institute, J. David Gladstone Institutes, San Francisco, CA 94158, USA.
Einar K KrogsaeterQuantitative Biosciences Institute (QBI), University of California, San Francisco, San Francisco, CA 94143, USA; Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, CA 94143, USA; Data Science and Biotechnology Institute, J. David Gladstone Institutes, San Francisco, CA 94158, USA.
Benjamin J PolaccoQuantitative Biosciences Institute (QBI), University of California, San Francisco, San Francisco, CA 94143, USA; Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, CA 94143, USA; Data Science and Biotechnology Institute, J. David Gladstone Institutes, San Francisco, CA 94158, USA.
Martin GordonQuantitative Biosciences Institute (QBI), University of California, San Francisco, San Francisco, CA 94143, USA; Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, CA 94143, USA; Data Science and Biotechnology Institute, J. David Gladstone Institutes, San Francisco, CA 94158, USA.
Erica StevensonQuantitative Biosciences Institute (QBI), University of California, San Francisco, San Francisco, CA 94143, USA; Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, CA 94143, USA; Data Science and Biotechnology Institute, J. David Gladstone Institutes, San Francisco, CA 94158, USA.
Rhiana BoylesThe Eugene Bell Center, The Marine Biological Laboratory, Woods Hole, MA 02543, USA.
Maximilien BurqTesorai Inc., 3525 Del Mar Heights Rd #284, San Diego, CA 92130, USA.
Dejan StepecTesorai Inc., 3525 Del Mar Heights Rd #284, San Diego, CA 92130, USA.
Bryan CramptonTesorai Inc., 3525 Del Mar Heights Rd #284, San Diego, CA 92130, USA.
Nathaniel SinDepartment of Pharmaceutical Chemistry, University of California, San Francisco, San Francisco, CA 94158, USA; Institute for Neurodegenerative Diseases, University of California, San Francisco, San Francisco, CA 94158, USA.
Zachary Gale-DayDepartment of Pharmaceutical Chemistry, University of California, San Francisco, San Francisco, CA 94158, USA; Institute for Neurodegenerative Diseases, University of California, San Francisco, San Francisco, CA 94158, USA.
Jason E GestwickiDepartment of Pharmaceutical Chemistry, University of California, San Francisco, San Francisco, CA 94158, USA; Institute for Neurodegenerative Diseases, University of California, San Francisco, San Francisco, CA 94158, USA.
Peter CimermancicTesorai Inc., 3525 Del Mar Heights Rd #284, San Diego, CA 92130, USA.
Joshua J C RosenthalThe Eugene Bell Center, The Marine Biological Laboratory, Woods Hole, MA 02543, USA.
Nevan J KroganQuantitative Biosciences Institute (QBI), University of California, San Francisco, San Francisco, CA 94143, USA; Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, CA 94143, USA; Data Science and Biotechnology Institute, J. David Gladstone Institutes, San Francisco, CA 94158, USA.
Danielle L SwaneyQuantitative Biosciences Institute (QBI), University of California, San Francisco, San Francisco, CA 94143, USA; Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, CA 94143, USA; Data Science and Biotechnology Institute, J. David Gladstone Institutes, San Francisco, CA 94158, USA. Electronic address: danielle.swaney@ucsf.edu.

Funding

RESEARCH PROJECT 2U19AI135990 · NIAID · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI Nevan J Krogan · 2018 to 2026
$21.4M
The Cancer Cell Map Initiative v2.0U54CA274502 · NCI · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI Emma Lundberg · 2022 to 2026
$14.2M
Genetic and Proteomic Approaches to Reveal Bacterial Vulnerabilities to Phage PredationR01AI167412 · NIAID · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI Joseph Bondy-Denomy · 2022 to 2026
$3.5M
Aberrant proteomes in tauopathy: revealing functional consequences via multimodal proteomicsR01AG092454 · NIA · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI Martin Kampmann, Danielle L Swaney · 2025 to 2026
$1.6M
Differential Scanning Fluorimetry (DSF) Methods for Studying Protein StabilityR01GM141299 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI GESTWICKI, JASON E · 2021 to 2024
$1.5M
A universal multiplexing approach to unlock the hidden proteomeR01GM133981 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI SWANEY, DANIELLE L · 2019 to 2022
$1.3M
Modulation of ADP-Ribosylation as a Target During HIV-1 Latency and ReactivationF32AI176916 · NIAID · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI Jack Michael Moen · 2024 to 2026
$151k
NCI NIH HHS U54 CA274502NIAID NIH HHS F32 AI176916NIAID NIH HHS R01 AI167412NIAID NIH HHS U19 AI135990NIA NIH HHS R01 AG092454NIGMS NIH HHS R01 GM133981NIGMS NIH HHS R01 GM141299
6 · The paper itself

Abstract

Coleoid cephalopods exhibit the highest levels of adenosine deaminases acting on RNA (ADAR)-mediated RNA editing of any known taxon, yet the functional consequences of most recoding events remain unclear. Here, we integrated proteomics with biochemical and cellular assays to characterize recoding across the Doryteuthis pealeii proteome. This confirmed the translation of 7,997 recoded sites at the protein level and revealed how recoding reshapes the proteome by altering protein stability, subcellular localization, post-translational modifications, and enzymatic activity. We find that recoding also creates or ablates post-translational modification sites, with direct effects on protein function and protein-protein interactions. Recoding the E3 ligase MARCHF5 drives widespread changes in substrate ubiquitylation and perturbs mitochondrial homeostasis, illustrating how RNA editing can influence organelle function. Together, these data give a proteome-scale view of how extensive RNA recoding diversifies protein function in coleoid cephalopods and offer a framework for understanding how RNA-level plasticity shapes protein function and cellular physiology.

Indexed as

ADARcephalopodscoleoidsMARCHF5post-translational modificationsprotein recodingproteomicsRNA editingsolvent shiftsubcellular localization

Identifiers

PMID42880282
PMCPMC13727390

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.