Evidence map›Paper›PMID 39868925›Full record

ArticleThe Journal of cell biology2025

FAM43A coordinates mtDNA replication and mitochondrial biogenesis in response to mtDNA depletion.

Alva G Sainz, Gladys R Rojas, Alexandra G Moyzis, Matthew P Donnelly, Kailash C Mangalhara, Melissa A Johnson, Pau B Esparza-Moltó, Kym J Grae, Reuben J Shaw, Gerald S Shadel

Abstract read
In one paragraph

Article in The Journal of cell biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. Article
  2. Review
  3. Review
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

10 authors.

Alva G SainzThe Salk Institute for Biological Studies , La Jolla, CA, USA.ORCID 0009-0005-4507-0824
Gladys R RojasThe Salk Institute for Biological Studies , La Jolla, CA, USA.ORCID 0009-0002-8942-7037
Alexandra G MoyzisThe Salk Institute for Biological Studies , La Jolla, CA, USA.ORCID 0000-0002-3912-3660
Matthew P DonnellyThe Salk Institute for Biological Studies , La Jolla, CA, USA.ORCID 0000-0002-4667-8808
Kailash C MangalharaThe Salk Institute for Biological Studies , La Jolla, CA, USA.ORCID 0000-0001-7412-3095
Melissa A JohnsonThe Salk Institute for Biological Studies , La Jolla, CA, USA.ORCID 0000-0002-6913-6059
Pau B Esparza-MoltóThe Salk Institute for Biological Studies , La Jolla, CA, USA.ORCID 0000-0001-9034-1121
Kym J GraeThe Salk Institute for Biological Studies , La Jolla, CA, USA.ORCID 0009-0001-6527-7508
Reuben J ShawThe Salk Institute for Biological Studies , La Jolla, CA, USA.ORCID 0000-0002-1555-8977
Gerald S ShadelThe Salk Institute for Biological Studies , La Jolla, CA, USA.ORCID 0000-0003-2899-8717

Funding

Viral Vector Core (VVC)P30CA014195 · NCI · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI Reuben Shaw · 1985 to 2026
$82.8M
Tuberous Sclerosis-Pathway and PathogenesisP01CA120964 · NCI · BRIGHAM AND WOMEN'S HOSPITAL · PI David J. Kwiatkowski · 2007 to 2026
$35.9M
MEDICAL SCIENTIST TRAINING PROGRAMT32GM007198 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI CHI, NEIL C, INSEL, PAUL A · 1985 to 2024
$29.3M
Project 4: Interrogating and harnessing age-related IFN signaling and innate immunity in HCC prevention and therapyP01AG073084 · NIA · SANFORD BURNHAM PREBYS MEDICAL DISCOVERY INSTITUTE · PI PETER D. ADAMS, GERALD SHADEL · 2021 to 2026
$13.6M
Decoding And Targeting The LKB1-AMPK Signaling Pathway In CancerR35CA220538 · NCI · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI Reuben Shaw · 2017 to 2026
$11.3M
Salk Institute Cancer Training GrantT32CA009370 · NCI · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI Diana Clare Hargreaves, Jan Karlseder · 1986 to 2026
$8.6M
San Diego Nathan Shock CenterP30AG068635 · NIA · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI SHADEL, GERALD · 2020 to 2024
$6.0M
Understanding the role of autophagy-regulated cell death in the escape from replicative crisisR01CA234047 · NCI · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI KARLSEDER, JAN, SHAW, REUBEN · 2020 to 2024
$3.1M
Mitochondria-to-Nucleus Signaling in Colorectal CancerR01CA228211 · NCI · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI HARGREAVES, DIANA CLARE, SHADEL, GERALD · 2020 to 2024
$2.6M
BD FACSAria Fusion for Flow Cytometry Core FacilityS10OD023689 · OD · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI ZHENG, YE · 2018 to 2018
$530k
REGULATION OF MITOCHONDRIAL DNA-MEDIATED SIGNALING AND ITS CONTRIBUTION TO CELLULAR AND ORGANISMAL AGINGF31AG062099 · NIA · YALE UNIVERSITY · PI SAINZ, ALVA GABRIELA · 2018 to 2022
$152k
Cancer Research Institute CRI4122Fundación Alfonso Martín EscuderoHelmsley TrustNCI NIH HHS P01 CA120964NCI NIH HHS P30 014195NCI NIH HHS P30 CA014195NCI NIH HHS R01 CA228211NCI NIH HHS R01 CA234047NCI NIH HHS R35 CA220538NCI NIH HHS T32 CA009370NIA NIH HHS F31 AG062099NIA NIH HHS P01 AG073084NIA NIH HHS P30 AG068635NIGMS NIH HHS T32 GM007198NIH HHS RO1 CA228211NIH HHS S10 OD023689Salk InstituteShared Instrumentation Grant S10-OD023689Spruance Foundation IIWaitt Foundation
6 · The paper itself

Abstract

Mitochondrial retrograde signaling (MRS) pathways relay the functional status of mitochondria to elicit homeostatic or adaptive changes in nuclear gene expression. Budding yeast have "intergenomic signaling" pathways that sense the amount of mitochondrial DNA (mtDNA) independently of oxidative phosphorylation (OXPHOS), the primary function of genes encoded by mtDNA. However, MRS pathways that sense the amount of mtDNA in mammalian cells remain poorly understood. We found that mtDNA-depleted IMR90 cells can sustain OXPHOS for a significant amount of time, providing a robust model system to interrogate human intergenomic signaling. We identified FAM43A, a largely uncharacterized protein, as a CHK2-dependent early responder to mtDNA depletion. Depletion of FAM43A activates a mitochondrial biogenesis program, resulting in an increase in mitochondrial mass and mtDNA copy number via CHK2-mediated upregulation of the p53R2 form of ribonucleotide reductase. We propose that FAM43A performs a checkpoint-like function to limit mitochondrial biogenesis and turnover under conditions of mtDNA depletion or replication stress.

Indexed as

DNA, MitochondrialDNA ReplicationMitochondriaMitochondrial ProteinsOrganelle BiogenesisCheckpoint Kinase 2HumansOxidative PhosphorylationRibonucleotide ReductasesSignal TransductionCheckpoint Kinase 2CHEK2 protein, humanDNA, MitochondrialMitochondrial ProteinsRibonucleotide Reductases

Identifiers

PMID39868925
PMCPMC11770945

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.