Evidence map›Paper›PMID 38810644›Full record

ArticleCell2024

Evolution of diapause in the African turquoise killifish by remodeling the ancient gene regulatory landscape.

Param Priya Singh, G Adam Reeves, Kévin Contrepois, Katharina Papsdorf, Jason W Miklas, Mathew Ellenberger, Chi-Kuo Hu, Michael P Snyder, Anne Brunet

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Cell, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.

0numbers the graph read from it
0cells of the map it votes in
19citing 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

19 citing papers in PubMed.

  1. Article
  2. Article
  3. Killiverse: an interactive multi-omics web resource for killifish.bioRxiv : the preprint server for biology · 2026
    Article
  4. Article
  5. Engulfment by brain macrophages in a short-lived vertebrate.bioRxiv : the preprint server for biology · 2026
    Article
  6. Molecular evolution of animal aging.The EMBO journal · 2026
    Review
  7. Article
  8. Induction and regulation of a reversible form of suspended animation inbioRxiv : the preprint server for biology · 2026
    Article
  9. Article
  10. Article
  11. Article
  12. Review
  13. Review
  14. Review
  15. Article
  16. Article
  17. Article
  18. Article
  19. Article
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.

Param Priya SinghDepartment of Genetics, Stanford University, Stanford, CA, USA. Electronic address: param.singh@ucsf.edu.
G Adam ReevesDepartment of Genetics, Stanford University, Stanford, CA, USA.
Kévin ContrepoisDepartment of Genetics, Stanford University, Stanford, CA, USA; Stanford Cardiovascular Institute, Stanford University, Stanford, CA, USA.
Katharina PapsdorfDepartment of Genetics, Stanford University, Stanford, CA, USA.
Jason W MiklasDepartment of Genetics, Stanford University, Stanford, CA, USA.
Mathew EllenbergerDepartment of Genetics, Stanford University, Stanford, CA, USA.
Chi-Kuo HuDepartment of Genetics, Stanford University, Stanford, CA, USA.
Michael P SnyderDepartment of Genetics, Stanford University, Stanford, CA, USA; Stanford Cardiovascular Institute, Stanford University, Stanford, CA, USA; Stanford Diabetes Research Center, Stanford University, Stanford, CA, USA.
Anne BrunetDepartment of Genetics, Stanford University, Stanford, CA, USA; Glenn Center for the Biology of Aging, Stanford University, Stanford, CA, USA; Wu Tsai Neurosciences Institute, Stanford University, Stanford, CA, USA; Chan Zuckerberg Biohub, San Francisco, San Francisco, CA, USA. Electronic address: abrunet1@stanford.edu.

Funding

GENETICS TRAINING PROGRAM FOR PHD CANDIDATEST32GM007790 · NIGMS · STANFORD UNIVERSITY · PI BRUNET, ANNE, KINGSLEY, DAVID M · 1985 to 2020
$12.8M
Decoding natural protective mechanisms during diapause and longevity to counter agingDP2AG086979 · NIA · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI Param Priya Singh · 2023 to 2026
$2.4M
NIA NIH HHS DP2 AG086979NIGMS NIH HHS T32 GM007790
6 · The paper itself

Abstract

Suspended animation states allow organisms to survive extreme environments. The African turquoise killifish has evolved diapause as a form of suspended development to survive a complete drought. However, the mechanisms underlying the evolution of extreme survival states are unknown. To understand diapause evolution, we performed integrative multi-omics (gene expression, chromatin accessibility, and lipidomics) in the embryos of multiple killifish species. We find that diapause evolved by a recent remodeling of regulatory elements at very ancient gene duplicates (paralogs) present in all vertebrates. CRISPR-Cas9-based perturbations identify the transcription factors REST/NRSF and FOXOs as critical for the diapause gene expression program, including genes involved in lipid metabolism. Indeed, diapause shows a distinct lipid profile, with an increase in triglycerides with very-long-chain fatty acids. Our work suggests a mechanism for the evolution of complex adaptations and offers strategies to promote long-term survival by activating suspended animation programs in other species.

Indexed as

DiapauseAnimalsBiological EvolutionEmbryo, NonmammalianFemaleFish ProteinsFundulidaeGene Expression Regulation, DevelopmentalKillifishesLipid MetabolismMaleFish Proteinsagingcomparative genomicscomplex trait evolutiondiapauseepigeneticsepigenomicskillifishlipidomicsmetabolomicssuspended animation

Identifiers

PMID38810644
PMCPMC11970524

What OpenQuestion holds

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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 OpenQuestion graph.