Evidence map›Paper›PMID 39666821›Full record

ArticleScience (New York, N.Y.)2025

Nutrient-driven histone code determines exhausted CD8

Shixin Ma, Michael S Dahabieh, Thomas H Mann, Steven Zhao, Bryan McDonald, Won-Suk Song, H Kay Chung, Yagmur Farsakoglu, Lizmarie Garcia-Rivera, Filipe Araujo Hoffmann and 16 more

Abstract read
In one paragraph

Article in Science (New York, N.Y.), 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 68 papers.

0numbers the graph read from it
0cells of the map it votes in
68citing 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

68 citing papers in PubMed.

  1. Review
  2. ANKRD11 deficiency reprograms CD8Nature immunology · 2026
    Article
  3. Review
  4. Review
  5. Review
  6. Review
  7. Article
  8. Article
  9. Article
  10. Article
  11. Review
  12. Article
  13. Review
  14. Decoding T cell exhaustion in the tumour microenvironment.Experimental & molecular medicine · 2026
    Review
  15. Review
  16. Article
  17. Article
  18. Review
  19. Article
  20. [Ubiquitination-mediated regulation of T cell homeostasis and autoimmune diseases].Zhong nan da xue xue bao. Yi xue ban = Journal of Central South University. Medical sciences · 2026
    Review

8 more citing papers are in PubMed but not listed here.

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

26 authors.

Shixin MaNOMIS Center for Immunobiology and Microbial Pathogenesis, Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0009-0001-6372-1097
Michael S DahabiehDepartment of Metabolism and Nutritional Programming, Van Andel Institute, Grand Rapids, MI, USA.ORCID 0000-0002-2518-7129
Thomas H MannNOMIS Center for Immunobiology and Microbial Pathogenesis, Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0002-3821-1466
Steven ZhaoNOMIS Center for Immunobiology and Microbial Pathogenesis, Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0002-8102-8368
Bryan McDonaldNOMIS Center for Immunobiology and Microbial Pathogenesis, Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0003-1744-3433
Won-Suk SongDepartment of Biological Chemistry, University of California Irvine, Irvine, CA, USA.
H Kay ChungNOMIS Center for Immunobiology and Microbial Pathogenesis, Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0002-7028-2432
Yagmur FarsakogluNOMIS Center for Immunobiology and Microbial Pathogenesis, Salk Institute for Biological Studies, La Jolla, CA, USA.
Lizmarie Garcia-RiveraNOMIS Center for Immunobiology and Microbial Pathogenesis, Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0002-6837-0134
Filipe Araujo HoffmannNOMIS Center for Immunobiology and Microbial Pathogenesis, Salk Institute for Biological Studies, La Jolla, CA, USA.
Shihao XuNOMIS Center for Immunobiology and Microbial Pathogenesis, Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0002-7597-7567
Victor Y DuNOMIS Center for Immunobiology and Microbial Pathogenesis, Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0002-2759-0114
Dan ChenNOMIS Center for Immunobiology and Microbial Pathogenesis, Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0001-5156-6635
Jesse FurgiueleNOMIS Center for Immunobiology and Microbial Pathogenesis, Salk Institute for Biological Studies, La Jolla, CA, USA.
Michael A LaPortaNOMIS Center for Immunobiology and Microbial Pathogenesis, Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0009-0001-0461-5614
Emily JacobsNOMIS Center for Immunobiology and Microbial Pathogenesis, Salk Institute for Biological Studies, La Jolla, CA, USA.
Lisa M DeCampDepartment of Metabolism and Nutritional Programming, Van Andel Institute, Grand Rapids, MI, USA.
Brandon M OswaldDepartment of Metabolism and Nutritional Programming, Van Andel Institute, Grand Rapids, MI, USA.ORCID 0000-0002-4147-2915
Ryan D SheldonDepartment of Metabolism and Nutritional Programming, Van Andel Institute, Grand Rapids, MI, USA.ORCID 0000-0002-1573-9719
Abigail E EllisDepartment of Metabolism and Nutritional Programming, Van Andel Institute, Grand Rapids, MI, USA.ORCID 0000-0002-8736-8283
Longwei LiuAlfred E. Mann Department of Biomedical Engineering, University of Southern California, Los Angeles, CA, USA.ORCID 0000-0003-4229-9066
Peixiang HeDepartment of Bioengineering, University of California, San Diego, La Jolla, CA, USA.ORCID 0009-0008-6933-2077
Yingxiao WangAlfred E. Mann Department of Biomedical Engineering, University of Southern California, Los Angeles, CA, USA.ORCID 0000-0003-0265-326X
Cholsoon JangDepartment of Biological Chemistry, University of California Irvine, Irvine, CA, USA.ORCID 0000-0001-6651-4213
Russell G JonesDepartment of Metabolism and Nutritional Programming, Van Andel Institute, Grand Rapids, MI, USA.ORCID 0000-0003-2250-4675
Susan M KaechNOMIS Center for Immunobiology and Microbial Pathogenesis, Salk Institute for Biological Studies, La Jolla, CA, USA.ORCID 0000-0003-1674-1420

Funding

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 SHARPEE, TATYANA O. · 2020 to 2024
$6.0M
Regulation of memory CD8 T cell developmentR01AI066232 · NIAID · YALE UNIVERSITY · PI Diana Clare Hargreaves · 2005 to 2026
$5.7M
Ketone Body Metabolism in CD8+ T Cell ResponsesR01AI165722 · NIAID · VAN ANDEL RESEARCH INSTITUTE · PI JONES, RUSSELL GRAHAM · 2022 to 2025
$3.3M
Acoustothermogenetics for Cell EngineeringR35GM140929 · NIGMS · UNIVERSITY OF SOUTHERN CALIFORNIA · PI WANG, YINGXIAO · 2021 to 2025
$2.9M
Elucidating dietary fructose and alcohol interactions during liver cancer developmentR01AA029124 · NIAAA · UNIVERSITY OF CALIFORNIA-IRVINE · PI JANG, CHOLSOON · 2021 to 2025
$2.0M
Ultrasound-controlled remote activation of CAR T cells for localized tumor immunotherapyR01EB029122 · NIBIB · UNIVERSITY OF SOUTHERN CALIFORNIA · PI WANG, YINGXIAO · 2020 to 2023
$1.7M
Spectral Configured Bigfoot Sorter for Salk Institute Flow Cytometry CoreS10OD034268 · OD · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI O'CONNOR, CAROLYN PEY-MIN · 2023 to 2023
$724k
Next-generation T cell therapy: SMARTER T cells for enhanced and durable anti-tumor immunityK01EB034321 · NIBIB · UNIV OF NORTH CAROLINA CHAPEL HILL · PI Hokyung Kay Chung · 2023 to 2026
$639k
BD FACSAria Fusion for Flow Cytometry Core FacilityS10OD023689 · OD · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI ZHENG, YE · 2018 to 2018
$530k
Metabolic regulation of epigenetic states in CD8 T cell exhaustionR21AI151986 · NIAID · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI KAECH, SUSAN M · 2020 to 2021
$529k
Development of single fluorophore biosensors for multiplex imaging of CAR T SignalingK01EB035649 · NIBIB · UNIVERSITY OF SOUTHERN CALIFORNIA · PI Longwei Liu · 2024 to 2026
$455k
NCI NIH HHS K00 CA222741NCI NIH HHS T32 CA009370NIAAA NIH HHS R01 AA029124NIAID NIH HHS R01 AI066232NIAID NIH HHS R01 AI165722NIAID NIH HHS R21 AI151986NIA NIH HHS P30 AG068635NIBIB NIH HHS K01 EB034321NIBIB NIH HHS K01 EB035649NIBIB NIH HHS R01 EB029122NIGMS NIH HHS R35 GM140929NIH HHS S10 OD023689NIH HHS S10 OD034268
6 · The paper itself

Abstract

Exhausted T cells (TEX) in cancer and chronic viral infections undergo metabolic and epigenetic remodeling, impairing their protective capabilities. However, the impact of nutrient metabolism on epigenetic modifications that control TEX differentiation remains unclear. We showed that TEX cells shifted from acetate to citrate metabolism by down-regulating acetyl-CoA synthetase 2 (ACSS2) while maintaining ATP-citrate lyase (ACLY) activity. This metabolic switch increased citrate-dependent histone acetylation, mediated by histone acetyltransferase KAT2A-ACLY interactions, at TEX signature genes while reducing acetate-dependent histone acetylation, dependent on p300-ACSS2 complexes, at effector and memory T cell genes. Nuclear ACSS2 overexpression or ACLY inhibition prevented TEX differentiation and enhanced tumor-specific T cell responses. These findings unveiled a nutrient-instructed histone code governing CD8

Indexed as

Acetate-CoA LigaseCD8-Positive T-LymphocytesHistone CodeHistonesNutrientsAcetatesAcetylationAnimalsATP Citrate (pro-S)-LyaseCell DifferentiationCitric AcidDown-RegulationEpigenesis, GeneticHistone AcetyltransferasesHumansMiceAcetate-CoA LigaseAcetatesACSS2 protein, humanATP Citrate (pro-S)-LyaseCitric AcidHistone AcetyltransferasesHistonesNutrients

Identifiers

PMID39666821
PMCPMC11881194

What Socratic holds

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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 Socratic graph.