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Crotonylation: A novel layer of the epigenetic landscape in disease
Yifei Ma1, Yujie Zhang2, Lianjing Cao3
1Pancreatic Disease Institute, Shandong Provincial Key Laboratory of Clinical Research for Pancreatic Diseases, the Affiliated Hospital of Qingdao University, Qingdao University, Shandong, 266000, China; College of Public Health, Qingdao University, Shandong, 266071, China.
Abstract:
Crotonylation is a lysine acylation modification that links cellular metabolism to epigenetic regulation. Its rigid planar crotonyl group is specifically recognized by "readers" such as YEATS/DPF and confers strong conformational regulatory capacity on proteins. Crotonyl-CoA, derived from amino acid catabolism, fatty acid β-oxidation, and gut microbial metabolites, directly modulates crotonylation levels, positioning this modification as a key metabolite sensor. Crotonylation extensively modifies both histones and non-histone proteins, participating in transcription, DNA repair, autophagy, ferroptosis, and metabolic regulation. Dynamic crosstalk with SUMOylation, ubiquitination, and acetylation forms regulatory switches that control genome stability and disease progression. In cancer, crotonylation drives metabolic reprogramming, radio-/chemoresistance, remodeling of the tumor microenvironment, and immune evasion, making it a key and vulnerable therapeutic target. Emerging evidence highlights the involvement of crotonylation in modulating immunotherapy responses and ferroptosis, further expanding its therapeutic relevance. Recent advances in chemical biology and deep learning-such as covalent binders, SiTomics photo-crosslinking probes, and predictive models (e.g., nhKcr, Adapt-Kcr)-enable precise detection and functional interrogation of crotonylation in living cells and clinical samples. Crotonylation marks in clinical specimens show potential as diagnostic and prognostic biomarkers. This review highlights these emerging concepts and discusses the therapeutic potential of targeting crotonylation "writers", "erasers", and "readers" for future precision medicine.
Insights
Crotonylation, a metabolic sensor, regulates gene expression and cellular processes. Targeting this epigenetic modification offers potential for cancer therapy and diagnostics.
Area of Science:
- Biochemistry
- Epigenetics
- Metabolomics
Background:
- Crotonylation is a lysine acylation linking metabolism and epigenetics.
- The crotonyl group is recognized by specific
- readers
- (e.g., YEATS/DPF), influencing protein conformation.
- Crotonyl-CoA, derived from various metabolic pathways, acts as a direct sensor for crotonylation levels.
Purpose of the Study:
- To review the multifaceted roles of crotonylation in cellular functions.
- To highlight crotonylation's involvement in cancer progression and therapeutic potential.
- To discuss recent technological advancements in studying crotonylation.
Main Methods:
- Literature review of crotonylation research.
- Analysis of crotonylation's involvement in various cellular processes (transcription, DNA repair, autophagy, ferroptosis).
- Examination of crotonylation's role in cancer, immunotherapy, and diagnostics.
Main Results:
- Crotonylation extensively modifies histones and non-histone proteins, impacting diverse cellular functions.
- It plays a critical role in cancer, influencing metabolic reprogramming, resistance, and immune evasion.
- Crotonylation crosstalks with other modifications (SUMOylation, ubiquitination, acetylation) to regulate genome stability.
- Advanced chemical biology and deep learning tools enable precise detection and functional analysis.
- Crotonylation marks show promise as diagnostic and prognostic biomarkers.
Conclusions:
- Crotonylation is a crucial metabolite sensor with broad regulatory roles in cellular processes and disease.
- Targeting crotonylation offers significant therapeutic potential for precision medicine in cancer.
- Further research into crotonylation "writers", "erasers", and "readers" is warranted for clinical applications.
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