ArticleGenome biology2018
Dynamics and functional interplay of histone lysine butyrylation, crotonylation, and acetylation in rice under starvation and submergence.
Article in Genome biology, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 54 papers.
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54 citing papers in PubMed, 122 citations in OpenAlex.
- Linking cellular metabolism to chromatin modifications in plants.Journal of integrative plant biology · 2026Review
- Histone Modification Complex JMJ704-HDA709 Negatively Regulates Salinity Tolerance in Rice.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Research Progress on Histone Modification Regulation Mechanisms and Breeding Applications in Plant Abiotic Stress Responses.Plants (Basel, Switzerland) · 2026Review
- Coming to light: the transcriptional regulatory roles of histone lysine crotonylation in health and disease.Cellular & molecular biology letters · 2026Review
- Genome-wide identification and multi-dimensional functional characterization of the SIR2 family in Brassica napus L.PloS one · 2026Article
- The plant epigenome governed by nutrients and metabolism.Current opinion in plant biology · 2025Review
- The landscape of fusion transcripts in plants: a new insight into genome complexity.BMC plant biology · 2024Article
- Drought-responsive dynamics of H3K9ac-marked 3D chromatin interactions are integrated by OsbZIP23-associated super-enhancer-like promoter regions in rice.Genome biology · 2024Article
- P300 regulates histone crotonylation and preimplantation embryo development.Nature communications · 2024Article
- Protein crotonylation: Basic research and clinical diseases.Biochemistry and biophysics reports · 2024Review
- High histone crotonylation modification in bovine fibroblasts promotes cell proliferation and the developmental efficiency of preimplantation nuclear transfer embryos.Scientific reports · 2024Article
- Inhibition of ACSS2-mediated histone crotonylation alleviates kidney fibrosis via IL-1β-dependent macrophage activation and tubular cell senescence.Nature communications · 2024Article
- Lysine acetylation of histone acetyltransferase adaptor protein ADA2 is a mechanism of metabolic control of chromatin modification in plants.Nature plants · 2024Article
- PlantNh-Kcr: a deep learning model for predicting non-histone crotonylation sites in plants.Plant methods · 2024Article
- Crotonylation modification and its role in diseases.Frontiers in molecular biosciences · 2024Review
- Ustilaginoidea virens-secreted effector Uv1809 suppresses rice immunity by enhancing OsSRT2-mediated histone deacetylation.Plant biotechnology journal · 2024Article
- Epigenetic Regulation in Response to COMicrobial ecology · 2023Article
- Functions and mechanisms of protein lysine butyrylation (Kbu): Therapeutic implications in human diseases.Genes & diseases · 2023Review
- Trash to treasure: lactate and protein lactylation in maize root impacts response to drought.Science China. Life sciences · 2023Article
- Lysine butyrylation of HSP90 regulated by KAT8 and HDAC11 confers chemoresistance.Cell discovery · 2023Article
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7 authors at 3 institutions in 2 countries.
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Abstract
backgroundHistone lysine acylations by short-chain fatty acids are distinct from the widely studied histone lysine acetylation in chromatin, although both modifications are regulated by primary metabolism in mammalian cells. It remains unknown whether and how histone acylation and acetylation interact to regulate gene expression in plants that have distinct regulatory pathways of primary metabolism.
resultsWe identify 4 lysine butyrylation (Kbu) sites (H3K14, H4K12, H2BK42, and H2BK134) and 45 crotonylation (Kcr) sites on rice histones by mass spectrometry. Comparative analysis of genome-wide Kbu and Kcr and H3K9ac in combination with RNA sequencing reveals 25,306 genes marked by Kbu and Kcr in rice and more than 95% of H3K9ac-marked genes are marked by both. Kbu and Kcr are enriched at the 5' region of expressed genes. In rice under starvation and submergence, Kbu and Kcr appear to be less dynamic and display changes in different sets of genes compared to H3K9ac. Furthermore, Kbu seems to preferentially poise gene activation by external stresses, rather than internal circadian rhythm which has been shown to be tightly associated with H3K9ac. In addition, we show that rice sirtuin histone deacetylase (SRT2) is involved in the removal of Kcr.
conclusionKbu, Kcr, and H3K9ac redundantly mark a large number of active genes but display different responses to external and internal signals. Thus, the proportion of rice histone lysine acetylation and acylation is dynamically regulated by environmental and metabolic cues, which may represent an epigenetic mechanism to fine-tune gene expression for plant adaptation.
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