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      Function and mechanism of histone β-hydroxybutyrylation in health and disease

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          Abstract

          Histone post-translational modifications (HPTMs) are essential epigenetic mechanisms that affect chromatin-associated nuclear processes without altering the DNA sequence. With the application of mass spectrometry-based proteomics, novel histone lysine acylation, such as propionylation, butyrylation, crotonylation, malonylation, succinylation, glutarylation, and lactoylation have been successively discovered. The emerging diversity of the lysine acylation landscape prompted us to investigate the function and mechanism of these novel HPTMs in health and disease. Recently, it has been reported that β-hydroxybutyrate (BHB), the main component of the ketone body, has various protective roles beyond alternative fuel provision during starvation. Histone lysine β-hydroxybutyrylation (Kbhb) is a novel HPTMs identified by mass spectrometry, which regulates gene transcription in response to carbohydrate restriction or elevated BHB levels in vivo and vitro. Recent studies have shown that histone Kbhb is strongly associated with the pathogenesis of metabolic cardiovascular diseases, kidney diseases, tumors, neuropsychiatric disorders, and metabolic diseases suggesting it has different functions from histone acetylation and methylation. This review focuses on the writers, erasers, sites, and underlying functions of histone Kbhb, providing a glimpse into their complex regulation mechanism.

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          Most cited references99

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          Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position.

          We describe an assay for transposase-accessible chromatin using sequencing (ATAC-seq), based on direct in vitro transposition of sequencing adaptors into native chromatin, as a rapid and sensitive method for integrative epigenomic analysis. ATAC-seq captures open chromatin sites using a simple two-step protocol with 500-50,000 cells and reveals the interplay between genomic locations of open chromatin, DNA-binding proteins, individual nucleosomes and chromatin compaction at nucleotide resolution. We discovered classes of DNA-binding factors that strictly avoided, could tolerate or tended to overlap with nucleosomes. Using ATAC-seq maps of human CD4(+) T cells from a proband obtained on consecutive days, we demonstrated the feasibility of analyzing an individual's epigenome on a timescale compatible with clinical decision-making.
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            Regulation of chromatin by histone modifications.

            Chromatin is not an inert structure, but rather an instructive DNA scaffold that can respond to external cues to regulate the many uses of DNA. A principle component of chromatin that plays a key role in this regulation is the modification of histones. There is an ever-growing list of these modifications and the complexity of their action is only just beginning to be understood. However, it is clear that histone modifications play fundamental roles in most biological processes that are involved in the manipulation and expression of DNA. Here, we describe the known histone modifications, define where they are found genomically and discuss some of their functional consequences, concentrating mostly on transcription where the majority of characterisation has taken place.
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              Mice deficient for p53 are developmentally normal but susceptible to spontaneous tumours.

              Mutations in the p53 tumour-suppressor gene are the most frequently observed genetic lesions in human cancers. To investigate the role of the p53 gene in mammalian development and tumorigenesis, a null mutation was introduced into the gene by homologous recombination in murine embryonic stem cells. Mice homozygous for the null allele appear normal but are prone to the spontaneous development of a variety of neoplasms by 6 months of age. These observations indicate that a normal p53 gene is dispensable for embryonic development, that its absence predisposes the animal to neoplastic disease, and that an oncogenic mutant form of p53 is not obligatory for the genesis of many types of tumours.
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                Author and article information

                Contributors
                Journal
                Front Immunol
                Front Immunol
                Front. Immunol.
                Frontiers in Immunology
                Frontiers Media S.A.
                1664-3224
                12 September 2022
                2022
                : 13
                : 981285
                Affiliations
                [1] 1 Department of Endocrinology, Affiliated Hospital of Southwest Medical University , Luzhou, China
                [2] 2 Metabolism, Metabolic Vascular Diseases Key Laboratory of Sichuan Province , Luzhou, China
                [3] 3 Sichuan Clinical Research Center for Nephropathy , Luzhou, China
                [4] 4 Cardiovascular and Metabolic Diseases Key Laboratory of Luzhou , Luzhou, China
                [5] 5 Department of Rehabilitation, Affiliated Hospital of Southwest Medical University , Luzhou, China
                Author notes

                Edited by: Yongqing Li, University of Michigan, United States

                Reviewed by: Xin Li, Shenzhen Bay Laboratory, China; Guizhen Zhao, University of Michigan, United States

                *Correspondence: Wei Huang, huangwei1212520@ 123456163.com ; Yong Xu, xywyll@ 123456aliyun.com

                †These authors have contributed equally to this work and share the first authorship

                This article was submitted to Comparative Immunology, a section of the journal Frontiers in Immunology

                Article
                10.3389/fimmu.2022.981285
                9511043
                36172354
                ecb12c2e-e1ba-4e35-868f-e96712548a68
                Copyright © 2022 Zhou, Cheng, He, Xie, Xu, Xu and Huang

                This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

                History
                : 29 June 2022
                : 22 August 2022
                Page count
                Figures: 7, Tables: 1, Equations: 0, References: 99, Pages: 14, Words: 6568
                Funding
                Funded by: National Natural Science Foundation of China , doi 10.13039/501100001809;
                Award ID: 82170834, 81970676
                Categories
                Immunology
                Review

                Immunology
                β-hydroxybutyrylation,histone post-translational modifications,epigenetics,gene regulation,immune

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