H3K36 methylation and DNA-binding both promote Ioc4 recruitment and Isw1b remodeler function

Li, Jian; Bergmann, Lena; Almeida, Andreia Rafael de; Webb, Kimberly M.; Gogol, Madelaine; Voigt, Philipp; Liu, Yingfang; Liang, Huanhuan; Smolle, Michaela

doi:10.1093/nar/gkac077

Cited by 5 publications

(2 citation statements)

References 60 publications

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“…It was indicated that the molecular recognition between PTMs and chromatin-remodeling complex is required for nucleosome recruitment. Jian Li et al further reported the binding preference of the Ioc4-PWWP domain of Isw1b chromatin-remodeling complex with histone H3 lysine 36 tri-methylation (H3K36me3) and revealed the structural basis for the recognition [ 140 ]. Cynthia Tallant et al also reported the recognition preference of different domains of chromatin remodeling complex NoRC for different PTMs [ 141 ].…”

Section: The Crosstalk Of Multiple Factors and Effects On The High-or...mentioning

confidence: 99%

Studies of the Mechanism of Nucleosome Dynamics: A Review on Multifactorial Regulation from Computational and Experimental Cases

2023

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The nucleosome, which organizes the long coil of genomic DNA in a highly condensed, polymeric way, is thought to be the basic unit of chromosomal structure. As the most important protein–DNA complex, its structural and dynamic features have been successively revealed in recent years. However, its regulatory mechanism, which is modulated by multiple factors, still requires systemic discussion. This study summarizes the regulatory factors of the nucleosome’s dynamic features from the perspective of histone modification, DNA methylation, and the nucleosome-interacting factors (transcription factors and nucleosome-remodeling proteins and cations) and focuses on the research exploring the molecular mechanism through both computational and experimental approaches. The regulatory factors that affect the dynamic features of nucleosomes are also discussed in detail, such as unwrapping, wrapping, sliding, and stacking. Due to the complexity of the high-order topological structures of nucleosomes and the comprehensive effects of regulatory factors, the research on the functional modulation mechanism of nucleosomes has encountered great challenges. The integration of computational and experimental approaches, the construction of physical modes for nucleosomes, and the application of deep learning techniques will provide promising opportunities for further exploration.

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Section: The Crosstalk Of Multiple Factors and Effects On The High-or...mentioning

confidence: 99%

Studies of the Mechanism of Nucleosome Dynamics: A Review on Multifactorial Regulation from Computational and Experimental Cases

2023

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“…The methylation of H3K36, could regulate the activity of the Rpd3S complex to prevent nucleosome turnover [ 10 ]. Additionally, H3K36me3 enhances the affinity of the inhibitory Isw1b chromatin remodeling complex to nucleosome, resulting in a maintenance of chromatin constriction and reduction of chromatin accessibility [ 11 ]. Targeting the histone methyltransferase subunit EZH2, which has been found to be highly expressed in lung cancer, results in an increase in chromatin accessibility at regions marked by H3K27me3 [ 12 ].…”

Section: Introductionmentioning

confidence: 99%

Inhibition of demethylase by IOX1 modulates chromatin accessibility to enhance NSCLC radiation sensitivity through attenuated PIF1

Li,

Qin,

Tian

et al. 2023

Cell Death Dis

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Chromatin accessibility is a critical determinant of gene transcriptional expression and regulated by histones modification. However, the potential for manipulating chromatin accessibility to regulate radiation sensitivity remains unclear. Our findings demonstrated that the histone demethylase inhibitor, 5-carboxy-8-hydroxyquinoline (IOX1), could enhance the radiosensitivity of non-small cell lung cancer (NSCLC) in vitro and in vivo. Mechanistically, IOX1 treatment reduced chromatin accessibility in the promoter region of DNA damage repair genes, leading to decreased DNA repair efficiency and elevated DNA damage induced by γ irradiation. Notably, IOX1 treatment significantly reduced both chromatin accessibility and the transcription of phytochrome interacting factor 1 (PIF1), a key player in telomere maintenance. Inhibition of PIF1 delayed radiation-induced DNA and telomeric DNA damage repair, as well as increased radiosensitivity of NSCLC in vitro and in vivo. Further study indicated that the above process was regulated by a reduction of transcription factor myc-associated zinc finger protein (MAZ) binding to the distal intergenic region of the PIF1. Taken together, IOX1-mediated demethylase inactivation reduced chromatin accessibility, leading to elevated telomere damage which is partly due to PIF1 inhibition, thereby enhancing NSCLC radiosensitivity.

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Recognition of histone methylation and DNA by the PWWP domain: Mechanism and function

Fang,

Mangipudy,

Jia

et al. 2024

Chromatin Readers in Health and Disease

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H3K36 methylation and DNA-binding both promote Ioc4 recruitment and Isw1b remodeler function

Cited by 5 publications

References 60 publications

Studies of the Mechanism of Nucleosome Dynamics: A Review on Multifactorial Regulation from Computational and Experimental Cases

Studies of the Mechanism of Nucleosome Dynamics: A Review on Multifactorial Regulation from Computational and Experimental Cases

Inhibition of demethylase by IOX1 modulates chromatin accessibility to enhance NSCLC radiation sensitivity through attenuated PIF1

Recognition of histone methylation and DNA by the PWWP domain: Mechanism and function

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