Regulation of autophagy by protein methylation and acetylation in cancer

Jeon, Minsol; Park, Jisu; Yang, Eunbi; Baek, Hee-Ji; Kim, Hyun-Kyung

doi:10.1002/jcp.30502

Cited by 9 publications

(3 citation statements)

References 100 publications

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“…DNA methylation is an epigenetic regulation approach that is important for gene expression, tissue development [ 33 ], inflammation [ 34 ], autophagy and apoptosis [ 35 ]. The purpose of this study was to investigate the effects of DNA methylation on the LDM growth-related genes.…”

Section: Discussionmentioning

confidence: 99%

Diverse WGBS profiles of longissimus dorsi muscle in Hainan black goats and hybrid goats

Ren,

Chen,

Zheng

et al. 2023

BMC Genom Data

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Background Goat products have played a crucial role in meeting the dietary demands of people since the Neolithic era, giving rise to a multitude of goat breeds globally with varying characteristics and meat qualities. The primary objective of this study is to pinpoint the pivotal genes and their functions responsible for regulating muscle fiber growth in the longissimus dorsi muscle (LDM) through DNA methylation modifications in Hainan black goats and hybrid goats. Methods Whole-genome bisulfite sequencing (WGBS) was employed to scrutinize the impact of methylation on LDM growth. This was accomplished by comparing methylation differences, gene expression, and their associations with growth-related traits. Results In this study, we identified a total of 3,269 genes from differentially methylated regions (DMR), and detected 189 differentially expressed genes (DEGs) through RNA-seq analysis. Hypo DMR genes were primarily enriched in KEGG terms associated with muscle development, such as MAPK and PI3K-Akt signaling pathways. We selected 11 hub genes from the network that intersected the gene sets within DMR and DEGs, and nine genes exhibited significant correlation with one or more of the three LDM growth traits, namely area, height, and weight of loin eye muscle. Particularly, PRKG1 demonstrated a negative correlation with all three traits. The top five most crucial genes played vital roles in muscle fiber growth: FOXO3 safeguarded the myofiber’s immune environment, FOXO6 was involved in myotube development and differentiation, and PRKG1 facilitated vasodilatation to release more glucose. This, in turn, accelerated the transfer of glucose from blood vessels to myofibers, regulated by ADCY5 and AKT2, ultimately ensuring glycogen storage and energy provision in muscle fibers. Conclusion This study delved into the diverse methylation modifications affecting critical genes, which collectively contribute to the maintenance of glycogen storage around myofibers, ultimately supporting muscle fiber growth.

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Section: Discussionmentioning

confidence: 99%

Diverse WGBS profiles of longissimus dorsi muscle in Hainan black goats and hybrid goats

Ren,

Chen,

Zheng

et al. 2023

BMC Genom Data

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“…Consistent with the aforementioned regulating mechanisms, PTMs critically modulate autophagic flux through modifying a wide variety of ATGs [ 103 , 112 ]. In this context, phosphorylation of autophagy-related complexes, like the Atg1/ULK kinase [ 113 ], as well as the acetylation/deacetylation of major ATGs, including ATG5, ATG7, ATG8, and ATG12 [ 114 ], are the well-studied PTMs in correlation with autophagy. In spite of the importance of signaling-mediated, transcriptional, and post-transcriptional modulation of autophagy, epigenetic control of this vital process has recently attracted much attention in both physiological and pathological/infectious conditions [ 115 ].…”

Section: Epigenetic Control Of Autophagymentioning

confidence: 99%

Epigenetic regulation of autophagy in coronavirus disease 2019 (COVID-19)

Behrouj¹,

Vakili

Sadeghdoust

et al. 2022

Biochemistry and Biophysics Reports

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“…Acetylation, a chemical process modifying the acetyl of proteins and mRNAs [ 6 ], is widely involved in various cellular life activities, such as transcription, chemotaxis, cell signal transduction, stress response, protein hydrolysis, and apoptosis [ 7 ]. Acetylation plays a vital role in tumorigenesis, especially in metabolism [ 8 ], DNA damage response [ 9 ], autophagy [ 10 ], proliferation [ 11 ], and differentiation [ 12 ]. Acetylation is also essential in tumor immunity.…”

Section: Introductionmentioning

confidence: 99%

Construction and experimental validation of an acetylation-related gene signature to evaluate the recurrence and immunotherapeutic response in early-stage lung adenocarcinoma

Wang

Chen

2022

BMC Med Genomics

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Background Acetylation is a reversible epigenetic process, playing an important role in the initiation and progression of malignant tumors. However, the prognosis value of acetylation-related genes in the early-stage lung adenocarcinoma (LUAD) remains obscure. Materials and methods The acetylation-related genes were collected and clustered based on transcriptome sequencing of the patients with early-stage LUAD from the Cancer Genome Atlas. The genomic divergence analysis, protein–protein interaction network construction, Lasso regression, and univariate Cox regression were used to identify the significant biomarkers for the recurrence of the early-stage LUAD. The multivariate Cox regression was used to establish the predictive model. Gene Expression Omnibus was systemically retrieved and four independent datasets were used for external validation. 23 early-stage LUAD samples were collected from the local hospital to detect the expression difference of the genes in the model. Transfection assays were performed to verify the regulatory ability of the screened gene to the proliferation of LUAD cell lines. The single-cell RNA sequencing of the early-stage LUAD patients and two lung cancer cohorts receiving immunotherapy were utilized to explore the predictive ability of the established model to immunotherapeutic sensitivity. Results The clustering based on acetylation-related genes was significantly associated with the recurrence (P < 0.01) and immune infiltration statuses. Through a series of bioinformatical and machine learning methods, RBBP7 and YEATS2 were ultimately identified. Accordingly, a novel gene signature containing RBBP7 and YEATS2 was developed to evaluate the recurrence-free survival of early-stage LUAD, which was then validated in five independent cohorts (pooled hazard ratio = 1.88, 95% confidence interval = 1.49–2.37) and 23 local clinical samples (P < 0.01). The knock-down of YEATS2 obviously suppressed proliferation of H1975 and HCC-827 cells. Single-cell RNA sequencing analyses indicated that RBBP7 and YEATS2 were both associated with the tumor immune response, and the prognosis signature could predict the immunotherapeutic response in two cohorts receiving immunotherapy (P < 0.05; P < 0.01). Conclusions Totally, an acetylation-related gene signature is constructed, helping to evaluate the recurrence and immunotherapeutic effectiveness of early-stage LUAD patients.

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Regulation of autophagy by protein methylation and acetylation in cancer

Cited by 9 publications

References 100 publications

Diverse WGBS profiles of longissimus dorsi muscle in Hainan black goats and hybrid goats

Diverse WGBS profiles of longissimus dorsi muscle in Hainan black goats and hybrid goats

Epigenetic regulation of autophagy in coronavirus disease 2019 (COVID-19)

Construction and experimental validation of an acetylation-related gene signature to evaluate the recurrence and immunotherapeutic response in early-stage lung adenocarcinoma

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