Epitranscriptomics m
Hela
RNA modification
TNF-alpha
apoptosis
epitranscriptomics
m6A
Journal
Journal of cellular physiology
ISSN: 1097-4652
Titre abrégé: J Cell Physiol
Pays: United States
ID NLM: 0050222
Informations de publication
Date de publication:
05 Jan 2024
05 Jan 2024
Historique:
revised:
27
10
2023
received:
23
06
2023
accepted:
07
12
2023
medline:
5
1
2024
pubmed:
5
1
2024
entrez:
5
1
2024
Statut:
aheadofprint
Résumé
Tumor necrosis factor-α (TNF-α) is a ligand that induces both intrinsic and extrinsic apoptotic pathways in HeLa cells by modulating complex gene regulatory mechanisms. However, the full spectrum of TNF-α-modulated epitranscriptomic m
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Subventions
Organisme : Türkiye Bilimsel ve Teknolojik Arastirma Kurumu
Informations de copyright
© 2024 The Authors. Journal of Cellular Physiology published by Wiley Periodicals LLC.
Références
Akçaöz, A., & Akgül, B. (2022). Epitranscriptomics changes the play: m6A RNA modifications in apoptosis. Advances in Experimental Medicine and Biology, 17, 163-171.
Alasar, A. A., Tüncel, Ö., Gelmez, A. B., Sağlam, B., Vatansever, İ. E., & Akgül, B. (2022). Genomewide m6A mapping uncovers dynamic changes in the m6A epitranscriptome of Cisplatin-Treated apoptotic HeLa cells. Cells, 11, 3905.
Black, R. A., Rauch, C. T., Kozlosky, C. J., Peschon, J. J., Slack, J. L., Wolfson, M. F., Castner, B. J., Stocking, K. L., Reddy, P., Srinivasan, S., Nelson, N., Boiani, N., Schooley, K. A., Gerhart, M., Davis, R., Fitzner, J. N., Johnson, R. S., Paxton, R. J., March, C. J., & Cerretti, D. P. (1997). A metalloproteinase disintegrin that releases tumour-necrosis factor-α from cells. Nature, 385, 729-733.
Chassé, H., Boulben, S., Costache, V., Cormier, P., & Morales, J. (2017). Analysis of translation using polysome profiling. Nucleic Acids Research, 45, e15.
Core Team, R. (2020). R: A language and environment for statistical computing. R Found Stat. Comput.
Dominissini, D., Moshitch-Moshkovitz, S., Schwartz, S., Salmon-Divon, M., Ungar, L., Osenberg, S., Cesarkas, K., Jacob-Hirsch, J., Amariglio, N., Kupiec, M., Sorek, R., & Rechavi, G. (2012). Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq. Nature, 485, 201-206.
Florea, A. M., & Büsselberg, D. (2011). Cisplatin as an anti-tumor drug: Cellular mechanisms of activity, drug resistance and induced side effects. Cancers, 3, 1351-1371.
Flusberg, D. A., & Sorger, P. K. (2015). Surviving apoptosis: Life-death signaling in single cells. Trends in Cell Biology, 25, 446-458.
Gironella, M., Seux, M., Xie, M. J., Cano, C., Tomasini, R., Gommeaux, J., Garcia, S., Nowak, J., Yeung, M. L., Jeang, K. T., Chaix, A., Fazli, L., Motoo, Y., Wang, Q., Rocchi, P., Russo, A., Gleave, M., Dagorn, J. C., Iovanna, J. L., … Dusetti, N. J. (2007). Tumor protein 53-induced nuclear protein 1 expression is repressed by miR-155, and its restoration inhibits pancreatic tumor development. Proceedings of the National Academy of Sciences, 104, 16170-16175.
Göktaş, Ç., Yiğit, H., Coşacak, M., & Akgül, B. (2017). Differentially expressed tRNA-derived small RNAs co-sediment primarily with non-polysomal fractions in drosophila. Genes, 8, 333.
Gudipaty, S. A., Conner, C. M., Rosenblatt, J., & Montell, D. J. (2018). Unconventional ways to live and die: Cell death and survival in development, homeostasis, and disease. Annual Review of Cell and Developmental Biology, 34, 311-332.
Kolde, R. (2019). Pheatmap: Pretty Heatmaps. R package version 1.0. 12.
Martinez-Lopez, M., Póvoa, V., & Fior, R. (2021). Generation of zebrafish larval xenografts and tumor behavior analysis. Journal of Visualized Experiments: JoVE, (172), e62373. https://doi.org/10.3791/62373
Oda, E., Ohki, R., Murasawa, H., Nemoto, J., Shibue, T., Yamashita, T., Tokino, T., Taniguchi, T., & Tanaka, N. (2000). Noxa, a BH3-Only member of the Bcl-2 family and candidate mediator of p53-Induced apoptosis. Science, 288, 1053-1058.
Okamura, S., Arakawa, H., Tanaka, T., Nakanishi, H., Ng, C. C., Taya, Y., Monden, M., & Nakamura, Y. (2001). p53DINP1, a p53-inducible gene, regulates p53-dependent apoptosis. Molecular Cell, 8, 85-94.
RStudio Team. (2020). RStudio: Integrated Development for R. RStudio.
Saadi, H., Seillier, M., & Carrier, A. (2015). The stress protein TP53INP1 plays a tumor suppressive role by regulating metabolic homeostasis. Biochimie, 118, 44-50.
Scheffner, M., Werness, B. A., Huibregtse, J. M., Levine, A. J., & Howley, P. M. (1990). The E6 oncoprotein encoded by human papillomavirus types 16 and 18 promotes the degradation of p53. Cell, 63, 1129-1136.
Sedger, L. M., & McDermott, M. F. (2014). TNF and TNF-receptors: From mediators of cell death and inflammation to therapeutic giants-past, present and future. Cytokine & Growth Factor Reviews, 25, 453-472.
Thermann, R., & Hentze, M. W. (2007). Drosophila miR2 induces pseudo-polysomes and inhibits translation initiation. Nature, 447, 875-878.
Tomasini, R., Samir, A. A., Carrier, A., Isnardon, D., Cecchinelli, B., Soddu, S., Malissen, B., Dagorn, J. C., Iovanna, J. L., & Dusetti, N. J. (2003). TP53INP1s and homeodomain-interacting protein kinase-2 (HIPK2) are partners in regulating p53 activity. Journal of Biological Chemistry, 278, 37722-37729.
Tüncel, Ö., Kara, M., Yaylak, B., Erdoğan, İ., & Akgül, B. (2022). Noncoding RNAs in apoptosis: Identification and function. Turkish journal of biology = Turk biyoloji dergisi, 46, 1-40.
Wajant, H., Pfizenmaier, K., & Scheurich, P. (2003). Tumor necrosis factor signaling. Cell Death & Differentiation, 10, 45-65.
Wang, L., Du, F., & Wang, X. (2008). TNF-α induces two distinct Caspase-8 activation pathways. Cell, 133, 693-703.
Wang, Y., Wang, R., Yao, B., Hu, T., Li, Z., Liu, Y., Cui, X., Cheng, L., Song, W., Huang, S., & Fu, X. (2020). TNF-α suppresses sweat gland differentiation of MSCs by reducing FTO-mediated m6A-demethylation of nanog mRNA. Science China Life Sciences, 63, 80-91.
Webster, J. D., & Vucic, D. (2020). The balance of TNF mediated pathways regulates inflammatory cell death signaling in healthy and diseased tissues. Frontiers in Cell and Developmental Biology, 8, 1-14.
Wei, C. M., Gershowitz, A., & Moss, B. (1975). Methylated nucleotides block 5′ terminus of HeLa cell messenger RNA. Cell, 4, 379-386.
Xie, Z., Yu, W., Zheng, G., Li, J., Cen, S., Ye, G., Li, Z., Liu, W., Li, M., Lin, J., Su, Z., Che, Y., Ye, F., Wang, P., Wu, Y., & Shen, H. (2021). TNF-α-mediated m6A modification of ELMO1 triggers directional migration of mesenchymal stem cell in ankylosing spondylitis. Nature Communications, 12, 5373.
Yaylak, B., Erdogan, I., & Akgul, B. (2019). Transcriptomics analysis of circular RNAs differentially expressed in apoptotic HeLa cells. Frontiers in Genetics, 10, 1-10.
Yoshida, K., Liu, H., & Miki, Y. (2006). Protein kinase C δ regulates Ser46 phosphorylation of p53 tumor suppressor in the apoptotic response to DNA damage. Journal of Biological Chemistry, 281, 5734-5740.
Yue, Y., Liu, J., & He, C. (2015). RNA N6-methyladenosine methylation in post-transcriptional gene expression regulation. Genes & Development, 29, 1343-1355.
Zaccara, S., Ries, R. J., & Jaffrey, S. R. (2019). Reading, writing and erasing mRNA methylation. Nature Reviews Molecular Cell Biology, 20, 608-624.
Zhang, X., Deng, S., Peng, Y., Wei, H., & Tian, Z. (2022). ALKBH5 inhibits TNF-α-induced apoptosis of HUVECs through Bcl-2 pathway. Open Medicine, 17, 1092-1099.
Zhang, X., Dong, Y., Gao, M., Hao, M., Ren, H., Guo, L., & Guo, H. (2021). Knockdown of TRAP1 promotes cisplatin-induced apoptosis by promoting the ROS-dependent mitochondrial dysfunction in lung cancer cells. Molecular and Cellular Biochemistry, 476, 1075-1082.