Please use this identifier to cite or link to this item: https://hdl.handle.net/11147/9081
Title: Transcriptomics analysis of circular RNAs differentially expressed in apoptotic HeLa cells
Authors: Yaylak, Bilge
Erdoğan, İpek
Akgül, Bünyamin
Yaylak, Bilge
Erdoğan, İpek
Akgül, Bünyamin
Izmir Institute of Technology. Molecular Biology and Genetics
Keywords: apoptosis
circular RNA
RNA-seq
transcriptomics
HeLa
Issue Date: 2019
Publisher: Frontiers Media S.A.
Abstract: Apoptosis is a form of regulated cell death that plays a critical role in survival and developmental homeostasis. There are numerous reports on regulation of apoptosis by protein-coding genes as well as small non-coding RNAs, such as microRNAs. However, there is no comprehensive investigation of circular RNAs (circRNA) that are differentially expressed under apoptotic conditions. We have performed a transcriptomics study in which we first triggered apoptosis in HeLa cells through treatment with four different agents, namely cisplatin, doxorubicin, TNF-alpha and anti-Fas mAb. Total RNAs isolated from control as well as treated cells were treated with RNAse R to eliminate the linear RNAs. The remaining RNAs were then subjected to deep-sequencing to identify differentially expressed circRNAs. Interestingly, some of the dys-regulated circRNAs were found to originate from protein-coding genes well-documented to regulate apoptosis. A number of candidate circRNAs were validated with qPCR with or without RNAse R treatment as well. We then took advantage of bioinformatics tools to investigate the coding potential of differentially expressed RNAs. Additionally, we examined the candidate circRNAs for the putative miRNA-binding sites and their putative target mRNAs. Our analyses point to a potential for circRNA-mediated sponging of miRNAs known to regulate apoptosis. In conclusion, this is the first transcriptomics study that provides a complete circRNA profile of apoptotic cells that might shed light onto the potential role of circRNAs in apoptosis.
Description: WOS: 000461121700001
PubMed: 30918512
URI: https://doi.org/10.3389/fgene.2019.00176
https://hdl.handle.net/11147/9081
ISSN: 1664-8021
Appears in Collections:PubMed İndeksli Yayınlar Koleksiyonu / PubMed Indexed Publications Collection
Scopus İndeksli Yayınlar Koleksiyonu / Scopus Indexed Publications Collection
WoS İndeksli Yayınlar Koleksiyonu / WoS Indexed Publications Collection

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