PMID- 36845400
OWN - NLM
STAT- PubMed-not-MEDLINE
LR  - 20230228
IS  - 1664-8021 (Print)
IS  - 1664-8021 (Electronic)
IS  - 1664-8021 (Linking)
VI  - 14
DP  - 2023
TI  - Identification of long non-coding RNA and circular RNA associated networks in 
      cellular stress responses.
PG  - 1097571
LID - 10.3389/fgene.2023.1097571 [doi]
LID - 1097571
AB  - Mammalian cells employ various adaptive responses to cope with multiple stresses 
      to maintain homeostasis. Functional roles of non-coding RNAs (ncRNAs) in response 
      to cellular stresses have been proposed, and systematical investigations about 
      the crosstalk among distinct types of RNAs are required. Here, we challenged HeLa 
      cells with thapsigargin (TG) and glucose deprivation (GD) treatments to induce 
      endoplasmic reticulum (ER) and metabolic stresses, respectively. Ribosomal RNA 
      (rRNA)-depleted RNA sequencing (RNA-seq) was then performed. Characterization of 
      the RNA-seq data revealed a series of differentially expressed long non-coding 
      RNAs (lncRNAs) and circular RNAs (circRNAs) with parallel changes responsive to 
      both stimuli. We further constructed the lncRNA/circRNA-mRNA co-expressing 
      network, competing endogenous RNA (ceRNA) network in the 
      lncRNA/circRNA-miRNA-mRNA axis, and lncRNA/circRNA-RNA binding protein (RBP) 
      interactome map. These networks indicated the potential cis and/or trans 
      regulatory roles of lncRNAs and circRNAs. Moreover, Gene Ontology analysis 
      demonstrated that these identified ncRNAs were associated with several essential 
      biological processes known to be related to cellular stress responses. In 
      conclusion, we systematically established functional regulatory networks of 
      lncRNA/circRNA-mRNA, lncRNA/circRNA-miRNA-mRNA and lncRNA/circRNA-RBP to perceive 
      the potential interactions and biological processes during cellular stresses. 
      These results provided insights in ncRNA regulatory networks of stress responses 
      and the basis for further identification of pivotal factors involved in cellular 
      stress responses.
CI  - Copyright (c) 2023 Li, Li, Shan and Wang.
FAU - Li, Xiuzhi
AU  - Li X
AD  - Department of Clinical Laboratory, The First Affiliated Hospital of USTC, School 
      of Basic Medical Sciences, Division of Life Science and Medicine, University of 
      Science and Technology of China (UTSC), Hefei, Anhui, China.
FAU - Li, Jingxin
AU  - Li J
AD  - Department of Clinical Laboratory, The First Affiliated Hospital of USTC, School 
      of Basic Medical Sciences, Division of Life Science and Medicine, University of 
      Science and Technology of China (UTSC), Hefei, Anhui, China.
FAU - Shan, Ge
AU  - Shan G
AD  - Department of Clinical Laboratory, The First Affiliated Hospital of USTC, School 
      of Basic Medical Sciences, Division of Life Science and Medicine, University of 
      Science and Technology of China (UTSC), Hefei, Anhui, China.
AD  - Department of Pulmonary and Critical Care Medicine, Regional Medical Center for 
      National Institute of Respiratory Diseases, Sir Run Run Shaw Hospital, School of 
      Medicine, Zhejiang University, Hangzhou, China.
FAU - Wang, Xiaolin
AU  - Wang X
AD  - Department of Clinical Laboratory, The First Affiliated Hospital of USTC, School 
      of Basic Medical Sciences, Division of Life Science and Medicine, University of 
      Science and Technology of China (UTSC), Hefei, Anhui, China.
LA  - eng
PT  - Journal Article
DEP - 20230210
PL  - Switzerland
TA  - Front Genet
JT  - Frontiers in genetics
JID - 101560621
PMC - PMC9953141
OTO - NOTNLM
OT  - RBP
OT  - ceRNA
OT  - circRNA
OT  - er stress
OT  - glucose deprivation
OT  - lncRNA
OT  - miRNA
OT  - network
COIS- The authors declare that the research was conducted in the absence of any 
      commercial or financial relationships that could be construed as a potential 
      conflict of interest.
EDAT- 2023/02/28 06:00
MHDA- 2023/02/28 06:01
PMCR- 2023/02/10
CRDT- 2023/02/27 05:07
PHST- 2022/11/14 00:00 [received]
PHST- 2023/01/31 00:00 [accepted]
PHST- 2023/02/27 05:07 [entrez]
PHST- 2023/02/28 06:00 [pubmed]
PHST- 2023/02/28 06:01 [medline]
PHST- 2023/02/10 00:00 [pmc-release]
AID - 1097571 [pii]
AID - 10.3389/fgene.2023.1097571 [doi]
PST - epublish
SO  - Front Genet. 2023 Feb 10;14:1097571. doi: 10.3389/fgene.2023.1097571. eCollection 
      2023.