Analysis of differentially expressed long non-coding RNAs in LPS-induced human HMC3 microglial cells

BMC Genomics

Research

Jin Choul Chai¹  Young Seek Lee¹  Hae In Choi²  Eunyoung Yoo²  Kyoung Hwa Jung³  Bert Binas⁴  Young Gyu Chai⁵  Mina Baek⁶ 

[1] College of Veterinary Medicine, Seoul National University, 08826, Seoul, Republic of Korea;Department of Bionanotechnology, Hanyang University, 04673, Seoul, Republic of Korea;Department of Biopharmaceutical System, Gwangmyeong Convergence Technology Campus of Korea Polytechnic II, 21417, Incheon, Republic of Korea;Department of Molecular and Life Science, Hanyang University, 15588, Ansan, Republic of Korea;Department of Molecular and Life Science, Hanyang University, 15588, Ansan, Republic of Korea;Department of Bionanotechnology, Hanyang University, 04673, Seoul, Republic of Korea;Department of Molecular and Life Science, Hanyang University, 15588, Ansan, Republic of Korea;Institute of Natural Science and Technology, Hanyang University, 15588, Ansan, Republic of Korea;

关键词: Human microglia;    Neuroinflammation;    BET inhibitor;    JQ1;    Long non-coding RNA (LncRNA);    RNA sequencing (RNA-seq);    Differentially expressed long non-coding RNAs (DElncRNAs);    Differentially expressed mRNAs (DEmRNAs);   

DOI  :  10.1186/s12864-022-09083-6

 received in 2022-05-18, accepted in 2022-12-14,  发布年份 2022

来源: Springer

【 摘 要 】

BackgroundLong non-coding RNAs (lncRNAs) are emerging as key modulators of inflammatory gene expression, but their roles in neuroinflammation are poorly understood. Here, we identified the inflammation-related lncRNAs and correlated mRNAs of the lipopolysaccharide (LPS)-treated human microglial cell line HMC3. We explored their potential roles and interactions using bioinformatics tools such as gene ontology (GO), kyoto encyclopedia of genes and genomes (KEGG), and weighted gene co-expression network analysis (WGCNA).ResultsWe identified 5 differentially expressed (DE) lncRNAs, 4 of which (AC083837.1, IRF1-AS1, LINC02605, and MIR3142HG) are novel for microglia. The DElncRNAs with their correlated DEmRNAs (99 total) fell into two network modules that both were enriched with inflammation-related RNAs. However, treatment with the anti-inflammatory agent JQ1, an inhibitor of the bromodomain and extra-terminal (BET) protein BRD4, neutralized the LPS effect in only one module, showing little or even enhancing effect on the other.ConclusionsThese results provide insight into, and a resource for studying, the regulation of microglia-mediated neuroinflammation and its potential therapy by small-molecule BET inhibitors.

【 授权许可】

CC BY   
© The Author(s) 2022

【 图 表 】

Fig. 1

12982_2022_119_Article_IEq208.gif

12982_2022_119_Article_IEq207.gif

12982_2022_119_Article_IEq206.gif

12982_2022_119_Article_IEq70.gif

12982_2022_119_Article_IEq67.gif

12982_2022_119_Article_IEq57.gif

12982_2022_119_Article_IEq51.gif

Fig. 2

12982_2022_119_Article_IEq186.gif

Fig. 1

12982_2022_119_Article_IEq32.gif