PMID- 36582430
OWN - NLM
STAT- PubMed-not-MEDLINE
LR  - 20230103
IS  - 2314-4378 (Electronic)
IS  - 2314-436X (Print)
IS  - 2314-436X (Linking)
VI  - 2022
DP  - 2022
TI  - Molecular Characterization and Clinical Characteristics of m5C-Based RNA 
      Methylation in Spinal Cord Injury: Validated by qPCR.
PG  - 5433860
LID - 10.1155/2022/5433860 [doi]
LID - 5433860
AB  - Aberrant patterns of 5-methylcytosine (m5C)-based ribonucleic acid (RNA) 
      methylation have critical roles in various human diseases, but their importance 
      in spinal cord injury (SCI) is largely unknown. We explore the expression 
      patterns and potential roles of m5C-based regulators of RNA modification after 
      SCI. We analyzed 16 m5C-based regulators of RNA modification in tissues with SCI 
      and normal rats from the Gene Expression Omnibus database. We constructed a "gene 
      signature" of m5C-based regulators of RNA modification to predict the prognosis 
      of SCI using least absolute shrinkage and selection operator regression and 
      random-forest strategy. We found that the m5C-related genes, deoxyribonucleic 
      acid (DNA) methyltransferase1 (Dnmt1), methyl-CpG binding domain protein 2 
      (Mbd2), ubiquitin-like with PHD and ring finger domains 1 (Uhrf1), 
      uracil-N-glycosylase (Ung), and zinc finger and BTB(brica-brac, tramtrack, and 
      broad) domain containing 38 (Zbtb38) had high expression, and zinc finger and BTB 
      domain containing 4 (Zbtb4) had low expression in SCI. Analysis of the 
      correlation between the gene sets of m5C-based regulators of RNA modification and 
      immune-cell infiltration and immune response revealed Dnmt1, DNA 
      methyltransferases 3A (Dnmt3a), Mbd2, and Ung to be positive regulators of the 
      immune microenvironment, and Zbtb4 may negatively regulate the immune 
      environment. Then, two molecular subtypes were identified based on 16 
      m5C-regulated genes. Functional-enrichment analysis of differentially expressed 
      genes between different patterns of m5C-based modification was undertaken. 
      Through the creation of a protein-protein interaction network, we screened 11 hub 
      genes. We demonstrated their importance between SCI group and sham group using 
      real-time reverse transcription-quantitative polymerase chain reaction in rat 
      model. Expression of hub genes did not correlate with mitophagy but was 
      positively correlated with endoplasmic reticulum stress (ERS), which suggested 
      that there may be differences in ERS between different patterns of m5C-based 
      modification. This present study explored and discovered the close link between 
      m5C regulators-related genes and SCI. We also hope our findings may contribute to 
      further mechanistic and therapeutic research on the role of key m5C regulators 
      after SCI.
CI  - Copyright (c) 2022 Liang Cao et al.
FAU - Cao, Liang
AU  - Cao L
AD  - School of Clinical Medicine, Guizhou Medical University, Guiyang 550025, China.
FAU - Pi, Wen Jun
AU  - Pi WJ
AD  - School of Clinical Medicine, Guizhou Medical University, Guiyang 550025, China.
FAU - Zhang, Qiang
AU  - Zhang Q
AD  - School of Clinical Medicine, Guizhou Medical University, Guiyang 550025, China.
FAU - Li, Qing
AU  - Li Q
AUID- ORCID: 0000-0002-2338-150X
AD  - Department of Orthopedics Traumatic, The Affiliated Hospital of Guizhou Medical 
      University, Guiyang, China.
LA  - eng
PT  - Journal Article
DEP - 20221220
PL  - United States
TA  - Int J Genomics
JT  - International journal of genomics
JID - 101605206
PMC - PMC9794433
COIS- The author(s) declare(s) that they have no conflicts of interest.
EDAT- 2022/12/31 06:00
MHDA- 2022/12/31 06:01
PMCR- 2022/12/20
CRDT- 2022/12/30 02:21
PHST- 2022/04/14 00:00 [received]
PHST- 2022/07/25 00:00 [revised]
PHST- 2022/12/03 00:00 [accepted]
PHST- 2022/12/30 02:21 [entrez]
PHST- 2022/12/31 06:00 [pubmed]
PHST- 2022/12/31 06:01 [medline]
PHST- 2022/12/20 00:00 [pmc-release]
AID - 10.1155/2022/5433860 [doi]
PST - epublish
SO  - Int J Genomics. 2022 Dec 20;2022:5433860. doi: 10.1155/2022/5433860. eCollection 
      2022.