Analysis of long non‐coding RNA expression profiles in neonatal rats with hypoxic‐ischemic brain damage

Abstract

Hypoxic-ischemic brain damage (HIBD) which is a common cause of acute mortality and neurological dysfunction in neonates still lacks effective therapeutic methods. Long noncoding RNAs (lncRNAs) were demonstrated to play a crucial role in many diseases. To give a foundation for subsequent functional studies of lncRNAs in HIBD, we investigated the profiling of lncRNAs and messenger RNAs (mRNAs) using neonatal HIBD rat model. Six neonatal rats were divided into sham-operated group (n = 3) and HIBD group (n = 3) randomly. Deep RNA sequencing was implemented to find out the meaningful lncRNAs and mRNAs. Quantitative realtime PCR was used to validate expressions of lncRNAs and mRNAs. The Gene Ontology (GO) and kyoto encyclopedia of genes a genomes (KEGG) database were used to predict functions of lncRNAs. A total of 328 differentially expressed lncRNAs (177 down-regulated vs 151 up-regulated) and 7157 differentially expressed mRNAs (2552 down-regulated vs 4605 up-regulated) were identified. The Quantitative realtime PCR results showed significant differential expressions of five lncRNAs and five mRNAs which were consistent with the RNA-Seq data. Gene ontology and KEGG analysis showed these lncRNAs and their expression-correlated mRNAs were closely related to the Janus tyrosine kinasesignal transducer and activator of transcription (JAK-STAT) signaling pathway, NF-kappa B signaling pathway, Toll-like receptor signaling pathway, calcium signaling pathway, Notch signaling pathway, mitogen activated protein kinase signaling pathway, neuroactive ligand-receptor interaction pathway and more. The results of our study identified the characterization and expression profiles of lncRNAs in neonatal HIBD and may be a basis for further therapeutic research.

Genome-wide association study using whole-genome sequencing identifies risk loci for Parkinson’s disease in Chinese population

“…Several HEAT repeat proteins were reported to cause neurological diseases [23][24][25] . HEATR6 showed high expression in multiple brain regions including midbrain, moreover, Heatr6 were reported to be altered in neurological diseases 26,27 and downregulated in the peripheral blood of patients with PD 12 . We speculate the new risk variant rs61204179 may mediate the risk of PD through HEATR6, but functional studies are required to further confirm the relationship between this locus and PD.…”

Multi-omics analysis reveals GABAergic dysfunction after traumatic brainstem injury in rats

“…Neuroactive ligand-receptor interactions are often associated with neurological diseases such as Parkinson’s disease, encephalopathy, and encephalitis ( Lin et al, 2015 ; Kelly et al, 2020 ; Zhang et al, 2022 ). In traumatic brain injury (TBI), the pathway neuroactive ligand-receptor interaction is also affected ( Huang et al, 2019 ; Zhou et al, 2019 ; Sachdev et al, 2022 ). In addition to being enriched in neuroactive ligand-receptor interaction, DEGs are also enriched in other neuronal signaling pathways, such as axon guidance, GABAergic synapse, glutamatergic synapse, retrograde endocannabinoid signaling, calcium signaling pathway, etc.…”

Transcriptome analysis and differentially expressed gene screening for hypoxic-ischemic brain damage in rats treated with acupuncture

“…Meanwhile, several studies have documented the important neuroprotective roles of acupuncture in cerebral functional compensation in animal models with HIBD [22][23][24] . With the rise of RNA-seq technology, people gradually became interested in the gene-related mechanism of HIBD and began to do research 25,26 . However, the role of acupuncture in regulating RNAs in HIBD rats remains unknown.…”