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| Status |
Public on Dec 06, 2019 |
| Title |
Neuronal and glial DNA methylation and gene expression changes in early epileptogenesis |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
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| Summary |
Mesial Temporal Lobe Epilepsy is characterized by progressive changes of both neurons and glia, also referred to as epileptogenesis. No curative treatment options, apart from surgery, are available. DNA methylation (DNAm) is a potential upstream mechanism in epileptogenesis and may serve as a novel therapeutic target. To our knowledge, this is the first study to investigate epilepsy-related DNAm, gene expression (GE) and their relationship, in neurons and glia. We used the intracortical kainic acid injection model to elicit status epilepticus. At 24 hours post injection, hippocampi from eight kainic acid- (KA) and eight saline-injected (SH) mice were extracted and shock frozen. Separation into neurons and glial nuclei was performed by flow cytometry. Changes in DNAm and gene expression were measured with reduced representation bisulfite sequencing (RRBS) and mRNA-sequencing (mRNAseq). Statistical analyses were performed in R with the edgeR package. We observed fulminant DNAm- and GE changes in both neurons and glia at 24 hours after initiation of status epilepticus. The vast majority of these changes were specific for either neurons or glia. At several epilepsy-related genes, like HDAC11, SPP1, GAL, DRD1 and SV2C, significant differential methylation and differential gene expression coincided. We found neuron- and glia-specific changes in DNAm and gene expression in early epileptogenesis. We detected single genetic loci in several epilepsy-related genes, where DNAm and GE changes coincide, worth further investigation. Further, our results may serve as an information source for neuronal and glial alterations in both DNAm and GE in early epileptogenesis.
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| Overall design |
DNA methylation (RRBS) and gene expression (mRNA-seq) changes in neurons and glia; Right hippocampus of kainic acid injected mice (numbner of mice=8, number of samples=3); vs saline injected mice(numbner of mice=8, number of samples=3) at 24 hrs post injection.
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| Contributor(s) |
Hjorthaug HS, Vigeland MD, Nome CG, Berger TC, Etholm L, Taubøll E, Heuser K, Selmer KK |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Sep 27, 2019 |
| Last update date |
Dec 08, 2019 |
| Contact name |
Magnus D. Vigeland |
| Organization name |
University of Oslo
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| Department |
Medical Genetics
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| Street address |
Kirkeveien 166
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| City |
Oslo |
| ZIP/Postal code |
0424 |
| Country |
Norway |
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| Platforms (3) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
| GPL21493 |
Illumina HiSeq 3000 (Mus musculus) |
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| Samples (24)
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| Relations |
| BioProject |
PRJNA574618 |
| SRA |
SRP223512 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE138100_RAW.tar |
167.6 Mb |
(http)(custom) |
TAR (of COV) |
| GSE138100_counts_gencode.M16.txt.gz |
998.7 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
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