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| Status |
Public on Sep 04, 2018 |
| Title |
Small RNA-Seq reveals novel miRNAs shaping the transcriptomic identity of rat brain structures |
| Organism |
Rattus norvegicus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
In the central nervous system (CNS), the microRNAs (miRNAs), small endogenous RNAs exerting a negative post-transcriptional regulation on mRNAs, are involved in major functions, such as neurogenesis, and synaptic plasticity. Moreover, they are essential to define the specific transcriptome of the tissues and cell types. However, few studies were performed to determine the miRNome of the different structures of the rat CNS, even through rat is a major model in neuroscience. We determined the miRNome profile of the hippocampus, the cortex, the striatum, the spinal cord and the olfactory bulb, by small RNA-Seq. We found a total of 365 known miRNAs' and 90 novel miRNAs expressed in the CNS of the rat. Novel miRNAs seemed to be important in defining structure-specific miRNomes. Differential analysis showed that several miRNAs were specifically enriched/depleted in these CNS structures. Then, we correlated miRNAs' expression with the expression of their mRNA targets by mRNA-Seq. This analysis suggests that the transcriptomic identity of each structure is regulated by specific miRNAs. Altogether, these results suggest the critical role played by these enriched/depleted miRNAs in the functional identities of CNS structures.
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| Overall design |
miRNA and mRNA profile of 5 structures of the central nervous system of rat, for each structurewe analyzed three biological replicates
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| Contributor(s) |
Soula A, Valere M, Lopez-Gonzalez M, Ury-Thiery V, Groppi A, Landry M, Nikolski M, Favereaux A |
| Citation(s) |
30456375 |
| Submission date |
Aug 31, 2018 |
| Last update date |
Dec 13, 2018 |
| Contact name |
Alexandre FAVEREAUX |
| E-mail(s) |
alexandre.favereaux@u-bordeaux.fr
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| Phone |
+33533514763
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| Organization name |
CNRS UMR 5297
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| Street address |
146 rue leo saignat
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| City |
Bordeaux |
| ZIP/Postal code |
33000 |
| Country |
France |
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| Platforms (1) |
| GPL18694 |
Illumina HiSeq 2500 (Rattus norvegicus) |
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| Samples (15)
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| Relations |
| BioProject |
PRJNA488824 |
| SRA |
SRP159284 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE119349_RAW.tar |
2.2 Mb |
(http)(custom) |
TAR (of TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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