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| Status |
Public on Apr 05, 2011 |
| Title |
Deep sequencing analysis of the developing mouse brain reveals a novel microRNA |
| Organism |
Mus musculus |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
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| Summary |
MicroRNAs (miRNAs) are small non-coding RNAs that can exert multilevel inhibition/repression at a post-transcriptional or protein synthesis level during disease or development. Characterisation of miRNAs in adult mammalian brains by deep sequencing has been reported previously. However, to date, no small RNA profiling of the developing brain has been undertaken using this method. We have performed deep sequencing and small RNA analysis of a developing (E15.5) mouse brain.
We identified the expression of 294 known miRNAs in the E15.5 developing mouse brain, which were mostly represented by let-7 family and other brain-specific miRNAs such as miR-9 and miR-124. We also discovered 4 putative 22-23nt miRNAs: mm_br_e15_1181, mm_br_e15_279920, mm_br_e15_96719 and mm_br_e15_294354 each with a 70-76nt predicted pre-miRNA. We validated the 4 putative miRNAs and further characterised one of them, mm_br_e15_1181, throughout embryogenesis. Mm_br_e15_1181 biogenesis was Dicer1-dependent and was expressed in E3.5 blastocysts and E7 whole embryos. Embryo-wide expression patterns were observed at E9.5 and E11.5 followed by a near complete loss of expression by E13.5, with expression restricted to a specialised layer of cells within the developing and early postnatal brain. Mm_br_e15_1181 was upregulated during neurodifferentiation of P19 teratocarcinoma cells. This novel miRNA has been identified as miR-3099.
We have generated and analysed the first deep sequencing dataset of small RNA sequences of the developing mouse brain. The analysis revealed a novel miRNA, miR-3099, with potential regulatory effects on early embryogenesis, and involvement in neuronal cell differentiation/function in the brain during late embryonic and early neonatal development.
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| Overall design |
Deep sequencing analysis of small RNAs isolated from an E15.5 mouse brain.
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| Contributor(s) |
Ling KH, Brautigan PJ, Hahn CN, Daish T, Rayner JR, Cheah P, Raison JM, Piltz S, Mann JR, Mattiske DM, Thomas PQ, Adelson DL, Scott HS |
| Citation(s) |
21466694 |
| Submission date |
Jun 30, 2010 |
| Last update date |
May 15, 2019 |
| Contact name |
King Hwa Ling |
| E-mail(s) |
khling@medic.upm.edu.my, michael.khling@yahoo.com
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| Organization name |
Universiti Putra Malaysia
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| Department |
Department of Obstetrics and Gynaecology
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| Lab |
Clinical Genetics Unit
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| Street address |
Faculty of Medicine and Health Sciences
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| City |
UPM Serdang |
| State/province |
Selangor Darul Ehsan |
| ZIP/Postal code |
43400 |
| Country |
Malaysia |
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| Platforms (1) |
| GPL9250 |
Illumina Genome Analyzer II (Mus musculus) |
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| Samples (1) |
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| Relations |
| SRA |
SRP002898 |
| BioProject |
PRJNA128019 |
| Supplementary data files not provided |
SRA Run Selector |
| Processed data included within Sample table |
| Raw data are available in SRA |
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