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| Status |
Public on Mar 30, 2019 |
| Title |
Engram-specific transcriptome profiling of contextual memory consolidation |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Sparse populations of neurons in the dentate gyrus (DG) of the hippocampus are causally implicated in the encoding of contextual fear memories. However, engram-specific molecular mechanisms underlying memory consolidation remain largely unknown. Here we perform unbiased RNA sequencing of DG engram neurons 24h after contextual fear conditioning to identify transcriptome changes specific to memory consolidation. DG engram neurons exhibit a highly distinct pattern of gene expression, in which CREB-dependent transcription features prominently (P=6.2x10-13), including Atf3 (P=2.4x10-41), Penk (P=1.3x10-15), and Kcnq3 (P=3.1x10-12). Moreover, we validate the functional relevance of the RNAseq findings by establishing the causal requirement of intact CREB function specifically within the DG engram during memory consolidation, and identify a novel group of CREB target genes involved in the encoding of long-term memory.
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| Overall design |
Biological replicates: Fear conditioned: n=14, No shock controls: n=4, Home cage controls:n=3. The contents 10 dVenus+ and 10 dVenus- cells were aspirated from each animal (biological replicate)
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| Contributor(s) |
Rao-Ruiz P, Couey JJ, Marcelo IM, Bouwkamp CG, Slump DE, Matos MR, van der Loo RJ, Martins GJ, van den Hout M, van IJcken WF, Costa RM, van den Oever MC, Kushner SA |
| Citation(s) |
31110186 |
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| Submission date |
Mar 29, 2019 |
| Last update date |
May 23, 2019 |
| Contact name |
Steven Kushner |
| E-mail(s) |
s.kushner@erasmusmc.nl
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| Organization name |
Erasmus MC
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| Department |
Psychiatry
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| Street address |
Dr. Molewaterplein 40
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| City |
Rotterdam |
| State/province |
Zuid Holland |
| ZIP/Postal code |
3015 GD |
| Country |
Netherlands |
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| Platforms (1) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
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| Samples (38)
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| GSM3690851 |
Fear Conditioned, dVenus+, MouseNr 01 [G01] |
| GSM3690852 |
Fear Conditioned, dVenus+, MouseNr 03 [G03] |
| GSM3690853 |
Fear Conditioned, dVenus-, MouseNr 01 [NG01] |
| GSM3690854 |
Fear Conditioned, dVenus-, MouseNr 03 [NG03] |
| GSM3690855 |
Fear Conditioned, dVenus+, MouseNr 05 [G05] |
| GSM3690856 |
Fear Conditioned, dVenus+, MouseNr 06 [G06] |
| GSM3690857 |
Fear Conditioned, dVenus+, MouseNr 07 [G07] |
| GSM3690858 |
Fear Conditioned, dVenus+, MouseNr 04 [G04] |
| GSM3690859 |
Fear Conditioned, dVenus-, MouseNr 05 [NG05] |
| GSM3690860 |
Fear Conditioned, dVenus-, MouseNr 06 [NG06] |
| GSM3690861 |
Fear Conditioned, dVenus-, MouseNr 07 [NG07] |
| GSM3690862 |
Fear Conditioned, dVenus-, MouseNr 04 [NG04] |
| GSM3690863 |
Fear Conditioned, dVenus+, MouseNr 10 [G10] |
| GSM3690864 |
Fear Conditioned, dVenus+, MouseNr 11 [G11] |
| GSM3690865 |
Fear Conditioned, dVenus+, MouseNr 12 [G12] |
| GSM3690866 |
Fear Conditioned, dVenus+, MouseNr 13 [G13] |
| GSM3690867 |
Fear Conditioned, dVenus+, MouseNr 14 [G14] |
| GSM3690868 |
Fear Conditioned, dVenus+, MouseNr 09 [G09] |
| GSM3690869 |
Fear Conditioned, dVenus-, MouseNr 10 [NG10] |
| GSM3690870 |
Fear Conditioned, dVenus-, MouseNr 11 [NG11] |
| GSM3690871 |
Fear Conditioned, dVenus-, MouseNr 12 [NG12] |
| GSM3690872 |
Fear Conditioned, dVenus-, MouseNr 13 [NG13] |
| GSM3690873 |
Fear Conditioned, dVenus-, MouseNr 14 [NG14] |
| GSM3690874 |
Fear Conditioned, dVenus-, MouseNr 09 [NG09] |
| GSM3690875 |
HomeCage, dVenus+, MouseNr 15 [HC_G15] |
| GSM3690876 |
HomeCage, dVenus+, MouseNr 16 [HC_G16] |
| GSM3690877 |
HomeCage, dVenus+, MouseNr 17 [HC_G17] |
| GSM3690878 |
HomeCage, dVenus-, MouseNr 15 [HC_NG15] |
| GSM3690879 |
HomeCage, dVenus-, MouseNr 16 [HC_NG16] |
| GSM3690880 |
HomeCage, dVenus-, MouseNr 17 [HC_NG17] |
| GSM3690881 |
Non Shock, dVenus+, MouseNr 18 [NS_G18] |
| GSM3690882 |
Non Shock, dVenus+, MouseNr 19 [NS_G19] |
| GSM3690883 |
Non Shock, dVenus+, MouseNr 20 [NS_G20] |
| GSM3690884 |
Non Shock, dVenus+, MouseNr 21 [NS_G21] |
| GSM3690885 |
Non Shock, dVenus-, MouseNr 18 [NS_NG18] |
| GSM3690886 |
Non Shock, dVenus-, MouseNr 19 [NS_NG19] |
| GSM3690887 |
Non Shock, dVenus-, MouseNr 20 [NS_NG20] |
| GSM3690888 |
Non Shock, dVenus-, MouseNr 21 [NS_NG21] |
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| Relations |
| BioProject |
PRJNA529794 |
| SRA |
SRP189843 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE129024_RAW.tar |
3.2 Mb |
(http)(custom) |
TAR (of TXT) |
| GSE129024_counts_per_gene_sample.txt.gz |
647.9 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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