Engram-specific transcriptome profiling of contextual memory consolidation

Priyanka Rao-Ruiz; Jonathan J. Couey; Ivo M. Marcelo; Christian G. Bouwkamp; Denise E. Slump; Mariana R. Matos; Rolinka J. van der Loo; Gabriela J. Martins; Mirjam van den Hout; Wilfred F. van IJcken; Rui M. Costa; Michel C. van den Oever; Steven A. Kushner

doi:10.1038/s41467-019-09960-x

Engram-specific transcriptome profiling of contextual memory consolidation

Priyanka Rao-Ruiz, Jonathan J. Couey, Ivo M. Marcelo, Christian G. Bouwkamp, Denise E. Slump, Mariana R. Matos, Rolinka J. van der Loo, Gabriela J. Martins, Mirjam van den Hout, Wilfred F. van IJcken, Rui M. Costa, Michel C. van den Oever, Steven A. Kushner^*

^*Corresponding author for this work

Research output: Contribution to Journal › Article › Academic › peer-review

Abstract

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 24 h 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 = 6.2 × 10 ⁻¹³ ), including Atf3 (P = 2.4 × 10 ⁻⁴¹ ), Penk (P = 1.3 × 10 ⁻¹⁵ ), and Kcnq3 (P = 3.1 × 10 ⁻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.

Original language	English
Article number	2232
Journal	Nature Communications
Volume	10
Issue number	1
DOIs	https://doi.org/10.1038/s41467-019-09960-x
Publication status	Published - 1 Dec 2019

Funding

The authors would like to thank Yvonne Gouwenberg and Robbert Zalm (VU University, Amsterdam, The Netherlands) for AAV and mCREB vector construct preparation. This work was supported by the Hersenstichting Nederland Fonds to P.R-R. and J.J.C.; NWO VENI (016.171.033) to P.R-R.; NWO VIDI (017.106.384), ZonMw Middelgroot (40-00506-9810026), and ALW Middelgroot (834.12.002) to S.A.K.; NWO VIDI to M.C.v.d.O. (016.168.313); ZonMw TOP grant (40-00812-98-15030) to P.R-R., M.C.v.d.O. and S.A.K.

Funders	Funder number
Hersenstichting Nederland Fonds
ZonMW Middelgroot	016.168.313, 834.12.002, 40-00506-9810026
ZonMw TOP	40-00812-98-15030
ZonMw
Nederlandse Organisatie voor Wetenschappelijk Onderzoek	017.106.384, 016.171.033
Hersenstichting

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Rao-Ruiz, P., Couey, J. J., Marcelo, I. M., Bouwkamp, C. G., Slump, D. E., Matos, M. R., van der Loo, R. J., Martins, G. J., van den Hout, M., van IJcken, W. F., Costa, R. M., van den Oever, M. C., & Kushner, S. A. (2019). Engram-specific transcriptome profiling of contextual memory consolidation. Nature Communications, 10(1), Article 2232. https://doi.org/10.1038/s41467-019-09960-x

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title = "Engram-specific transcriptome profiling of contextual memory consolidation",

abstract = " 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 24 h 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 = 6.2 × 10 −13 ), including Atf3 (P = 2.4 × 10 −41 ), Penk (P = 1.3 × 10 −15 ), and Kcnq3 (P = 3.1 × 10 −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. ",

author = "Priyanka Rao-Ruiz and Couey, {Jonathan J.} and Marcelo, {Ivo M.} and Bouwkamp, {Christian G.} and Slump, {Denise E.} and Matos, {Mariana R.} and {van der Loo}, {Rolinka J.} and Martins, {Gabriela J.} and {van den Hout}, Mirjam and {van IJcken}, {Wilfred F.} and Costa, {Rui M.} and {van den Oever}, {Michel C.} and Kushner, {Steven A.}",

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doi = "10.1038/s41467-019-09960-x",

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AU - Marcelo, Ivo M.

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AU - Slump, Denise E.

AU - Matos, Mariana R.

AU - van der Loo, Rolinka J.

AU - Martins, Gabriela J.

AU - van den Hout, Mirjam

AU - van IJcken, Wilfred F.

AU - Costa, Rui M.

AU - van den Oever, Michel C.

AU - Kushner, Steven A.

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N2 - 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 24 h 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 = 6.2 × 10 −13 ), including Atf3 (P = 2.4 × 10 −41 ), Penk (P = 1.3 × 10 −15 ), and Kcnq3 (P = 3.1 × 10 −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.

AB - 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 24 h 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 = 6.2 × 10 −13 ), including Atf3 (P = 2.4 × 10 −41 ), Penk (P = 1.3 × 10 −15 ), and Kcnq3 (P = 3.1 × 10 −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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Engram-specific transcriptome profiling of contextual memory consolidation

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