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Series GSE229081 Query DataSets for GSE229081
Status Public on Mar 01, 2024
Title Reactivation of memory-encoding dentate gyrus neurons during memory consolidation is associated with subregion-specific, learning- and sleep-mediated biosynthetic changes [spatial protein expression level]
Organisms Mus musculus; blank sample
Experiment type Expression profiling by high throughput sequencing
Other
Summary Post-learning sleep plays an important role in hippocampal memory processing, including contextual fear memory (CFM) consolidation. Here, we used targeted recombination in activated populations (TRAP) to label context-encoding engram neurons in the hippocampal dentate gyrus (DG) and assessed reactivation of these neurons during post-learning sleep. We find that post-learning sleep deprivation (SD), which impairs CFM consolidation, selectively disrupts reactivation in inferior blade DG engram neurons. This change was linked to more general suppression of neuronal activity markers in the inferior, but not superior, DG blade by SD. To further characterize how learning and subsequent sleep or SD affect these (and other) hippocampal subregions, we used subregion-specific spatial profiling of transcripts and proteins. We found that transcriptomic responses to sleep loss differed greatly between hippocampal regions CA1, CA3, and DG inferior blade, superior blade, and hilus. Critically, learning-driven transcriptomic changes, measured 6 h following contextual fear learning, were limited to the two DG blades, differed dramatically between the blades, and were absent from all other regions. Similarly, protein abundance in these hippocampal subregions were differentially impacted by sleep vs. SD and by prior learning, with the majority of alterations to protein expression restricted to DG. Together, these data suggest that the DG plays an essential role in the consolidation of hippocampal memories, and that the effects of sleep and sleep loss on the brain are highly subregion-specific, even within the DG itself.
 
Overall design This dataset contains protein expression levels from spatially resolved regions of interest (ROIs) of mice that received CFC+sleep, CFC+SD, No_CFC+Sleep (Home Cage+Sleep), and No_CFC+SD (Home Cage+SD). ROIs were collected from both hemispheres of the brain, including 5 different subregions of the brain (CA1, CA3, DG-superior blade, DG-inferior blade, and DG-hilus).
 
Contributor(s) Wang L, Park L, Wu W, King D, Medina AV, Raven F, Martinez J, Ensing A, McDonald K, Yang Z, Jiang S, Aton SJ
Citation(s) 38523798
Submission date Apr 05, 2023
Last update date Apr 02, 2024
Contact name Bioinformatics Core
E-mail(s) bioinformatics@umich.edu
Organization name University of Michigan
Street address BRCF Bioinformatics Core, 2800 Plymouth Rd
City Ann Arbor
State/province Mi
ZIP/Postal code 48109-2800
Country USA
 
Platforms (2)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
GPL29487 Illumina NovaSeq 6000 (blank sample)
Samples (123)
GSM7152036 No template control; rep1 [protein expression level]
GSM7152037 brain; SD; No_CFC; DG_inf; rep1 [protein expression level]
GSM7152038 brain; SD; No_CFC; hilus; rep1 [protein expression level]
This SubSeries is part of SuperSeries:
GSE229082 Reactivation of memory-encoding dentate gyrus neurons during memory consolidation is associated with subregion-specific, learning- and sleep-mediated biosynthetic changes.
Relations
BioProject PRJNA952696

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE229081_Mm_P_NGS_ADPath_Ext_v1.0.pkc.gz 858 b (ftp)(http) PKC
GSE229081_Mm_P_NGS_ADPath_v1.0.pkc.gz 941 b (ftp)(http) PKC
GSE229081_Mm_P_NGS_Autophagy_v1.0.pkc.gz 946 b (ftp)(http) PKC
GSE229081_Mm_P_NGS_CellDeath_v1.0.pkc.gz 986 b (ftp)(http) PKC
GSE229081_Mm_P_NGS_Core_v1.0.pkc.gz 900 b (ftp)(http) PKC
GSE229081_Mm_P_NGS_GlialSubtype_v1.0.pkc.gz 972 b (ftp)(http) PKC
GSE229081_Mm_P_NGS_MAPK_v1.0.pkc.gz 1.1 Kb (ftp)(http) PKC
GSE229081_Mm_P_NGS_NeuralCellTyping_v1.0.pkc.gz 935 b (ftp)(http) PKC
GSE229081_Mm_P_NGS_PDPath_v1.0.pkc.gz 868 b (ftp)(http) PKC
GSE229081_Mm_P_NGS_PI3K_AKT_v1.0.pkc.gz 917 b (ftp)(http) PKC
GSE229081_RAW.tar 190.0 Kb (http)(custom) TAR (of DCC)
GSE229081_rawcounts_proteinTargets.csv.gz 25.5 Kb (ftp)(http) CSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record
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