Genomic anatomy of the hippocampus
Open accessAbstract
Availability of genome-scale in situ hybridization data allows systematic analysis of genetic neuroanatomical architecture. Within the hippocampus, electrophysiology and lesion and imaging studies demonstrate functional heterogeneity along the septotemporal axis, although precise underlying circuitry and molecular substrates remain uncharacterized. Application of unbiased statistical component analyses to genome-scale hippocampal gene expression data revealed robust septotemporal molecular heterogeneity, leading to the identification of a large cohort of genes with robust regionalized hippocampal expression. Manual mapping of heterogeneous CA3 pyramidal neuron expression patterns demonstrates an unexpectedly complex molecular parcellation into a relatively coherent set of nine expression domains in the septal/temporal and proximal/distal axes with reciprocal, nonoverlapping boundaries. Unique combinatorial profiles of adhesion molecules within these domains suggest corresponding differential connectivity, which is demonstrated for CA3 projections to the lateral septum using retrograde labeling. This complex, discrete molecular architecture provides a novel paradigm for predicting functional differentiation across the full septotemporal extent of the hippocampus.
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Fmo1, a previously known CA3 proximal gene, is expressed in dorsal clusters #356 and #358 but not #357.
“a previously known CA3 proximal gene, Fmo1 (Thompson et al., 2008), that is expressed in dorsal clusters #356 and #358, but not #357.”
From A taxonomy of transcriptomic cell types across the isocortex and hippocampal formation (2021) · cites this paper as Thompson et al., 2008
The observed CA3 Pr-Di axis is consistent with previously defined CA3 subdomains that divide CA3 into diagonal bands oriented septal-distally to temporal-proximally.
“This is consistent with the previously defined CA3 subdomains (Thompson et al., 2008), which divided CA3 into a series of diagonal bands oriented septal-distally (toward CA2) to temporal-proximally (toward DG).”
From A taxonomy of transcriptomic cell types across the isocortex and hippocampal formation (2021) · cites this paper as Thompson et al., 2008
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- Authors
- Thompson, C. L., Pathak, S. D., Jeromin, A., Ng, L. L., MacPherson, C. R., Mortrud, M. T., Cusick, A., Riley, Z. L., Sunkin, S. M., Bernard, A., Puchalski, R. B., Gage, F. H., Jones, A. R., Bajic, V. B., Hawrylycz, M. J., & Lein, E. S.
- Affiliations
- Allen Institute for Brain Science (US)
- University of the Western Cape (ZA)
- Salk Institute for Biological Studies (US)
- Corresponding author
- Lein, Ed S.
- ORCID
- Venue
- Neuron
- Publisher
- Elsevier BV
- Published
- 2008-12
- Volume
- 60
- Issue
- 6
- Pages
- 1010-1021
- ISSN
- 0896-6273 (ISSN-L)
- OpenAlex
- W2088189569
- Cited by
- 403
- References
- 64
- Citations by year
- 2026: 16 · 2025: 26 · 2024: 16 · 2023: 21 · 2022: 14 · 2021: 31 · 2020: 24 · 2019: 22 · 2018: 25 · 2017: 23 · 2016: 20 · 2015: 24 · 2014: 32 · 2013: 29 · 2012: 31
- FWCI
- 8.47
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Licence
- Locations
- Neuron (publishedVersion)
- PubMed (publishedVersion)
- Topics
- Life Sciences › Neuroscience › Cognitive Neuroscience › Memory and Neural Mechanisms
- Life Sciences › Neuroscience › Cellular and Molecular Neuroscience › Neuroscience and Neuropharmacology Research
- Life Sciences › Neuroscience › Developmental Neuroscience › Neurogenesis and neuroplasticity mechanisms
- Keywords
- hippocampus, septotemporal axis, CA3 pyramidal cells, gene expression domains, adhesion molecules, lateral septum, hippocampal connectivity, functional heterogeneity
- MeSH terms
- Animals, Animals, Newborn, Brain Mapping, Cholera Toxin, Hippocampus, Male, Mice, Inbred C57BL, Models, Biological, Nerve Tissue Proteins, Neural Pathways, Septum Pellucidum, Temporal Lobe, In Situ Hybridization, Gene Expression Regulation, Developmental, Neural Cell Adhesion Molecules, Imaging, Three-Dimensional, Genomics, Principal Component Analysis, Mice
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