Cited by 224Memory and Neural MechanismsFunctional Brain Connectivity StudiesNeuroscience and Neuropharmacology Research

Integration of gene expression and brain-wide connectivity reveals the multiscale organization of mouse hippocampal networks

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Bienkowski, Michael S., Bowman, Ian, Song, Monica Y., Gou, Lin, Ard, Tyler, Cotter, Kaelan, Zhu, Muye, Benavidez, Nora L. +7 more·2018·Nature Neuroscience

Abstract

Understanding the organization of the hippocampus is fundamental to understanding brain function related to learning, memory, emotions, and diseases such as Alzheimer's disease. Physiological studies in humans and rodents have suggested that there is both structural and functional heterogeneity along the longitudinal axis of the hippocampus. However, the recent discovery of discrete gene expression domains in the mouse hippocampus has provided the opportunity to re-evaluate hippocampal connectivity. To integrate mouse hippocampal gene expression and connectivity, we mapped the distribution of distinct gene expression patterns in mouse hippocampus and subiculum to create the Hippocampus Gene Expression Atlas (HGEA). Notably, previously unknown subiculum gene expression patterns revealed a hidden laminar organization. Guided by the HGEA, we constructed the most detailed hippocampal connectome available using Mouse Connectome Project ( http://www.mouseconnectome.org ) tract tracing data. Our results define the hippocampus' multiscale network organization and elucidate each subnetwork's unique brain-wide connectivity patterns.

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  • In rodents, the dentate gyrus and CA3 primarily contribute to intrahippocampal connectivity, while CA1/CA2 and subiculum are organized into global networks for extrahippocampal communication.

    “In rodents, DG and CA3 contribute primarily to intrahippocampal connectivity (working to integrate information within the hippocampus), while CA1/CA2 and subiculum are organized into global networks tasked with extrahippocampal communication12.”
  • This predicted isocortex-like circuit organization is highly consistent with currently known interareal connections of HPF, providing validation to the transcriptomic cell type framework.

    “This prediction is highly consistent with the currently known interareal connections of HPF, providing a level of validation to the transcriptomic cell type framework”

    From A taxonomy of transcriptomic cell types across the isocortex and hippocampal formation (2021) · cites this paper as Bienkowski et al., 2018

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Research works printed but not linked: 1

  1. [21]Saunders A A Single-Cell Atlas of Cell Types, States, and Other Transcriptional Patterns from Nine Regions of the Adult Mouse Brain. bioRxiv, 299081 (2018).

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Authors
Bienkowski, M. S., Bowman, I., Song, M. Y., Gou, L., Ard, T., Cotter, K., Zhu, M., Benavidez, N. L., Yamashita, S., Abu-Jaber, J., Azam, S., Lo, D., Foster, N. N., Hintiryan, H., & Dong, H.-W.
Affiliations
University of Southern California (US)
Corresponding author
  • Bienkowski, Michael S.
  • Dong, Hong-Wei
Venue
Nature Neuroscience
Published
2018-10-08
Volume
21
Issue
11
Pages
1628-1643
ISSN
  • 1097-6256 (ISSN-L)
  • 1546-1726
OpenAlex
W2895709954
Cited by
224
References
58
Citations by year
2026: 17 · 2025: 35 · 2024: 33 · 2023: 25 · 2022: 29 · 2021: 31 · 2020: 36 · 2019: 16 · 2018: 1
FWCI
12.51
Type
journal article
Language
en
Open access
Locations
  • Nature Neuroscience (publishedVersion)
  • PubMed (publishedVersion)
  • Europe PMC (PubMed Central) (acceptedVersion)
  • PubMed Central (acceptedVersion)
Funders
  • National Institute on Aging (P50AG005142)
  • National Institute of Mental Health (U19MH114821, F32MH107071, R01MH094360, U01MH114829, RF1MH114112)
  • National Cancer Institute (U01CA198932)
  • National Institute on Deafness and Other Communication Disorders (R01DC008983)
Topics
  • Life Sciences › Neuroscience › Cognitive Neuroscience › Memory and Neural Mechanisms
  • Life Sciences › Neuroscience › Cognitive Neuroscience › Functional Brain Connectivity Studies
  • Life Sciences › Neuroscience › Cellular and Molecular Neuroscience › Neuroscience and Neuropharmacology Research
Keywords
hippocampus, hippocampal subiculum, gene expression domains, laminar organization, neural tracing, mouse brain atlas
MeSH terms
Animals, Brain, Hippocampus, Nerve Net, Neural Pathways, Neurons, Gene Expression, Mice, Connectome

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