A Derived Positional Mapping of Inhibitory Subtypes in the Somatosensory Cortex

A Derived Positional Mapping of Inhibitory Subtypes in the Somatosensory Cortex

Obtaining a catalog of cell types is a fundamental building block for understanding the brain. The ideal classification of cell-types is based on the profile of molecules expressed by a cell, in particular, the profile of genes expressed. One strategy is, therefore, to obtain as many single-cell tra...

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Bibliographic Details
Published in:Frontiers in neuroanatomy Vol. 13; p. 78
Main Authors: Keller, Daniel, Meystre, Julie, Veettil, Rahul V, Burri, Olivier, Guiet, Romain, Schürmann, Felix, Markram, Henry
Format: Journal Article
Language:English
Published: Switzerland Frontiers Research Foundation 06-08-2019
Frontiers Media S.A
Subjects:
Brain
cell density
cell types
Classification
composition
Cortex (somatosensory)
Gene expression
Immunohistochemistry
inhibitory interneurons
Laboratories
Morphology
Nervous system
Neurons
Neuropeptides
Neuroscience
Polymerase chain reaction
Proteins
rat brain
Reverse transcription
Ribonucleic acid
RNA
somatosensory cortex
Spatial distribution
Switzerland
cell density
composition
cell types
rat brain
inhibitory interneurons
cell counting
somatosensory cortex
neuronal distribution
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Summary:Obtaining a catalog of cell types is a fundamental building block for understanding the brain. The ideal classification of cell-types is based on the profile of molecules expressed by a cell, in particular, the profile of genes expressed. One strategy is, therefore, to obtain as many single-cell transcriptomes as possible and isolate clusters of neurons with similar gene expression profiles. In this study, we explored an alternative strategy. We explored whether cell-types can be algorithmically derived by combining protein tissue stains with transcript expression profiles. We developed an algorithm that aims to distribute cell-types in the different layers of somatosensory cortex of the developing rat constrained by the tissue- and cellular level data. We found that the spatial distribution of major inhibitory cell types can be approximated using the available data. The result is a depth-wise atlas of inhibitory cell-types of the rat somatosensory cortex. In principle, any data that constrains what can occur in a particular part of the brain can also strongly constrain the derivation of cell-types. This draft inhibitory cell-type mapping is therefore dynamic and can iteratively converge towards the ground truth as further data is integrated.
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These authors have contributed equally to this work
Edited by: Marcello Rosa, Monash University, Australia
Reviewed by: Hiroyuki Hioki, Juntendo University, Japan; Nafiseh Atapour, Monash University, Australia
ISSN:1662-5129
1662-5129
DOI:10.3389/fnana.2019.00078