RT Journal Article
SR Electronic
T1 Large-scale unsupervised discovery of excitatory morphological cell types in mouse visual cortex
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2022.12.22.521541
DO 10.1101/2022.12.22.521541
A1 Marissa A. Weis
A1 Stelios Papadopoulos
A1 Laura Hansel
A1 Timo Lüddecke
A1 Brendan Celii
A1 Paul G. Fahey
A1 J. Alexander Bae
A1 Agnes L. Bodor
A1 Derrick Brittain
A1 JoAnn Buchanan
A1 Daniel J. Bumbarger
A1 Manuel A. Castro
A1 Erick Cobos
A1 Forrest Collman
A1 Nuno Maçarico da Costa
A1 Sven Dorkenwald
A1 Leila Elabbady
A1 Emmanouil Froudarakis
A1 Akhilesh Halageri
A1 Zhen Jia
A1 Chris Jordan
A1 Dan Kapner
A1 Nico Kemnitz
A1 Sam Kinn
A1 Kisuk Lee
A1 Kai Li
A1 Ran Lu
A1 Thomas Macrina
A1 Gayathri Mahalingam
A1 Eric Mitchell
A1 Shanka Subhra Mondal
A1 Shang Mu
A1 Barak Nehoran
A1 Saumil Patel
A1 Xaq Pitkow
A1 Sergiy Popovych
A1 R. Clay Reid
A1 Casey M. Schneider-Mizell
A1 H. Sebastian Seung
A1 William Silversmith
A1 Fabian H. Sinz
A1 Marc Takeno
A1 Russel Torres
A1 Nicholas L. Turner
A1 William Wong
A1 Jingpeng Wu
A1 Wenjing Yin
A1 Szi-chieh Yu
A1 Jacob Reimer
A1 Andreas S. Tolias
A1 Alexander S. Ecker
YR 2022
UL http://biorxiv.org/content/early/2022/12/22/2022.12.22.521541.abstract
AB Neurons in the neocortex exhibit astonishing morphological diversity which is critical for properly wiring neural circuits and giving neurons their functional properties. The extent to which the morphological diversity of excitatory neurons forms a continuum or is built from distinct clusters of cell types remains an open question. Here we took a data-driven approach using graph-based machine learning methods to obtain a low-dimensional morphological “bar code” describing more than 30,000 excitatory neurons in mouse visual areas V1, AL and RL that were reconstructed from a millimeter scale serial-section electron microscopy volume. We found a set of principles that captured the morphological diversity of the dendrites of excitatory neurons. First, their morphologies varied with respect to three major axes: soma depth, total apical and basal skeletal length. Second, neurons in layer 2/3 showed a strong trend of a decreasing width of their dendritic arbor and a smaller tuft with increasing cortical depth. Third, in layer 4, atufted neurons were primarily located in the primary visual cortex, while tufted neurons were more abundant in higher visual areas. Fourth, we discovered layer 4 neurons in V1 on the border to layer 5 which showed a tendency towards avoiding deeper layers with their dendrites. In summary, excitatory neurons exhibited a substantial degree of dendritic morphological variation, both within and across cortical layers, but this variation mostly formed a continuum, with only a few notable exceptions in deeper layers.Competing Interest StatementThe authors have declared no competing interest.