1. Reconstruction of neocortex: Organelles, compartments, cells, circuits, and activity
- Author
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Nicholas L. Turner, Thomas Macrina, J. Alexander Bae, Runzhe Yang, Alyssa M. Wilson, Casey Schneider-Mizell, Kisuk Lee, Ran Lu, Jingpeng Wu, Agnes L. Bodor, Adam A. Bleckert, Derrick Brittain, Emmanouil Froudarakis, Sven Dorkenwald, Forrest Collman, Nico Kemnitz, Dodam Ih, William M. Silversmith, Jonathan Zung, Aleksandar Zlateski, Ignacio Tartavull, Szi-chieh Yu, Sergiy Popovych, Shang Mu, William Wong, Chris S. Jordan, Manuel Castro, JoAnn Buchanan, Daniel J. Bumbarger, Marc Takeno, Russel Torres, Gayathri Mahalingam, Leila Elabbady, Yang Li, Erick Cobos, Pengcheng Zhou, Shelby Suckow, Lynne Becker, Liam Paninski, Franck Polleux, Jacob Reimer, Andreas S. Tolias, R. Clay Reid, Nuno Maçarico da Costa, and H. Sebastian Seung
- Subjects
Organelles ,Mice ,Microscopy, Electron ,Pyramidal Cells ,Synapses ,Animals ,Neocortex ,Article ,General Biochemistry, Genetics and Molecular Biology - Abstract
We assembled a semi-automated reconstruction of L2/3 mouse primary visual cortex from ~250×140×90 μm(3) of electron microscopic images, including pyramidal and non-pyramidal neurons, astrocytes, microglia, oligodendrocytes and precursors, pericytes, vasculature, nuclei, mitochondria, and synapses. Visual responses of a subset of pyramidal cells are included. The data are publicly available, along with tools for programmatic and three-dimensional interactive access. Brief vignettes illustrate the breadth of potential applications relating structure to function in cortical circuits and neuronal cell biology. Mitochondria and synapse organization are characterized as a function of path length from the soma. Pyramidal connectivity motif frequencies are predicted accurately using a configuration model of random graphs. Pyramidal cells receiving more connections from nearby cells exhibit stronger and more reliable visual responses. Sample code shows data access and analysis.
- Published
- 2022
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