Shared and distinct transcriptomic cell types across neocortical areas
By
Bosiljka Tasic,
Zizhen Yao,
Kimberly A Smith,
Lucas T Graybuck,
Thuc Nghi Nguyen,
Darren Bertagnolli,
Jeff Goldy,
Emma Garren,
Michael N Economo,
Sarada Viswanathan,
Osnat Penn,
Trygve E. Bakken,
Vilas Menon,
Jeremy Andrew Miller,
Olivia C Fong,
Karla E. Hirokawa,
Kanan Lathia,
Christine Rimorin,
Michael Tieu,
Rachael Larsen,
Tamara Casper,
Eliza Barkan,
Matthew Kroll,
Seana Parry,
Nadiya V Shapovalova,
Daniel Hirchstein,
Julie Pendergraft,
Tae Kyung Kim,
Aaron Szafer,
Nick Dee,
Peter Groblewski,
Ian Wickersham,
Ali Cetin,
Julie A Harris,
Boaz P. Levi,
Susan Sunkin,
Linda Madisen,
Tanya L. Daigle,
Loren Looger,
Amy Bernard,
John Phillips,
Ed S. Lein,
Michael Hawrylycz,
Karel Svoboda,
Allan R. Jones,
Christof Koch,
Hongkui Zeng
Posted 06 Dec 2017
bioRxiv DOI: 10.1101/229542
(published DOI: 10.1038/s41586-018-0654-5)
Neocortex contains a multitude of cell types segregated into layers and functionally distinct regions. To investigate the diversity of cell types across the mouse neocortex, we analyzed 12,714 cells from the primary visual cortex (VISp), and 9,035 cells from the anterior lateral motor cortex (ALM) by deep single-cell RNA-sequencing (scRNA-seq), identifying 116 transcriptomic cell types. These two regions represent distant poles of the neocortex and perform distinct functions. We define 50 inhibitory transcriptomic cell types, all of which are shared across both cortical regions. In contrast, 49 of 52 excitatory transcriptomic types were found in either VISp or ALM, with only three present in both. By combining single cell RNA-seq and retrograde labeling, we demonstrate correspondence between excitatory transcriptomic types and their region-specific long-range target specificity. This study establishes a combined transcriptomic and projectional taxonomy of cortical cell types from functionally distinct regions of the mouse cortex.
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