HCA Data Explorer

Molecular and cellular evolution of the primate dorsolateral prefrontal cortex.

Updated September 22, 2023

The granular dorsolateral prefrontal cortex (dlPFC) is an evolutionary specialization of primates that is centrally involved in cognition. We assessed more than 600,000 single-nucleus transcriptomes from adult human, chimpanzee, macaque, and marmoset dlPFC. Although most cell subtypes defined transcriptomically are conserved, we detected several that exist only in a subset of species as well as substantial species-specific molecular differences across homologous neuronal, glial, and non-neural subtypes. The latter are exemplified by human-specific switching between expression of the neuropeptide somatostatin and tyrosine hydroxylase, the rate-limiting enzyme in dopamine production in certain interneurons. The above molecular differences are also illustrated by expression of the neuropsychiatric risk gene FOXP2, which is human-specific in microglia and primate-specific in layer 4 granular neurons. We generated a comprehensive survey of the dlPFC cellular repertoire and its shared and divergent features in anthropoid primates.

Nenad SestanDepartment of Neuroscience, Yale School of Medicine, New Haven, CT 06510, USA.nenad.sestan@yale.edu
Shaojie Ma1
Mario Skarica1
Qian Li1
Chuan Xu1
Ryan D Risgaard2
Andrew T N Tebbenkamp1
Xoel Mato-Blanco3
Rothem Kovner1
Željka Krsnik1
Xabier de Martin3
Victor Luria1
Xavier Martí-Pérez3
Dan Liang1
Amir Karger4
Danielle K Schmidt2
Zachary Gomez-Sanchez2
Cai Qi1
Kevin T Gobeske5
Sirisha Pochareddy1
Ashwin Debnath2
Cade J Hottman2
Joshua Spurrier6
Leon Teo7
Anthony G Boghdadi7
Jihane Homman-Ludiye7
John J Ely8
Etienne W Daadi9
Da Mi10
Marcel Daadi9
Oscar Marín11
Patrick R Hof12
Mladen-Roko Rasin13
James Bourne7
Chet C Sherwood14
Gabriel Santpere1
Matthew J Girgenti15
Stephen M Strittmatter1
André M M Sousa2
Nenad Sestan1
1Department of Neuroscience, Yale School of Medicine, New Haven, CT 06510, USA.
2Waisman Center, School of Medicine and Public Health, University of Wisconsin-Madison, Madison, WI 53705, USA.
3Neurogenomics Group, Research Programme on Biomedical Informatics (GRIB), Hospital del Mar Medical Research Institute (IMIM), MELIS, Universitat Pompeu Fabra, 08003 Barcelona, Catalonia, Spain.
4IT-Research Computing, Harvard Medical School, Boston, MA, USA.
5Division of Neurocritical Care and Emergency Neurology, Department of Neurology, Yale School of Medicine, New Haven, CT 06510, USA.
6Program in Cellular Neuroscience, Neurodegeneration and Repair, Department of Neurology, Yale School of Medicine, New Haven, CT 06536, USA.
7Australian Regenerative Medicine Institute, 15 Innovation Walk, Monash University, Clayton, VIC 3800, Australia.
8MAEBIOS, Alamogordo, NM 88310, USA.
9Southwest National Primate Research Center, Texas Biomedical Research Institute, San Antonio, TX, USA.
10Tsinghua-Peking Center for Life Sciences, IDG/McGovern Institute for Brain Research, School of Life Sciences, Tsinghua University, Beijing 100084, China.
11Centre for Developmental Neurobiology, Institute of Psychiatry, Psychology and Neuroscience, King's College London, London SE1 1UL, UK.
12Nash Family Department of Neuroscience and Friedman Brain Institute, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
13Department of Neuroscience and Cell Biology, Robert Wood Johnson Medical School, Rutgers University, Piscataway, NJ 08854, USA.
14Department of Anthropology and Center for the Advanced Study of Human Paleobiology, The George Washington University, Washington, DC, USA.
15Department of Psychiatry, Yale School of Medicine, New Haven, CT 06510, USA.
Rachel Schwartz

To reference this project, please use the following link:

https://explore.data.humancellatlas.org/projects/421bc6cd-bbb4-4398-ac60-a32ea94f02ae

Supplementary links are provided by contributors and represent items such as additional data which can’t be hosted here; code that was used to analyze this data; or tools and visualizations associated with this specific dataset.

1.https://assets.nemoarchive.org/dat-zkgd0it
GEO Series Accessions:

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Analysis Portals

CZ CELLxGENECZ CELLxGENE

Project Label

Strittmatter-Human-ATACseq

Species

Homo sapiens

Sample Type

specimens

Anatomical Entity

brain

Organ Part

dorsolateral prefrontal cortex

Selected Cell Types

Unspecified

Disease Status (Specimen)

normal

Disease Status (Donor)

normal

Development Stage

human adult stage

Library Construction Method

10x multiome

Nucleic Acid Source

single nucleus

Paired End

false

Analysis Protocol

analysis_protocol_1, analysis_protocol_2

File Format

4 file formats

Cell Count Estimate

98.5k

Donor Count

5
fastq.gz40 file(s)mtx.gz2 file(s)txt.gz3 file(s)xlsx1 file(s)