Molecular Classification and Comparative Taxonomics of Foveal and Peripheral Cells in Primate Retina (Foveal horizontal cell)
Yi-Rong Peng, Karthik Shekhar, Wenjun Yan, Dustin Herrmann, Anna Sappington, Greg S. Bryman, Tavé van Zyl, Aviv Regev, Michael Tri. H. Do, Joshua R. Sanes
Study ID
SCP212_fov_HC
Total cells
1,954
Abtract
High acuity vision in primates, including humans, is mediated by a small central retinal region called the fovea. As more accessible organisms lack a fovea, its specialized function and its dysfunction in ocular diseases remain poorly understood. We used 165,000 single-cell RNA-seq profiles to generate comprehensive cellular taxonomies of macaque fovea and peripheral retina. More than 80% of >60 cell types match between the two regions, but exhibit substantial differences in proportions and gene expression, some of which we relate to functional differences. Comparison of macaque retinal types with those of mice reveals that interneuron types are tightly conserved. In contrast, projection neuron types and programs diverge, despite exhibiting conserved transcription factor codes. Key macaque types are conserved in humans, allowing mapping of cell-type and region-specific expression of >190 genes associated with 7 human retinal diseases. Our work provides a framework for comparative single-cell analysis across tissue regions and species.
Age (years)
3-9
1954 cells
Author's cell type
Horizontal cell
1954 cells
Author's sub cell type
H1
1511 cells
H2
443 cells
Batch id
M4Fovea1
183 cells
M3Fovea2
175 cells
M4Fovea3
175 cells
M4Fovea2
170 cells
M3Fovea1
161 cells
M3Fovea3
92 cells
M1Fovea4
88 cells
M1Fovea2
77 cells
M1Fovea7
76 cells
M2Fovea8
74 cells
M1Fovea1
72 cells
M2Fovea4
71 cells
M2Fovea5
71 cells
M2Fovea7
69 cells
M2Fovea3
63 cells
M1Fovea5
62 cells
M1Fovea6
60 cells
M2Fovea2
60 cells
M2Fovea6
53 cells
M1Fovea8
43 cells
M2Fovea1
40 cells
M1Fovea3
19 cells
Condition
normal
1954 cells
Gender
male
1954 cells
Quantification
Cell Ranger v2.1.0
1954 cells
Sampling technique
surgical resection
1954 cells
Sequencing platform
10X Chromium 3' v2
1954 cells
Species
Macaca fascicularis
1954 cells
Storage technique
fresh
1954 cells
Tissue
Fovea
1954 cells
