PUBLICATION
Multi-species single-cell transcriptomic analysis of ocular compartment regulons
- Authors
- Gautam, P., Hamashima, K., Chen, Y., Zeng, Y., Makovoz, B., Parikh, B.H., Lee, H.Y., Lau, K.A., Su, X., Wong, R.C.B., Chan, W.K., Li, H., Blenkinsop, T.A., Loh, Y.H.
- ID
- ZDB-PUB-210930-1
- Date
- 2021
- Source
- Nature communications 12: 5675 (Journal)
- Registered Authors
- Chan, Woon-Khiong
- Keywords
- none
- MeSH Terms
-
- Adult
- Aged
- Aged, 80 and over
- Animals
- Cell Differentiation/genetics*
- Gene Expression Profiling/methods
- Humans
- Middle Aged
- Retina/cytology
- Retina/metabolism*
- Retinal Ganglion Cells/metabolism*
- Sequence Analysis, RNA/methods
- Single-Cell Analysis/methods*
- Species Specificity
- Swine
- Transcriptome/genetics*
- PubMed
- 34584087 Full text @ Nat. Commun.
Citation
Gautam, P., Hamashima, K., Chen, Y., Zeng, Y., Makovoz, B., Parikh, B.H., Lee, H.Y., Lau, K.A., Su, X., Wong, R.C.B., Chan, W.K., Li, H., Blenkinsop, T.A., Loh, Y.H. (2021) Multi-species single-cell transcriptomic analysis of ocular compartment regulons. Nature communications. 12:5675.
Abstract
The retina is a widely profiled tissue in multiple species by single-cell RNA sequencing studies. However, integrative research of the retina across species is lacking. Here, we construct the first single-cell atlas of the human and porcine ocular compartments and study inter-species differences in the retina. In addition to that, we identify putative adult stem cells present in the iris tissue. We also create a disease map of genes involved in eye disorders across compartments of the eye. Furthermore, we probe the regulons of different cell populations, which include transcription factors and receptor-ligand interactions and reveal unique directional signalling between ocular cell types. In addition, we study conservation of regulons across vertebrates and zebrafish to identify common core factors. Here, we show perturbation of KLF7 gene expression during retinal ganglion cells differentiation and conclude that it plays a significant role in the maturation of retinal ganglion cells.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping