A single cell genomics atlas of the Drosophila larval eye reveals distinct photoreceptor developmental timelines

Komal Kumar Bollepogu Raja, Kelvin Yeung, Yoon-Kyung Shim, Yumei Li, Rui Chen and Graeme Mardon ()
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Komal Kumar Bollepogu Raja: Baylor College of Medicine, One Baylor Plaza
Kelvin Yeung: Baylor College of Medicine, One Baylor Plaza
Yoon-Kyung Shim: Baylor College of Medicine, One Baylor Plaza
Yumei Li: Baylor College of Medicine, One Baylor Plaza
Rui Chen: Baylor College of Medicine, One Baylor Plaza
Graeme Mardon: Baylor College of Medicine, One Baylor Plaza

Nature Communications, 2023, vol. 14, issue 1, 1-17

Abstract: Abstract The Drosophila eye is a powerful model system to study the dynamics of cell differentiation, cell state transitions, cell maturation, and pattern formation. However, a high-resolution single cell genomics resource that accurately profiles all major cell types of the larval eye disc and their spatiotemporal relationships is lacking. Here, we report transcriptomic and chromatin accessibility data for all known cell types in the developing eye. Photoreceptors appear as strands of cells that represent their dynamic developmental timelines. As photoreceptor subtypes mature, they appear to assume a common transcriptomic profile that is dominated by genes involved in axon function. We identify cell type maturation genes, enhancers, and potential regulators, as well as genes with distinct R3 or R4 photoreceptor specific expression. Finally, we observe that the chromatin accessibility between cones and photoreceptors is distinct. These single cell genomics atlases will greatly enhance the power of the Drosophila eye as a model system.

Date: 2023
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DOI: 10.1038/s41467-023-43037-0

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