Kevin B. Emmerich, Steven L. Walker, Guohua Wang, David T. White, Fang Wang, Yong Teng, Anneliese Ceisel, Zeeshaan Chunawala, Gianna Graziano, Saumya Nimmagadda, Meera T. Saxena, Jiang Qian, and Jeff S. Mumm
Retinal Müller glia (MG) can act as stem-like cells to generate new neurons in both zebrafish in mice. In zebrafish, retinal regeneration is innate and robust, resulting in the replacement of lost neurons and restoration of visual function. In mice, exogenous stimulation of MG is required to reveal a dormant and, to date, limited regenerative capacity. Zebrafish studies have been key in revealing factors that promote regenerative responses in the mammalian eye. Increased understanding of how the regenerative potential of MG is regulated in zebrafish may therefore aid efforts to promote retinal repair therapeutically. Developmental signaling pathways are known to coordinate regeneration following widespread retinal cell loss. In contrast, less is known about how regeneration is regulated in the context of retinal degenerative disease, i.e., following the loss of specific retinal cell types. To address this knowledge gap, we compared transcriptomic changes between two selective cell ablation paradigms, targeted loss of rod photoreceptors or bipolar cells. Our study spanned twelve time points encompassing the entire degenerative and regenerative process of each targeted cell type. 2,531 differentially expressed genes (DEGs) were identified. Interestingly, the majority of DEGs were paradigm specific, including during MG activation phases, suggesting the nature of the injury/cell loss informs the regenerative process from initiation onward. For example, early modulation of Notch signaling was implicated in the rod but not bipolar cell ablation paradigm. Components of JAK/STAT signaling were activated in both paradigms but were more strongly induced during rod cell regeneration. We functionally validated the role of JAK/STAT signaling during rod cell regeneration using CRISPR/Cas9-based knockdown ofstat3which inhibited both MG proliferation and rod cell regeneration kinetics. Additionally, although more than a third of all DEGs are implicated as immune-system regulators, individual immune-related factors were largely paradigm specific. These data support emerging evidence that discrete “fate-biased” regenerative processes follow from selective retinal cell loss.Author SummaryBlinding diseases are linked to the loss of specific types of neurons in the retina. In humans, this eventually leads to loss of sight. In zebrafish, however, lost retinal neurons are regenerated resulting in restored vision. Our lab has developed zebrafish models that allow us to selectively induce the loss of disease-relevant retinal neurons, thereby allowing us to study how individual retinal cell types are regenerated. Here, to better understand how the regeneration of individual cell types is regulated, we compared gene expression changes occurring during the loss and regeneration of two different retinal cell types, rod photoreceptors and bipolar interneurons. We found that the majority of gene changes were specific to each cell type studied, providing strong evidence that genetic programs underlying stem cell activation in zebrafish vary depending on the cell type damaged. We also found that the immune system was strongly implicated as a regulator of regeneration in both models, but that individual genes immune-related genes tended to be more strongly associated with one of the two models.. We hope that a better understanding of how retinal cell regeneration is regulated in zebrafish will aid efforts to develop regenerative therapeutics designed to restore sight to patients who have lost their vision.