Skip to main content
. Author manuscript; available in PMC: 2024 Jul 15.
Published in final edited form as: Brain Res. 2023 Apr 28;1811:148377. doi: 10.1016/j.brainres.2023.148377

Figure 1. Analysis of pan-RGC, pan-neuronal, ipRGC, and microglia/macrophage gene markers in scRNA-seq datasets from different conditions and cell types.

Figure 1.

(A-H) Pan-RGC gene markers (A-D) are enriched in Tran et al. (2019) uninjured and injured RGCs, including in the αRGC subset, but with an exception for Rbpms (A) are not expressed in the microglia/macrophages (Mg/Mp). IpRGC markers (E-F) are not enriched in Li et al. (2022) or Jacobi et al. (2022) cells, but are expressed in non-αRGCs isolated by ourselves (Rheaume et al., 2023). Neuronal-specific (G-H) gene markers are also enriched in axon-regenerating RGCs isolated by Jacobi et al. (2022) and ourselves (Rheaume et al., 2023) but are absent from the majority of presumed RGC cells isolated by Li et al. (2022), with an exception for Rbpms (A) which is also enriched in the Rbpms+ subpopulation of microglia/macrophages. Tubb3 (G) is enriched in uninjured and injured untreated RGCs (Tran et al., 2019), and in axon-regenerating RGCs isolated by ourselves (Rheaume et al., 2023).

(I-M) Established microglia/macrophage markers, Iba1 (I), Cd45 (J), Cd14 (K), Cd16 (L), and Cx3cr1 (M), are enriched in all microglia/macrophages (regardless of Rbpms expression) and in the presumed RGC cells isolated by Li et al. (2022), but not enriched in isolated RGCs from any other condition/group.

(N-S) UMAPs of scRNA-seq-profiled retinal microglia/macrophages after optic nerve injury show that, established microglia/macrophage markers, Iba1 (N), Cd45 (O), Cd14 (P), Cd16 (Q), Cx3cr1 (R), and Spp1 (S), between them are expressed in all (and co-expressed in most of) the microglia/macrophages we isolated.

(T-V) UMAPs of scRNA-seq-profiled retinal microglia/macrophages after optic nerve injury show that, Rbpms is expressed in a subpopulation of these cells (T), which co-express Iba1 and/or Cd14 microglia/macrophage markers (U), and nearly half of them do not express Pten (V).