Fig 1: Western blot validation of proteome data.Graphs showing the RNA, RFP, and protein expression levels of selected candidate genes based on RNA-seq, RFP-seq, and LC-MS proteomic analysis. Western blot analysis confirms the proteome data for the selected proteins in 2iL, SL, and EPI states and during 2iL–Sl transition. Candidate proteins included 2iL-specific proteins, BHMT, NQO1, and KRAS; SL-specific protein, S100A6; SL and 2iL-specific protein, ESRRB and a general pluripotency protein (SL, 2iL, and EPI), OCT4. Note that Kras is regulated at the post-translational level.
Fig 2: The effect of T1D on the expression of Diaph1, RAGE, ACTB in mouse SN. A B C The expression of Diaph1, AGER (gene encoding RAGE) and ACTB mRNAs in SN under hypoglycemic milieu vs. control group in two (A), four (B) and six (C) months of the experiment, respectively. Data are expressed as means ± SEM; n = 4 mice in each group. D Immunostaining of Diaph1, RAGE and ACTB under hyperglycemic conditions in mice SN. Negative control (NC) showed no immunostaining. Brown color demonstrated immunoreactive area of stain. Blue color demonstrated hematoxylin staining. Images were taken under 40× objective with 0.75 numerical aperture (40× /0.75). Scale bar = 100 µm. E F G The number of Diaph1, RAGE, ACTB fibers expression/immunoreactivity in diabetic SN as compared to control tissue in two (E), four (F) and six (G) months of the experiment, respectively. Data are expressed as means ± SEM; * P = 0.05, ** P = 0.01; # 0.05 = P = 0.056; n = 4 mice in each group. I Representative blots for Diaph1, PFN1, CML-AGE, HMGB1, S100B, S100A6, SOD1, ACTB and RAGE proteins of control (CTR) and after six months of T1D (STZ; see also supplementary files). Abbreviation: kDa – kilodalton. J The effect of T1D on the relative amount of Diaph1, PFN1, CML-AGE, HMGB1, S100B, S100A6, SOD1, ACTB and RAGE proteins in SN mice. Data are expressed as means ± SEM; * P = 0.05, ** P = 0.01; n = 6 CTR or 7 STZ. H Co-localization (arrows, yellow staining) of Diaph1-ACTB and ACTB-PFN1 in mice SN of T1D. Images were taken under 40× objective with 0.6 numerical aperture (40× /0.6). Scale bar = 20 µm. Abbreviation: CTR – control, STZ – diabetes, # - P = 0.07
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