Journal: bioRxiv
Article Title: Dynamic regulation of the COPII interactome and collagen trafficking by site-specific glycosylation of Sec24D
doi: 10.1101/2025.06.13.659590
Figure Lengend Snippet: A. Domain structure and O-GlcNAc sites of human Sec24D. B. CRISPR strategy to generate Sec24D knock-in cells. C. PCR genotyping of Sec24D WT , Sec24D T9A , and Sec24D S13A SW1353 single cell-derived clones, using primers depicted in B. D. Myc-6xHis tagged endogenous Sec24D was purified from Sec24D WT , Sec24D T9A , and Sec24D S13A cells by tandem myc IP and denaturing Ni-NTA affinity and analyzed by IB. E. Quantification of experiments depicted in D. Signal from O-GlcNAc blots of purified Sec24D was normalized to myc signal, and intensities relative to Sec24D WT were calculated (n = 3). Data were analyzed by one-way ANOVA with post hoc Tukey test. * p < 0.05; ** p < 0.01; ns: not significant. F. Myc-6xHis tagged endogenous Sec24D was purified from Sec24D WT , Sec24D T9A , and Sec24D S13A cells by tandem myc IP and denaturing Ni-NTA affinity at 0 or 5 minutes after collagen release and analyzed by IB. G. Quantification of experiments depicted in F. Signal from O-GlcNAc blots of purified Sec24D was normalized to myc signal, and intensities relative to time-zero were calculated (n = 8). Data were analyzed by Welch’s t -test. * p < 0.05. H. O-GlcNAcylated Sec24D was visualized by PLA in Sec24D WT , Sec24D T9A , and Sec24D S13A cells at 0 or 5 minutes after collagen release. Scale bars: 10 µm. I. Quantification of experiments depicted in H. Left: Total fluorescence intensity (FI) of PLA signal normalized to per-cell area (n = 3). Right: Total FI, normalized to cell area at time-zero (n = 3). Data were analyzed by two-way ANOVA with post hoc Tukey test. * p < 0.05; ** p < 0.01; **** p < 0.0001; ns: not significant. J. Parental SW1353, Sec24D WT , Sec24D T9A , and Sec24D S13A cells were analyzed by PLA for O-GlcNAcylated Sec24D (myc-MultiMab antibodies), and Sec31A or ERGIC53 was detected by IF. Scale bars: 10 µm. K. Quantification of experiments depicted in J. Mander’s overlap coefficients (MOCs) between PLA signals and Sec31A or ERGIC53 was calculated (N = 3). MOC data with Costes p value < 0.95 were deemed to be statistically indistinguishable from random overlap and are displayed as gray dots. One-way ANOVA with post-hoc Tukey test was conducted as statistical analysis. * p < 0.05; **** p < 0.0001; ns: not significant.
Article Snippet: The following antibodies were used: Rabbit anti-collagen I antiserum (LF-68) was a gift from L. Fisher, National Institute of Dental and Craniofacial Research; Rabbit monoclonal anti-Sec24D (D9M7L, #14687), Rabbit polyclonal anti-Sec23A (#8162), Rabbit MultiMab monoclonal mix anti-O-GlcNAc (#82332), Rabbit monoclonal anti-Calnexin (C5C9, #2679), Rabbit monoclonal anti-CD44 (E7K2Y, #37259), Rabbit monoclonal anti-IRS-1 (59G8, #2390), and Rabbit anti-HA (C29F4, #3724) from Cell Signaling Technology; Mouse anti-c-Myc (9E10, #626802), and Mouse anti-O-GlcNAc (RL2, #677902) from BioLegend; Mouse anti-O-GlcNAc (18B10.C7, #MA1-038) from ThermoFisher Scientific; Mouse anti-α-Tubulin (#T6074), Rabbit polyclonal anti-MIA3 (TANGO1) (#HPA055922), Rabbit polyclonal anti-Sec23IP (#HPA038403), and Rabbit polyclonal anti-SVIL (#HPA020138) from Sigma-Aldrich; Rat monoclonal anti-HA (3F10, #11867423001) from Roche; Rabbit polyclonal anti-Sec16A (#A300-648A), and Goat anti-myc tag antibody (#A190-104A) from Bethyl Laboratories; Mouse anti-Sec31A (32, #612351), and Mouse anti-GM130 (35, #610822) from BD Biosciences; Rabbit polyclonal anti-Sec13 (#A11613) from ABclonal; Rabbit polyclonal anti-Sec23B (#NBP2-20279) from Novus Biologicals; Rabbit monoclonal anti-Sec24D (EPR16089, #ab191566), Chicken anti-GFP (#ab13970), Rabbit monoclonal anti-LMAN1 (ERGIC53) antibody (EPR6979, #ab125006) and Rabbit monoclonal anti-MYOF (EPR18887, #ab178386) from Abcam; Mouse anti-Calnexin (2A2C6, #66903-1-Ig) from Proteintech; mouse anti-O-GlcNAc (CTD110.6, #sc-59623), and mouse anti-ERGIC53 (C-6, #sc-365158) from Santa Cruz Biotechnology; anti-procollagen I (PIP, #42024) from QED Bioscience; Goat horseradish peroxidase (HRP)-conjugated anti-mouse IgG (#1030-05), and Goat HRP-conjugated anti-rabbit IgG (#4030-05) from SouthernBiotech; Goat IRDye 800CW-conjugated anti-mouse IgG (#925-32210), and Goat IRDye 800CW-conjugated anti-rabbit IgG (#925-32211) from LI-COR; Goat Alexa Fluor 488-conjugated anti-mouse IgG (A-11001), Goat Alexa Fluor 488-conjugated anti-rabbit IgG (A-11008), Goat Alexa Fluor 488-conjugated anti-chicken IgY (A-11039), Goat Alexa Fluor 594-conjugated anti-mouse IgG (A-11005), Goat Alexa Fluor 594-conjugated anti-rabbit IgG (A-11012), Goat Alexa Fluor 647-conjugated anti-mouse IgG (A-21235), Goat Alexa Fluor 647-conjugated anti-rabbit IgG (A-32733), Goat Alexa Fluor Plus 647-conjugated anti-mouse IgG highly cross-adsorbed (A32728), Goat Alexa Fluor Plus 594-conjugated anti-rat IgG highly cross-adsorbed (A48264), Donkey Alexa Fluor 488-conjugated anti-mouse IgG (A-21202).
Techniques: CRISPR, Knock-In, Derivative Assay, Clone Assay, Purification, Fluorescence