Simultaneous N-deglycosylation and digestion of human and chicken proteins on S-Traps

ABSTRACT: N-linked glycosylation is an important post-translational modification that is difficult to identify and quantify in traditional bottom-up proteomics experiments. Enzymatic deglycosylation of proteins by peptide:N-glycosidase F (PNGase F) prior to digestion and subsequent mass spectrometry analysis has been shown to improve coverage of various N-linked glycopeptides, but inclusion of this step may add up to a day to an already lengthy sample preparation process. An efficient way to integrate deglycosylation with bottom-up proteomics would be a valuable contribution to the glycoproteomics field. Here, we demonstrate a proteomics workflow in which deglycosylation and proteolytic digestion of samples occurs simultaneously using suspension trapping (S-Trap). This approach adds no additional time to standard digestion protocols. Applying this sample preparation strategy to a human serum sample, we demonstrate improved identification of potential N-glycosylated peptides in deglycosylated samples compared with non-deglycosylated samples, identifying 156 unique peptides that contain the N-glycosylation motif (Asparagine–X–Serine/Threonine), the deamidation modification characteristic of PNGase F, and an increase in peptide intensity over a control sample. We expect that this rapid sample preparation strategy will assist in the identification and quantification of both known and potential glycoproteins.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Homo Sapiens (human) Gallus Gallus (chicken)

SUBMITTER: Rebecca Whelan  

LAB HEAD: Rebecca Whelan

PROVIDER: PXD037921 | Pride | 2023-02-09

REPOSITORIES: Pride