Solid-Phase Peptide Capture and Release for Bulk and Single-Molecule Proteomics

ACS Chem Biol. 2020 Jun 19;15(6):1401-1407. doi: 10.1021/acschembio.0c00040. Epub 2020 May 14.

Abstract

The field of proteomics has expanded recently with more sensitive techniques for the bulk measurement of peptides as well as single-molecule techniques. One limiting factor for some of these methods is the need for multiple chemical derivatizations and highly pure proteins free of contaminants. We demonstrate a solid-phase capture-release strategy suitable for the proteolysis, purification, and subsequent chemical modification of peptides. We use this resin on an HEK293T cell lysate and perform one-pot proteolysis, capture, and derivatization to survey peptide capture biases from over 40 000 unique peptides from a cellular proteome. We also show that this capture can be reversed in a traceless manner, such that it is amenable for single-molecule proteomics techniques. With this technique, we perform a fluorescent labeling and C-terminal derivatization on a peptide and subject it to fluorosequencing, demonstrating that washing the resin is sufficient to remove excess dyes and other reagents prior to single-molecule protein sequencing.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Aldehydes / chemistry
  • Amino Acid Sequence
  • HEK293 Cells
  • Humans
  • Mass Spectrometry / methods
  • Peptides / analysis
  • Peptides / isolation & purification*
  • Proteolysis
  • Proteome / analysis
  • Proteome / isolation & purification
  • Proteomics / methods*
  • Sequence Analysis, Protein / methods
  • Solid Phase Extraction / methods*

Substances

  • Aldehydes
  • Peptides
  • Proteome