Surfaceome Analysis Protocol for the Identification of Novel Bordetella pertussis Antigens

Methods Mol Biol. 2018:1722:3-20. doi: 10.1007/978-1-4939-7553-2_1.


The bacterial surfaceome, comprising outer membrane-sorted and/or associated (i.e., cell transporters), cell surface-exposed (i.e., adhesins) and extracellularly secreted proteins (i.e., toxins), has been characterized in bacterial pathogens, such as Bordetella pertussis (Bp) to provide information for use in development of diagnostic and prevention strategies. This protein subset has clinical significance, as these bacterial proteins are often associated with attachment to host cells, microbial pathogenesis and antibody-mediated immunity. Here we describe classical surface membrane protein enrichment techniques, followed by proteomic methodologies, such as gel-free protein separation and antibody-affinity capture technologies in combination with nano-liquid chromatography mass spectrometry, for the identification and characterization of Bp surfaceome proteins.

Keywords: Antibody affinity; Bioinformatics; Carbonate extraction; Gel-free; Immunoprecipitation; Mass spectrometry; Membrane proteins; Sample solubilization; nLC-MS/MS.

MeSH terms

  • Amino Acid Sequence
  • Antibody Affinity / immunology
  • Antigens, Bacterial / analysis*
  • Antigens, Bacterial / immunology
  • Bacterial Outer Membrane Proteins / analysis*
  • Bacterial Outer Membrane Proteins / immunology
  • Bordetella pertussis / immunology
  • Bordetella pertussis / isolation & purification*
  • Buffers
  • Carbonates / chemistry
  • Chromatography, Liquid
  • Databases, Protein
  • Immunoprecipitation / methods
  • Proteomics / methods*
  • Tandem Mass Spectrometry


  • Antigens, Bacterial
  • Bacterial Outer Membrane Proteins
  • Buffers
  • Carbonates
  • sodium carbonate