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Surface Proteome Biotinylation Combined with Bioinformatic Tools as a Strategy for Predicting Pathogen Interacting Proteins

  • Anita HorvatićEmail author
  • Josipa Kuleš
  • Nicolas Guillemin
  • Franjo Martinković
  • Iva Štimac
  • Vladimir Mrljak
  • Mangesh Bhide
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 1734)

Abstract

Constant advancements in methodology and mass spectrometry instrumentation, genome sequencing and bioinformatic tools have enabled the identification of numerous pathogen proteomes. Identifying the pathogen interacting proteins by means of high-throughput techniques is key for understanding pathogen invasion and survival mechanisms and in such a way proposing specific proteins as pharmaceutical targets. Herein we describe the methodology for the enrichment and identification of pathogen surface proteome using cell surface protein biotinylation followed by LC-MS/MS and bioinformatic analyses of such data. This strategy is to be employed for the determination of protein subcellular localization and prediction of potential pathogen interacting proteins.

Key words

Biotinylation LC-MS Surface proteome Bioinformatics Subcellular localization Interacting proteins DAVID CELLO 

Notes

Acknowledgments

The authors acknowledge the European Commission for funding the VetMedZg ERA chair team (ERA Chair Initiative). We also acknowledge Croatian Science Foundation (project 3421) for supporting FM, HRZZ (project 4135) for supporting VM; and APVV-14-218, VEGA1/0258/15, and VEGA 1/0261/15 for supporting MB.

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Copyright information

© Springer Science+Business Media, LLC 2018

Authors and Affiliations

  • Anita Horvatić
    • 1
    Email author
  • Josipa Kuleš
    • 1
  • Nicolas Guillemin
    • 1
  • Franjo Martinković
    • 2
  • Iva Štimac
    • 2
  • Vladimir Mrljak
    • 1
  • Mangesh Bhide
    • 1
    • 3
    • 4
  1. 1.ERA Chair VetMedZg Project, Internal Diseases Clinic, Faculty of Veterinary MedicineUniversity of ZagrebZagrebCroatia
  2. 2.Department for Parasitology and Parasitic Diseases with Clinics, Faculty of Veterinary MedicineUniversity of ZagrebZagrebCroatia
  3. 3.Laboratory of Biomedical Microbiology and ImmunologyUniversity of Veterinary Medicine and PharmacyKosiceSlovakia
  4. 4.Institute of NeuroimmunologySlovakia Academy of SciencesBratislavaSlovakia

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