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Proteome-wide selected reaction monitoring assays for the human pathogen Streptococcus pyogenes

Author

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  • Christofer Karlsson

    (Lund University)

  • Lars Malmström

    (Institute of Molecular Systems Biology, ETH Zurich)

  • Ruedi Aebersold

    (Institute of Molecular Systems Biology, ETH Zurich
    Faculty of Science, University of Zurich)

  • Johan Malmström

    (Lund University
    Biognosys AG)

Abstract

Selected reaction monitoring mass spectrometry (SRM-MS) is a targeted proteomics technology used to identify and quantify proteins with high sensitivity, specificity and high reproducibility. Execution of SRM-MS relies on protein-specific SRM assays, a set of experimental parameters that requires considerable effort to develop. Here we present a proteome-wide SRM assay repository for the gram-positive human pathogen group A Streptococcus. Using a multi-layered approach we generated SRM assays for 10,412 distinct group A Streptococcus peptides followed by extensive testing of the selected reaction monitoring assays in >200 different group A Streptococcus protein pools. Based on the number of SRM assay observations we created a rule-based selected reaction monitoring assay-scoring model to select the most suitable assays per protein for a given cellular compartment and bacterial state. The resource described here represents an important tool for deciphering the group A Streptococcus proteome using selected reaction monitoring and we anticipate that concepts described here can be extended to other pathogens.

Suggested Citation

  • Christofer Karlsson & Lars Malmström & Ruedi Aebersold & Johan Malmström, 2012. "Proteome-wide selected reaction monitoring assays for the human pathogen Streptococcus pyogenes," Nature Communications, Nature, vol. 3(1), pages 1-9, January.
    • Handle: RePEc:nat:natcom:v:3:y:2012:i:1:d:10.1038_ncomms2297
    DOI: 10.1038/ncomms2297
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    Cited by:

    1. Lingling An & Nauromal Pookhao & Hongmei Jiang & Jiannong Xu, 2014. "Statistical Approach of Functional Profiling for a Microbial Community," PLOS ONE, Public Library of Science, vol. 9(9), pages 1-11, September.

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