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Translational control in infection biology: riboproteogenomics of bacterial pathogens

Total Cost €


EC-Contrib. €






 PROPHECY project word cloud

Explore the words cloud of the PROPHECY project. It provides you a very rough idea of what is the project "PROPHECY" about.

pathogens    identification    unraveling    my    bacterial    enrichment    permitting    proteoforms    reading    gene    diagnostics    deep    edge    polypeptides    infection    stresses    subcellular    models    establishment    successful    translation    ribosomes    unsatisfactory    seps    complexity    selective    endeavor    isolation    diseases    frames    proven    simultaneously    proteoform    context    terminal    innovative    translational    localization    cutting    transcriptional    systematic    dual    maps    stability    small    proxeome    virulence    ribo    complementary    encoded    proteomics    expression    proteogenomic    time    interaction    sequencing    first    termini    enabled    repertoire    multiple    revealed    seq    actual    view    alternative    employed    toolset    nascent    dynamic    host    cell    previously    therapeutics    proteogenomics    pathogen    strategy    proteome    translatome    genome    protein    infectious    unidentified    transcript    strategies    surveys    orf    unexplored    mammalian   

Project "PROPHECY" data sheet

The following table provides information about the project.


Organization address
city: GENT
postcode: 9000

contact info
title: n.a.
name: n.a.
surname: n.a.
function: n.a.
email: n.a.
telephone: n.a.
fax: n.a.

 Coordinator Country Belgium [BE]
 Total cost 1˙498˙625 €
 EC max contribution 1˙498˙625 € (100%)
 Programme 1. H2020-EU.1.1. (EXCELLENT SCIENCE - European Research Council (ERC))
 Code Call ERC-2018-STG
 Funding Scheme ERC-STG
 Starting year 2018
 Duration (year-month-day) from 2018-11-01   to  2023-10-31


Take a look of project's partnership.

# participants  country  role  EC contrib. [€] 
1    UNIVERSITEIT GENT BE (GENT) coordinator 1˙498˙625.00


 Project objective

My recent findings revealed translation of numerous previously unidentified (small) open reading frames and expression of alternative N-terminal proteoforms when studying bacterial translation. This proposal aims at unraveling the repertoire of bacterial pathogen proteoforms employed to establish a successful infection in a mammalian host cell.

While deep sequencing has enabled the study of gene expression at the transcript level in both pathogen and host simultaneously, the depth of sequencing has so far proven to be unsatisfactory. Moreover, the study of bacterial proteome changes upon infection remains highly unexplored because of the higher proteome complexity of the host cell compared to the pathogen. These challenges clearly stresses the need for novel strategies based on complementary proteogenomics approaches enabling translation control studies in bacterial pathogens in a host context .

I here propose the development and application of a complementary cutting-edge proteogenomic toolset which will enable for the first time targeted systematic genome- and proteome-wide surveys of bacterial transcriptional and translational activity during actual host cell infection. This ambitious endeavor will lead to:

I) Establishment of dual Ribo-seq that allows the selective isolation of host or bacterial ribosomes, enabling to study the bacterial translatome in a host cell context.

II) Development of tailored proteomics strategies permitting the selective isolation of (nascent) bacterial protein N-termini and enrichment of bacterial small ORF-encoded polypeptides (SEPs). Further, proteome-wide subcellular localization and protein stability studies will provide a dynamic view on bacterial protein expression.

II) Bacterial proteoform interaction maps by the development of an innovative proxeome strategy.

The identification of new pathogen virulence factors will contribute to the development of therapeutics and diagnostics for multiple models of infectious diseases.


year authors and title journal last update
List of publications.
2019 Steven Verbruggen, Elvis Ndah, Wim Van Criekinge, Siegfried Gessulat, Bernhard Kuster, Mathias Wilhelm, Petra Van Damme, Gerben Menschaert
PROTEOFORMER 2.0: further developments in the ribosome profiling-assisted proteogenomic hunt for new proteoforms
published pages: mcp.RA118.001218, ISSN: 1535-9476, DOI: 10.1074/mcp.ra118.001218
Molecular & Cellular Proteomics 2019-06-06

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