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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.

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

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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