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PROPHECY SIGNED

Translational control in infection biology: riboproteogenomics of bacterial pathogens

Total Cost €

0

EC-Contrib. €

0

Partnership

0

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 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.

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

Project "PROPHECY" data sheet

The following table provides information about the project.

Coordinator
UNIVERSITEIT GENT 

Organization address
address: SINT PIETERSNIEUWSTRAAT 25
city: GENT
postcode: 9000
website: http://www.ugent.be

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

 Partnership

Take a look of project's partnership.

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

Map

 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.

 Publications

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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