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See detailPREDetector 2.0: Online and Enhanced Version of the Prokaryotic Regulatory Elements Detector Tool
Tocquin, Pierre ULg; Naomé, Aymeric ULg; Jourdan, Samuel ULg et al

in bioRxiv (2016)

In the era that huge numbers of microbial genomes are being released in the databases, it becomes increasingly important to rapidly mine genes as well as predict the regulatory networks that control their ... [more ▼]

In the era that huge numbers of microbial genomes are being released in the databases, it becomes increasingly important to rapidly mine genes as well as predict the regulatory networks that control their expression. To this end, we have developed an improved and online version of the PREDetector software aimed at identifying putative transcription factor-binding sites (TFBS) in bacterial genomes. The original philosophy of PREDetector 1.0 is maintained, i.e. to allow users to freely fix the DNA-motif screening parameters, and to provide a statistical means to estimate the reliability of the prediction output. This new version offers an interactive table as well as graphics to dynamically alter the main screening parameters with automatic update of the list of identified putative TFBS. PREDetector 2.0 also has the following additional options: (i) access to genome sequences from different databases, (ii) access to weight matrices from public repositories, (iii) visualization of the predicted hits in their genomic context, (iv) grouping of hits identified in the same upstream region, (v) possibility to store the performed jobs, and (vi) automated export of the results in various formats. PREDetector 2.0 is available at http://predetector.fsc.ulg.ac.be/. [less ▲]

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See detailMécanismes moléculaires associés à l’induction de la pathogénicité chez Streptomyces scabies
Jourdan, Samuel ULg

Doctoral thesis (2016)

Streptomyces are filamentous soil-dwelling bacteria that actively participate in the mineralization of dead organic matter. Members of this bacterial genus are commonly known for the plethora of secondary ... [more ▼]

Streptomyces are filamentous soil-dwelling bacteria that actively participate in the mineralization of dead organic matter. Members of this bacterial genus are commonly known for the plethora of secondary metabolites of interest they secrete. Predominantly saprophytes, some Streptomyces species have been proved to be phytopathogenic. The most widespread and best characterized of these species is Streptomyces scabies which is the causative agent of the common scab disease that affects the underground organs of many plants with a preference for storage organs such as potato tubers or pivot roots (beet, turnip, carrot, etc.). Common scab is characterized by brown and corky lesions on the infected organs and causes significant economic losses around the world. The pathogenicity of S. scabies is directly related to its ability to produce the phytotoxin thaxtomin. Unveiling when, how and why S. scabies triggers the production of its phytotoxin is therefore of major interest to understand phytopathogenicity and the virulence associated with this bacteria. Previous works identified cellobiose as the main elicitor of thaxtomin production. However, no signaling pathway from the sensing of the eliciting signal to the biosynthesis of thaxtomin has been proposed so far. The aim of this work is to elucidate the molecular mechanisms involved in the onset of thaxtomin production in the model species S. scabies. In this work we highlighted the central role of the cellulose utilization transcriptional repressor CebR in S. scabies pathogenicity. Indeed, we showed that this regulator directly controls the expression of thaxtomin biosynthesis genes, but also the expression of genes involved in sensing, transport and catabolism of cellooligosaccharides. Together, our results allow to propose a first signaling pathway from cellooligosaccharide transport to the production of thaxtomin in S. scabies, with each step of the cascade controlled by CebR. The results obtained in the course of this thesis extended well beyond the fundamental research scope of elucidating the mechanisms associated with the onset of virulence of S. scabies. Indeed, assessed if/how our findings could propose solutions to current industrial biotechnology iapplications, i.e. i) to provide a mutant that constitutively produce thaxtomine could improve the production yields of this promising bioherbicide, and ii) to assess the enzymatic characteristics of a Beta-glucosidase of S. scabies as possible candidate in lignocellulose saccharification processes. [less ▲]

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See detailThe CebE/MsiK Transporter is a Doorway to the Cello-oligosaccharide-mediated Induction of Streptomyces scabies Pathogenicity
Jourdan, Samuel ULg; Francis, Isolde; Kim, Min et al

in Scientific Reports (2016)

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See detailThe Cellobiose Sensor CebR is the Gatekeeper of Streptomyces scabies Pathogenicity
Francis, Isolde; Jourdan, Samuel ULg; Fanara, Steven ULg et al

in MBio (2015)

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See detailThe cellobiose-sensor CebR is the gatekeeper of Streptomyces scabies pathogenicity
Jourdan, Samuel ULg; Francis, Isolde; Loria, Rosemary et al

Poster (2014, October)

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See detailUnsuspected Control of Siderophore production by N-acetylglucosamine in Streptomycetes
Craig, Matthias ULg; Lambert, Stéphany ULg; Jourdan, Samuel ULg et al

in Environmental Microbiology Reports (2012)

Detailed reference viewed: 58 (27 ULg)