LUXEMBOURG CREATIVE 2017 : bioinformatique (1)
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La bioinformatique au service de l'industrie
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LUXEMBOURG CREATIVE 2017 : bioinformatique (1)
- 1. La bioinformatique au service de l’industrie Sébastien Rigali InBioS – Center for Protein Engineering Luxembourg Creative 15 June 2017
- 2. How to Transform a Plant-pathogen into a Crop Helper La bioinformatique au service de l’industrie Sébastien Rigali InBioS – Center for Protein Engineering Luxembourg Creative 15 June 2017
- 3. Major Causes of Death Streptomyces : ‘twisted fungi’
- 4. 4/30
- 5. Actinobacteria Other bacteria Fungi Useful Compounds from Actinobacteria S. cavuligerus clavulanic acid S. avermitilis S. griseus Nobel prize 1952 Selman Waksman “The time has come to close the book on infectious diseases" Gen. William H. Stewart U. S. Surgeon General, 1969 Actinobacteria
- 6. Major Causes of Death
- 7. Actinobacteria Other bacteria Fungi Useful Compounds from Actinobacteria S. cavuligerus clavulanic acid S. avermitilis S. griseus Nobel prize 1952 Selman Waksman new golden Age Actinobacteria In 2050, Infections by resistant bacteria could be responsible for an additional 8,500,000 deaths per year, more than those due to all combined cancer forms. Jim O’Neill "If we fail to act, we are looking at an almost unthinkable scenario where antibiotics no longer work and we are cast back into the dark ages of medicine" David Cameron, former UK Prime Minister
- 8. Streptomyces coelicolor Cryptic Metabolites ← Bioinformatic
- 9. The known microbial antibiotics are the tip of an iceberg We just picked up the low hanging fruits
- 11. Wild type Bald mutant White mutant Developmental mutants in streptomycetes
- 13. GlcNAc Chitin Peptidoglycan chromosome NagE2 EIIB EIIA HPr HPr EI EI GlcNAc-6P DasR Specialization Secondary metabolism antibio
- 14. 15.2 11.2 - 36 - 112 gen1 Sugar metabolism ACTGGTCTAGACCAGT AGTGGTGTAGACGAGT Methods for Predicting Regulons How to create a weight matrix? Which algorithm to chose? pi f pi Npin weight ijij ij ln~ 1/ ln a priori frequency fij > pi → ‘+’ fij < pi → ‘-’ fij = pi = 0 = 4.3
- 15. GlcNAc Chitin Peptidoglycan chromosome NagE2 EIIB EIIA HPr HPr EI EI GlcNAc-6P DasR Nutrition Primary metabolism nagAB Specialization Secondary metabolism dmdR1 GlcN-6PFru-6P NagANagBGlycolysis S. coelicolor + GlcNAc
- 16. chromosome NagE2 EIIB EIIA HPr HPr EI EI GlcNAc GlcNAc-6P Chitin DasR Peptidoglycan Nutrition Primary metabolism nagAB Specialization Secondary metabolism dmdR1 GlcN-6PFru-6P NagANagBGlycolysis
- 17. chromosome NagE2 EIIB EIIA HPr HPr EI EI GlcNAc GlcNAc-6P Chitin DasR Peptidoglycan Nutrition Primary metabolism nagAB Specialization Secondary metabolism dmdR1 + FeCl3 S. coelicolor
- 18. How to Transform a Plant-pathogen into a Crop Helper La bioinformatique au service de l’industrie Sébastien Rigali InBioS – Center for Protein Engineering Luxembourg Creative 15 June 2017
- 19. Herbicide & Algicide How to get thaxtomin onto the market ? thaxtomin Proof of Concept Thaxtomin A production by Streptomyces scabies
- 20. S. scabies chromosome Prediction of Thaxtomin Production Control txtBA-txtR Database of Regulatory protein binding sites CebR TGGGAGCGCTCCCA cbs, CebR binding site Cellobiose KO repressor
- 22. La bioinformatique au service de l’industrie Sébastien Rigali InBioS – Center for Protein Engineering Luxembourg Creative 15 June 2017