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Newcastle iGEM Presentation 2008

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Morgan Taschuk
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BugBuster: Computational design of a bacterial biosensor 2008 Newcastle University iGEM team M. Aylward, R. Chalder, N. Nielsen-Dzumhur, M. Taschuk , J. Thompson & M. Wappett
Background ,[object Object],[object Object],[object Object],[object Object]
Sensing Bacteria ,[object Object],[object Object],[object Object],[object Object]
Choosing a Chassis ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
The Challenge ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
 
Meeting the Challenge ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
short- dis.avi Workbench M2S Converter Evolutionary Algorithm Parts Repository Constraints Repository Feedback Implementation Sequence Synthesize Clone Analyze
Modelling with CellML ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
The peptide receiver device: design ,[object Object],[object Object],[object Object]
The peptide receiver device: implementation ,[object Object],[object Object]
Synthesis and cloning pUC57-ncl08 4908bp 7899bp pUC57 2708bp ncl108 2200bp 10099bp Newcastle device in pUC57 Bacillus integration vector T4 DNA ligase Transform into E. coli Ncl108 BBa_K104001 pGFP-rrnB Integration Vector 8399bp pGFP-rrnB
Genomic Integration
Characterizing BBa_K104001 ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Characterization of the peptide receiver device
Cell Sorting Results Subtilin Fluorescence 0% 7.70 1% 14.77 10% 21.95
Conclusions ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Future work…if we had more time ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Acknowledgements ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Our sponsors:

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Newcastle iGEM Presentation 2008

  • 1. BugBuster: Computational design of a bacterial biosensor 2008 Newcastle University iGEM team M. Aylward, R. Chalder, N. Nielsen-Dzumhur, M. Taschuk , J. Thompson & M. Wappett
  • 2.
  • 3.
  • 4.
  • 5.
  • 6.  
  • 7.
  • 8. short- dis.avi Workbench M2S Converter Evolutionary Algorithm Parts Repository Constraints Repository Feedback Implementation Sequence Synthesize Clone Analyze
  • 9.
  • 10.
  • 11.
  • 12. Synthesis and cloning pUC57-ncl08 4908bp 7899bp pUC57 2708bp ncl108 2200bp 10099bp Newcastle device in pUC57 Bacillus integration vector T4 DNA ligase Transform into E. coli Ncl108 BBa_K104001 pGFP-rrnB Integration Vector 8399bp pGFP-rrnB
  • 14.
  • 15. Characterization of the peptide receiver device
  • 16. Cell Sorting Results Subtilin Fluorescence 0% 7.70 1% 14.77 10% 21.95
  • 17.
  • 18.
  • 19.

Editor's Notes

  1. the bacteria use them for quorum sensing and as antibiotics to ‘thin out’ the competition Anthrax, Streptomycese (GFP, YFP, mCherry, …)