Bio Detectors Accurate and precise Stable system Fast and visible - PDF document

� � � � � Introduction Bio Detectors Accurate and precise Stable system Fast and visible response Versatile

� � � � � Our Idea

� � � � � Our Idea Fast Visible Output Accurate Detection Bio-Detector

� � � � � Genetic Design Fast Visible Output Accurate Detection Genetic Design Bio-Detector

� � � � � Genetic Design Fast Visible Output Accurate Detection � Output Input Bio-Detector

� � � � � Genetic Design P lac LuxR Dose Response RBS

� � � � � Genetic Design A Bi-Stable System

� � � � � Genetic Design A Bi-Stable System Signal On Off Analyte Concentration Bistable Dose response

� � � � � Genetic Design Improving work methods Design Experiments Modeling Assembly

� � � � � Design P OmpC Genetic Design P lac P lux 1 Reporter Experiments Modeling LuxR LuxI LuxI Protein RBS RBS RBS RBS Assembly EcoRI NheI P OmpR OmpR AHL AHL AHL AHL AHL AHL LuxI AHL AHL AHL IPTG LuxR AHL

� � � � � Design Genetic Design 1 Modeling Experiments Basic Design Modeling Assembly Fokker-Planck solutions- Stochastic approach: Starts ON Starts OFF

� � � � � Design 1 Genetic Design Experiments Modeling High-throughput Cloning � Assembly Gene 1 3 Suffix Prefix 6 1 RBS 4 2 5 Gene 2 Gate Class 1 4 Suffix Prefix 6 1 RBS RBS 3 2 5 2 3 4

� � � � � Design Genetic Design 1 Experiments Modeling Assembly

� � � � � Design Genetic Design 2 Experiments Modeling RNA Splint – Noise Controller Assembly Plux Plux

� � � � � Design Genetic Design 2 Modeling RNA Splint Modeling Experiments Fokker-Planck solutions Starts at ON state: Assembly Alternative-RNA Splint Basic Switch Fokker-Planck solutions Starts at OFF state:

� � � � � Design 2 Genetic Design Experiments Modeling High-throughput Cloning � Assembly Gene 1 3 Suffix Prefix 6 1 RBS 4 2 5 Gene 2 Gate Class 1 4 Suffix Prefix 6 1 RBS RBS 3 2 5 2 3 4

� � � � � Photo Switch Fast Visible Output Accurate Detection Photo Switch Bio-Detector

� � � � � Photo Switch Introduction AHL Synthetic Biofilm AHL High- AHL throughput Summary

� � � � � Photo Switch Introduction AHL Synthetic Biofilm High- throughput Summary

� � � � � Photo Switch The Photo Switch Introduction Synthetic Communicative & reversible Biofilm High- Synthetic Biofilm throughput Summary

� � � � � Photo Switch Under the Microscope Introduction Synthetic Biofilm High- throughput Summary Without Azobenzene With Azobenzene

� � � � � Photo Switch Azobenzene – The magical molecule Introduction Synthetic Biofilm The transition to the “sticky” form High- occurs with UV light throughput Summary

� � � � � Photo Switch High-throughput Experiments � Introduction Synthetic Biofilm High- throughput Summary

� � � � � Photo Switch Bacterial Sediments Introduction Synthetic Biofilm High- throughput Summary Sand falling creates a Without Azobenzene round shape out of symmetry

� � � � � Photo Switch Bacterial Sediments Introduction Synthetic Biofilm High- throughput Summary With Azobenzene Without Azobenzene With Azobenzene

� � � � � Photo Switch Introduction Synthetic Biofilm High- throughput Summary

� � � � � So what did we do? Achievements � A smart self assembling Set out to build a universal bio-detector for low- concentrations material Designed a new protocol for building bi-stable biological systems (4 bi-stable systems) New high-throughput cloning (23 BioBricks) Created a synthetic bio-film

� � � � � Photo Switch Merge of Fields, Merge of Cultures

� � � � � Photo Switch

� � � � � Photo Switch 1 st iGEM High School Israel Team

Special thanks to our mentors Dr. Roee Amit Dr. Orna Atar Lior Levy Inbal Vaknin Michal Brunwasser Noa Katz And to Our Sponsors

� � � � � Design Genetic Design 1 Experiments Modeling Assembly P OmpC LuxI Antenna RBS EcoRI NheI P lac LuxR Activator RBS P lux Reporter Protein LuxI Amplifier RBS RBS

� � � � � Design Genetic Design 2 Experiments Modeling Toggle Switch Assembly P CI T7 polymerase LacI RBS CI LacI P lac CI RBS

� � � � � Design Genetic Design 2 Modeling Experiments Stable Design Modeling Assembly With Analyte Without Analyte

� � � � � Achievements Designed a new protocol for building � bistable biological systems bling material ughput cloning method Submitted 23 BioBricks � New high-throughput cloning method � Created synthetic biofilm �

� � � � � Photo Switch The Photo Switch Introduction Synthetic Biofilm A smart High- throughput self assembling material Summary

Gene 1 3 Prefix 6 1 4 2 5 Suffix