Part:BBa_K103017:Experience

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'Hunter and prey' selection system

UNIQc8ab8b73d846063a-partinfo-00000000-QINU

••••• Keton

We have used this part in fusion with BBa_K103003 and BBa_K103004 to create hunter expression devices: OmpA_alpha_A (compatible prey: His_omega_Z - fusion of BBa_K103020 with BBa_K103004) OmpA_alpha_Z (compatible prey: His_omega_A - fusion of BBa_K103020 with BBa_K103003) OmpA_alpha negative control device without hunter BBa_K103017 OmpA_alpha_A_omega positive control device containing both beta-lactamase halves BBa_K103017 in fusion with BBa_K103003 and BBa_K103012 To check optimal IPTG and ampicilin concentrations we have used OmpA_alpha_A_omega positive control device which should make cells ampicilin resistant. We have obtained following results: OD600 of Top10 cultures expressing OmpA_alpha_A_omega Ampicilin concentration (ug /ml) IPTG Concentration (uM) 0 0.1 0.25 0.5 0.75 1 25 1.558 1.469 1.587 1.49 1.566 1.311 50 1.425 1.435 1.524 1.055 0.920 0.935 75 1.09 0.989 1.447 0.971 0.951 0.992 100 0.09 0.685 1.378 1.078 0.977 0.992 We have used 100 ug/ml ampicillin and 0.25 uM IPTG for further experiments. To check if our hunter expression devices work we have tested growth of hunter expressing strains in liquid LB + Ampicillin + IPTG suplemented with His_omega_A (compatible with OmpA_alpha_Z hunter) and His_omega_Z (compatible with OmpA_alpha_A) prey proteins. Following results were obtained: Hunter variant Prey variant Growth with prey Growth without prey OmpA_alpha His_omega_Z - - OmpA_alpha His_alpha_Z - - OmpA_alpha_A His_omega_Z + - OmpA_alpha_A His_alpha_Z - - OmpA_alpha_Z His_omega_Z + - OmpA_alpha_Z His_alpha_Z - - OmpA_alpha_A_omega His_omega_Z + + OmpA_alpha_A_omega His_alpha_Z + + Addition of compatible prey to the culture medium makes hunter expressing cells survive. Unfortunately there are also false positives (OmpA_alpha_Z grows on medium containing His_omega_Z). This may be caused by ability of Zspa-1 protein to form autoaggregates. [http://2008.igem.org/wiki/index.php?title=Team:Warsaw/JSTest&num=6&arg0=15_September_2008&arg1=16_September_2008&arg2=17_September_2008&arg3=18_September_2008&arg4=19_September_2008&arg5=22_September_2008&name=%27Hunter%20and%20prey%27%20system%20tests%3A%20Competition%20tests Competition tests] were the next step in testing hunter and prey system. Two or more bacterial strains were mixed and added to medium with prey. The culture was incubated overnight and plasmid miniprep was prepared. The strains which survived were determined using restriction digests and PCR. Results were very good: in all cases strains encoding strongest interacting hunters always dominate the culture and are detectable both by PCR and restriction digests. The DNA yield from other strains was very small and can be detected only by PCR. Conclusion: hunter and prey system works as expected allowing efficient selection of strain expressing the strongest interactor of a given protein.

UNIQc8ab8b73d846063a-partinfo-00000002-QINU