Team:UNIPV-Pavia/Parts Characterization
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= '''Data analysis''' = | = '''Data analysis''' = | ||
+ | ===Growth curves=== | ||
+ | The presented growth curves have all been processed as OD600_culture-OD600_broth for each time sample. OD600_broth is the medium in the same conditions as in the culture (e.g. induced with the same inducer concentration as in the culture). | ||
+ | ===Relative Promoter Units (RPUs)=== | ||
+ | The RPUs are standard units proposed by Kelly J. et al., 2008, in which the transcriptional strength of a promoter can be measured using a reference standard, just like the ground in electric circuits. | ||
+ | |||
+ | RPUs have been computed as: | ||
+ | |||
+ | [[Image:pv_rpu_formula.jpg]] | ||
+ | |||
+ | in which: | ||
+ | *phi is the promoter of interest and J23101 is the reference standard promoter (taken from Anderson Promoter Collection); | ||
+ | *F is the blanked fluorescence of the culture, computed as F_culture-F_negative_control for each time sample, where the negative control is a non-fluorescent strain; | ||
+ | *ABS is the blanked absorbance (OD600) of the culture, computed as described in "Growth curves" section. | ||
+ | |||
+ | RPU measurement has the following advantages: | ||
+ | *it is proportional to PoPS (Polymerase Per | ||
+ | |||
+ | of a reporter protein with a high half life (in our case GFPmut3, <partinfo>BBa_E0240</partinfo>, which has an estimated half life of at least 24 hours); | ||
</td> | </td> | ||
</tr> | </tr> | ||
</table> | </table> |
Revision as of 08:13, 19 October 2009
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Parts Characterization |
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Here we describe the characterization results of 4 parts of our own design, 2 existing parts re-built because they were inconsistent and 7 existing parts taken from the Registry.
Re-built existing parts (BBa_our part code/BBa_existing part code): Existing parts from the Registry:
Our new partsBBa_K173003 - ethanol producing deviceBBa_K173007 - aTc inducible device with J23100 promoterBBa_K173011 - aTc inducible device with J23118 promoterBBa_K173010 - lactose/IPTG inducible device with J23118 promoterRe-built existing partsBBa_K173004/BBa_I732019 - beta-galactosidase protein generatorBBa_K173005/BBa_Q04400 - tetR QPIExisting parts from the RegistryBBa_J23100, BBa_J23101, BBa_J23118 - constitutive promoter family membersBBa_F2620 - 3OC6HSL receiver deviceBBa_K116001 - nhaA promoterBBa_K112808 - Enterobacteria phage T4 Lysis DeviceBBa_R0011 - Plac hybrid promoterData analysisGrowth curvesThe presented growth curves have all been processed as OD600_culture-OD600_broth for each time sample. OD600_broth is the medium in the same conditions as in the culture (e.g. induced with the same inducer concentration as in the culture). Relative Promoter Units (RPUs)The RPUs are standard units proposed by Kelly J. et al., 2008, in which the transcriptional strength of a promoter can be measured using a reference standard, just like the ground in electric circuits. RPUs have been computed as: in which:
RPU measurement has the following advantages:
of a reporter protein with a high half life (in our case GFPmut3, , which has an estimated half life of at least 24 hours); |