Figure.1. The effect of varied lacI-LVA (BBa_C0011) promotor strength on IPTG induction of Tac promotor (BBa_K2558004). Relative fluorescent intensity is fluorescence per OD600 standardized with fluorescence per OD600 value of each test group at Time=0, IPTG=0. The promotors we used are from the Anderson collection: BBa_J23100 for strong lacI-LVA expression (pink), BBa_J23110 for medium expression (green), BBa_J23114 for weak expression (orange).

III Protocol

1. one Transform the plasmids into E. coli DH5α.
2. two Pick a single colony by a sterile tip from each of the LB plates for all the experimental and control groups. Add the colony into 5ml M9 medium with ampicillin at 100 ng/µl. Incubate for 6-8 h at 37℃ in a shaker.
3. three Measure OD600 of the culture medium with photometer. Dilute the culture medium until OD600 reaches 0.6.
4. four Add 100 µl bacteria culture medium into a sterile 96-well plate. Add IPTG to final concentrations of 0, 1, 5, 10, 20 mM. Fresh M9 medium serves as blank control. Positive control is colony constantly expressing sfGFP and negative control is colony without sfGFP expression. Place the 96-well plate into an automatic microplate reader. Incubate at 16℃ overnight and record the fluorometric value at 510 nm and OD600 for each well every 30 minutes.
5. five Each group should be repeated for at least 3 times.

IV Reference

[1] Szabolcs Semsey, Sandeep Krishna. "The effect of LacI autoregulation on the performance of the lactose utilization system in Escherichia coli" Nucleic Acids Res 2013 Jul; 41(13): 6381–6390

2019 Fudan-TSI's Improvement

Overview

This year team Fudan-TSI has upgraded LacI repressor coding gene to a new version (BBa_K3257045 https://parts.igem.org/Part:BBa_K3257045). With lacIq promoter (BBa_K3257003 https://parts.igem.org/Part:BBa_K3257003) and rrnB T1 terminator (BBa_K3257020 https://parts.igem.org/Part:BBa_K3257020), improved LacI protein can be expressed and function properly in the Escherichia coli BL21(DE3). We used EGFP as a reporter controlled by our improved Lac operon and measured its green fluorescence over time.

For detailed design, please refer to https://parts.igem.org/Part:BBa_K3257045.

For a composite LacI repressor protein expression system, please refer to https://parts.igem.org/Part:BBa_K3257100.

According to our experiment, our Lac operon is improved in the following three main aspects.

Results

Lower Response to Arabinose, Better Orthogonality

Cross talk between the response to IPTG and arabinose has been a defect of the wild type Lac operon. When 4mM arabinose added, a few lac inhibitors detach from lac operator which means that it is induced in a relatively low but unignorable level. According to the measurement of our experiment, our improved LacI can respond to IPTG with better orthogonality. The figure below (Figure 1) is the measurement of the fluorescence of EGFP controlled by wild-type and improved Lac operon. It shows that when 4mM arabinose is added, oLacI(wild-type LacI) is induced at a significantly high level while iLacI(improved LacI) is induced at a lower level.

Figure 1. The expression level of EGFP controlled by different versions of LacI and inducers, or under different promoters.The origin point indicates the time when different inducers are added (1 mM IPTG and/or 4 mM Arabinose). The title of the graph shows which kind of inducer is added to the culture. The horizontal axis shows the duration of time, the vertical axis shows the quantified level of EGFP expression. The fluorescence level (excitation wavelength: 485 nm; detection wavelength: 528 nm) is quantified by the concentration of fluorescein, and normalized by the measured OD600 equivalent to the number of beads in the system. oLacI stands for the wildtype LacI, iLacI stands for our improved version of LacI. +LacO indicates that the promoter constitutes a LacO sequence. Control is the negative control plasmid which does not constitute an EGFP sequence. Error bar in the two graphs on the first row indicates the SEM of three replicates. The second row showed only the mean amount of three replicate.

Higher level of induction than the Wild-type Lac operon when Induced by IPTG

Next step we prove that our improved Lac operon can be better induced by IPTG, which counts a great deal for the usage of this operon. The figure below (Figure 2) is the measurement of the fluorescence of EGFP controlled by wild-type and improved Lac operon. It shows that when 1mM IPTG is added, EGFP controlled by both operons can be disinhibited and the improved LacI is induced at a relatively higher level.

Figure 2. The induction level of EGFP under different repressors and promoters. The induction level is calculated by dividing the fluorescence level after 9 h of induction by 1 h afterward. The fluorescence level is quantified as in Fig. 1. oLacI stands for the wildtype LacI, iLacI stands for our improved version of LacI. +LacO indicates that the promoter constitutes a LacO sequence. t-test analysis shows that the induction level of iLacI is significantly higher than oLacI, *** indicates that p=0.0002.

Lower Uninduced Leakage

The uninduced leakage level is also an important parameter of an operon. Improved LacI lowers the leakage level compared to the wild-type one. The figure below (Figure 3) is the measurement of the fluorescence of EGFP controlled by wild-type and improved Lac operon. When no IPTG or arabinose is added, the fluorescence of EGFP controlled by improved Lac operon is under the detection range while the fluorescence of EGFP controlled by wild-type Lac operon remains a detectable signal indicating a considerably undesired leakage.

Figure 3. The basal fluorescence level of EGFP controlled by different repressors. The bar indicates the mean fluorescence level during the 10 h with no inducer in the culture. The fluorescence level is quantified as in Fig. 1. oLacI stands for the wildtype LacI, iLacI stands for our improved version of LacI. Control is below the detection level and not shown. Error bar indicates the SEM of fluorescence signal in the 10 h. Paired t-test analysis shows that iLacI has a significantly lower of fluorescence than oLacI, p=0.0057 (**).

Functional Parameters: Austin_UTexas

BBa_C0012 parameters

Burden Imposed by this Part:

Burden is the percent reduction in the growth rate of E. coli cells transformed with a plasmid containing this BioBrick (± values are 95% confidence limits). This BioBrick did not exhibit a burden that was significantly greater than zero (i.e., it appears to have little to no impact on growth). Therefore, users can depend on this part to remain stable for many bacterial cell divisions and in large culture volumes. Refer to any one of the BBa_K3174002 - BBa_K3174007 pages for more information on the methods, an explanation of the sources of burden, and other conclusions from a large-scale measurement project conducted by the 2019 Austin_UTexas team.

This functional parameter was added by the 2020 Austin_UTexas team.

References

[1] Adam J. Meyer, Thomas H. Segall-Shapiro, Emerson Glassey, Jing Zhang & Christopher A. Voigt. Escherichia coli “Marionette” strains with 12 highly optimized small-molecule sensors. Nature Chemical Biology volume 15, pages196–204 (2019)

BHSF 2020's characterization

This operator can not only be used in prokaryotic promoters, but also in eukaryotic promoters when inserted downstream of TATA-box.

After we decided to use toggle switch as the principle of our circuit, and use lac as a molecule in our circuit, we used these keywords to find the most suitable system for our yeast, and we found the article describing a hybrid promoter:

1.If a lac operator site (lacO) is positioned appropriately downstream of the TATA‐box, gene expression from a nmt::lacO promoter (hybrid promoter) can be greatly repressed by lacI inhibitor.

2.Insertion of the operator sequence into the nmt promoter 5 bp downstream of TATA-box causes irreversible repression of gene expression when lacI is present.

3.When the operator in inserted directly downstream of TATA-box, the addition of IPTG to the medium could relieve the repression to some extent, but it is not fully reversible.

References

Kjaerulff S, Nielsen O. An IPTG-inducible derivative of the fission yeast nmt promoter. Yeast. 2015 Jun;32(6):469-78. doi: 10.1002/yea.3073. Epub 2015 Mar 31. Erratum in: Yeast. 2016 Jan;33(1):33. PMID: 25801050.

iBowu-China 2021's characterization

I Design

Figure.1. The plasmid design including lacI (BBa_C0011).

II Introduction

This year team iBowu-China used two parts LacI and LacO, with iPTG as induction methods, to control the expression of sfGFP protein and β-glucuronidase protein in E. coli BL21(DE3)

III Protocol

1. Transform the plasmids into E. coli BL21(DE3)
2. Pick a single colony by a sterile tip from each of the LB plates for all the experimental and control groups. Add the colony into 4ml LB medium with kanamycin. Add 1mM iPTG to all experimental groups. Incubate at 37℃ in a shaker overnight.
3. Add 100 µl bacteria culture medium into a sterile 96-well plate. Measure fluorescence at 488nm excitation and 502nm absorption, and then also OD600 for normalization, with a microplate reader.

IV Results

sfGFP

Figure.2. The expression of sfGFP with lacI+sfGFP can be controlled by iPTG induction.

Under the condition that there exists the part LacI, and there also exists LacO in the upstream gene of sfGFP, Iptg induction can control the switch on and off of the expression of green fluorescence protein sfGFP.

Figure.3. The expression of sfGFP with lacI+sfGFP can be switched on with different concentrations of Iptg induction.

The plot and photo demonstrate that 0.5nM Iptg added into the medium is sufficient to induce the expression of sfGFP with the existence of lacI part.

Enzyme activity of β-glucuronidase

Figure.4. The expression of β-glucuronidase with lacI+sfGFP can be switched on with Iptg induction. The SDS-PAGE results clearly showed the expression of the enzynme at the indicated band.

Figure.5. The expression of β-glucuronidase induced by Iptg with the existence of LacI can be measured by the enzyme activity. Higher the total activity can be seen directly by deeper purple color. The activity can also be measured at OD540 with OD600 normalization of bacteria concentration.

In the scenario where there is LacI in the plasmid and also where there exists LacO in the upstream gene of β-glucuronidase, this enzyme can be expressed in E. coli BL21 with Iptg induction. The enzymic activities and therefore the catalytic capabilities of the cells and the bacteria culture can therefore be controlled with different concentrations of induction substance.

Summary LacI can effectively work together with LacO to control gene expression in E. coli BL21(DE3). Our results confirmed 0.5 to 2mM Iptg can be effective and sufficient to release the suppression of gene expression exerted by LacI protein.

CKWA-China 2021 Contribution

We use LacI for expression of Lon protease. The E. coli we used are BL21, Rosetta and similar bateria. According to the reference articles, this Lon protease decomposes C-Myc protein commonly found in cancer cells. Because of this potential, the protease is planned to be used to make medicine to suppress cancer recurrence.

Figure.1.The designed use of the part LacI.

We designed to use LacI and LacO together to produce the Lon protease in a commonly used plasmid. The plasmid structure works as shown in the figure below.

For the measurement, E. coli Rosetta containing the designed plasmid was incubated at 37C overnight with 1mM IPTG added. Then the cells are lysed by 200 μL 4% SDS for 10 minutes in room temperature, then 10 min at 95C. Then loading buffer is added. The SDS-PAGE was carried with a 12% precast polyacrylamide gel. Coomassie bright blue stain is used to show the bands.

Figure.2. Bacteria Culture overnight and the SDS-PAGE results with/without iPTG.

With this induction conditions, first test failed to observe a clear band of Lon protein. The bacteria culture was also relatively clear. It is possible that Lon protease has been decomposing the proteins needed for E. coli growth. Because the bacteria growth was suppressed by the Lon protease, its own production was low.

Figure.3. Expression of Lon protease confirmed in SDS-PAGE.

When there is LacI and there is LacO before the Lon gene sequence, IPTG can be used to control the expression. The control can be tuned by the concentration and timing of induction. We then changed our condition: the bacteria were cultured on LB plate overnight at 37C, and then pick a single colony and incubate in LB medium until the OD600 reached 0.6-0.8. At this time, IPTG was added at 0.5 mM, and the medium was again incubated at 37C for another 4 hours. This time the SDS-PAGE results showed remarkable expression of the Lon protease. The results confirmed the capability of this part, and also showed for better protein expression and better bateria growth, the timing for induction should also be considered and experimented.

Summary This part LacI can work with LacO in E. coli Rosseta to control the protein production. The control power has important meanings for some special proteins like Lon protease, which can suppress bacteria growth. Our results suggested at 0.5mM IPTG concentration and an induction timing at OD600=0.6~0.8 can help improve the production target protein.

Contribution

• Group: SCU-China iGEM team 2021
• Author: Yilong Xu

Characterization

We tested the inducible promoter LacIAM in Vibrio.natriegens, We found that it just performed like a constitutive promoter

IMPROVEMENT REFERENCE: WHU-China 2022