# Team:Kyoto/Project/Goal B

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 Revision as of 18:50, 27 October 2010 (view source)Wataru (Talk | contribs) (→Result)← Older edit Revision as of 18:53, 27 October 2010 (view source)Wataru (Talk | contribs) (→Experiment 1: Measurement of lytic activity of λ lysis cassette)Newer edit → Line 61: Line 61: |} |} - Table 1 OD550 of each culture incubated 16h, 18h, 20h, with various concentration of IPTG. The number of colony suggests which colony the cultures are drived from. The values of OD550 of 16h, 18h, 20h is the same culture with certain concentration of IPTG. + Table 1 OD550 of each culture incubated 16h, 18h, 20h, with various concentration of IPTG. The number of colony indicates which colony the cultures are drived from. The values of OD550 of 16h, 18h, 20h is the same culture with certain concentration of IPTG. As Table1 shows, cell lysis seems to be an apparent equilibrium state. The value of OD550 in this state depends on the strength of induction of IPTG, so we define it as LAS550（Lytic Activity Score）, which indicates lytic activity of λ lysis cassette quantitatively. As Table1 shows, cell lysis seems to be an apparent equilibrium state. The value of OD550 in this state depends on the strength of induction of IPTG, so we define it as LAS550（Lytic Activity Score）, which indicates lytic activity of λ lysis cassette quantitatively. - [[Image:KyotofigD001.png|600px|thumb|center|Fig.1 OD550 of 18h cultures with various concentration of IPTG. When the concentration of IPTG is from 0.01mM to 0.02mM, OD550 decreases mildy. When the concentration of IPTG is from 0.02mM to 0.05mM, OD550 decreases dramatically. When the concentration of IPTG is over 0.05mM, OD550 is under 0.3 and doesn't change largely.]] + [[Image:KyotofigD001.png|600px|thumb|center|Fig.1 LAS of 18h cultures with various concentration of IPTG. When the concentration of IPTG is from 0.01mM to 0.02mM, LAS550 decreases mildy. When the concentration of IPTG is from 0.02mM to 0.05mM, OD550 decreases dramatically. When the concentration of IPTG is over 0.05mM, OD550 is under 0.3 and doesn't change largely.]] To analyze the relationship between the lytic activity of λ lysis cassette and RPU, we used the result of characterization of R0011. To analyze the relationship between the lytic activity of λ lysis cassette and RPU, we used the result of characterization of R0011.

## Goal B: Quantitative characterization of λ lysis cassette

### Introduction

λ lysis cassette is a gene that causes cell lysis. In previous iGEM, some teams evaluated the lytic activity of λ lysis cassette qualitatively. However, the registered parts lack of many informations such as activity or sequence. Thus, the well-characterized lysis cassette provide the simple and reliable cell-death system and will be applied to various circuits. For this reason, we studied about when cells die, how many cells die, and the relationship between them and the activity of its promoter.

To characterize lytic activity of λ lysis cassette quantitatively, we regulate the gene expression of λ lysis cassette by a lactose promoter, R0011, which we characterized quantitatively by RPU in GoalA. To repress the basal expression of λ lysis　cassette in the absence from IPTG as possible, we used pSB4K5, a low copy vector, as a plasmid backbone and used KRX as a host cell. Needless to say, we characterized R0011 in the same experimental condition. For more detailed explanation of R0011, go Goal A.

### Result

#### Experiment 1: Measurement of lytic activity of λ lysis cassette

To characterize lytic activity of λ lysis cassette quantitatively, we had to establish a standard method for a quantitative measurement of cell lysis. We first considered that we could characterize the activities by mesuring OD550 of the cultures after induction of IPTG. However, after preliminary experiments for determination of the measurement condition, we found some facts described below.

• Cultures induced the expression of λ lysis cassette becomes a kind of equilibrium state of cell lysis.
• R0011 is frequently mutated at 37 degrees if it regulates an expression of toxic gene because of natural selection.
• The possibility of mutation become low at 30 degrees, although　it still remains a little.

Therefore, we made the following protocol that is suitable to our motivation.

• Pick out three colonies transformed with K358019 and cultivated in supplemented M9 media with certain concentration of IPTG. After incubation of 16h, 18h, 20h, measure OD550 of each culture.

We did the experiment as this protocol, we got the following data.

Incubating Number of colony 0mM 0.01mM 0.02mM 0.03mM 0.05mM 0.07mM 0.1mM 16h 18h 20h 16h 18h 20h 16h 18h 20h 1 1 1 2 2 2 3 3 3 2.13 2.17 2.35 2.05 2.04 2.14 2.22 2.21 2.33 2.02 2.01 2.15 1.96 2.23 2.23 2.21 2.07 2.29 2.21 2.12 2.16 1.86 1.86 1.95 1.76 1.93 1.71 1.44 1.41 1.39 1.70 1.62 1.59 0.82 1.02 0.83 0.33 0.25 0.17 0.25 0.25 0.24 0.26 0.33 0.24 0.15 0.17 0.23 0.21 0.20 0.23 0.18 0.18 0.19 0.13 0.20 0.36 0.20 0.18 0.23 0.17 0.15 0.23 0.10 0.21 0.31 0.08 0.11 0.14 0.11 0.07 0.20 0.07 0.08 0.10 0.08 0.08 0.09 0.11 0.08 0.25 0.25 0.10 0.08 0.29 0.22 0.11 0.18 0.22 0.10 0.04 0.15 0.21 0.18 0.27 0.27 0.18 0.06 0.24

Table 1 OD550 of each culture incubated 16h, 18h, 20h, with various concentration of IPTG. The number of colony indicates which colony the cultures are drived from. The values of OD550 of 16h, 18h, 20h is the same culture with certain concentration of IPTG.

As Table1 shows, cell lysis seems to be an apparent equilibrium state. The value of OD550 in this state depends on the strength of induction of IPTG, so we define it as LAS550（Lytic Activity Score）, which indicates lytic activity of λ lysis cassette quantitatively.

Fig.1 LAS of 18h cultures with various concentration of IPTG. When the concentration of IPTG is from 0.01mM to 0.02mM, LAS550 decreases mildy. When the concentration of IPTG is from 0.02mM to 0.05mM, OD550 decreases dramatically. When the concentration of IPTG is over 0.05mM, OD550 is under 0.3 and doesn't change largely.

To analyze the relationship between the lytic activity of λ lysis cassette and RPU, we used the result of characterization of R0011.

Fig.2 Lysis activity vs. RPU. The horizontal axis of Fig. 1 is converted to RPU using the result of characterization of R0011.

RPU is relative activity of promoter, so Fig. 2 shows the relationship between the lytic activity of λ lysis cassette and its expression level. The lysis cassette effectively induced cell lysis even when the expression was very repressed (0.2 RPU). Moreover, the activity of the cell lysis has a distinct threshold around 0.1 RPU. In case of the higher induction than 0.2 RPU, the cell populations reached a plateau but not zero.

### Discussion

お願い高田君

#### Restricted condition of promoters to regulate λ lysis cassette

We characterized λ lysis cassette quantitatively with RPU. From our data, we determined acondition of activity of promoters, if you want to make inducible sysytems of cell lysis by using them. The condition is that: the minimam activity is under RPU and the maximamactivity is over 0.2 RPU. Promoters that fit this condition could use the regulation of λ lysis cassette.

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