Team:Berkeley/Project/Self Lysis

From 2010.igem.org

Revision as of 23:49, 25 October 2010

Overview

The Self Lysis Device acts to degrade the bacterial membrane (inner membrane, peptidoglycan layer and outer membrane). In the overall delivery scheme, if the timing works out so that self-lysis occurs after the bacteria has been consumed by the Choanoflagellate, the payload will be released into the vesicle. To make this device, Jin Huh modified the construct made by the Berkeley 2008 iGEM team.

Components

• Pbad promoter: allows for fast, controlled induction, which allows us to better control the timing of lysis. Also, since this promoter is only induced by an exogenous molecule, it helps address biosafety concerns.

• BRP:

• Holin and anti-Holin Threshold gating:

(for more complete description, see 2008 Berkeley iGEM team's wiki <insert link>)

Characterization in new medias

The 2008 team already characterized the device in LB, as shown here (insert link). However, since we are applying the device in a brand new setting, we needed to characterize it in that new setting. Our challenge was to find a media that would both allow lysis to occur and keep the Choanoflagellates happy and healthy.

Medias Tested

• Luria Broth (LB): Positive Control, used to confirm the results of the iGEM 2008 team and to make sure the assembly with the Vesicle Buster Device didn't disrupt lysis, since it tends to be a fairly tempermental part.
• Terrific Broth (TB): Used to grow up our payload delivery device and payload containing bacteria to a high concentration before feeding them to the Choanos. E. coli flourish in TB.
• Choano Growth Media 3 (CGM3): Developed by the King lab to culture Choanos.
• Artificial Sea Water (ASW): Sterilized salt water that we use to culture our line of Choanos.
• Different ASW:LB ratios

Testing lysis:

Self-lysis can be assayed by measuring changes in optical density, or changes in the opaqueness of a solution. As lysis occurs, optical density decreases, meaning the solution of bacteria becomes more translucent.

On a macro-scale, here's what you'd expect to see from a working self-lysis device:

<insert picture from Berkeley iGEM 2010>

We used a TECAN machine to measure the change in optical density over time. The following data points are averages from several runs on colonies from the same transformation. The data has been normalized (insert details) and show error bars (insert details!).

Observing Choanoflagellate health:

Self-lysis Device To break through the E. coli’s inner and outer cell wall, we used the self-lysis device derived from the 2008 UC Berkeley iGEM team (registry name and picture of 2008 part). There were, however, several challenges we needed to overcome before the device could be applied in a choanoflagellate. First, the lysis device had to be inducible by an exogenous molecule. For practical reasons we needed to be able to control when self-lysis occurred and for biosafety reasons self-lysis could not occur outside of a laboratory culture. For example, we initially constructed the self-lysis under a magnesium based promoter but that construct was not used because magnesium is commonly found in sea water and mammalian cells and would lead to lysis in undesirable and potentially dangerous situations. By putting the device under the control of an arabinose-induced promoter, Pbad, we were able to induce lysis only when desired and prevent incidental lysis. Moreover, self-lysis had to be fast acting: the bacteria had to lyse itself after it was ingested by the choanoflagellate but before it was digested by the choanoflagellate. The 2008 part took closer to five hours to lyse but we estimated that choanoflagellates digestion takes only one to two hours; therefore we needed a faster acting device. To accomplish this we added BRB to the original construct. BRB degrades the inner cell membrane. With this addition, we were able to have lysis occur within an hour after induction.

Although the self-lysis device must be under control of an exogenous inducer, self lysis must also occur in the choanoflagellates culture. In the in vitro assay for self-lysis, E. coli were grown and induced in TB media. However, choanoflagellates cannot survive in TB or LB media. Similarly, an in vitro assay showed that self-lysis failed to occur when the bacteria were put in the artificial sea water used to culture choanoflagellates. We found a compromise between the health of choanoflagellates and the activity of the self-lysis device by using Choano Growth Media 3 (CGM3). As shown in the graph below, where a decrease in optical density indicates successful lysis, the bacteria were able to lyse themselves in CMG3 media almost as well as they did in TB.