Edinburgh/DivisionPopper/Applications

From 2007.igem.org

(Difference between revisions)
(→Division Counting)
(h)
Line 16: Line 16:
==Division Frequency Analysis==
==Division Frequency Analysis==
-
The output of the Division PoPper could be linked to the production of a slowly degrading protein. The more frequent the divisions, the greater the concentration of the protein.
+
The output of the Division PoPper could be linked to the production of a slowly degrading protein. Physically this can be easily achived by putting downstream a coding region that codes for the protein. The more frequent the divisions, the more often the PoPS pulse would start expression of the protein. So it is possible to quantitatively associate the protein concentration to the frequency of division. This can be useful for example for triggering cell reaction when a cell is dividing too fast, as it happens in some diseases.
-
===Coupling to a PoPS counting device===
+
(images coming soon)
-
 
+
-
Couple the output of the Division PoPper to another counting device (such as the [https://2006.igem.org/wiki/index.php/ETH_Zurich_2005#Abstract ETH Zurich counter] or other variants) to count the number of cell divisions. This is difficult to test due to the nature of colonies and cells dividing out of phase. We get around this problem by using high-power microscopy to study the activity of single cells.
+
-
 
+
-
===Counting using more recombination===
+
-
 
+
-
Rather than using the DivisionPoPper directly, this uses flipping dif sites to activate different recombinases, cut out sections of DNA and thus enable a range of downstream functions with each division. Functions are represented by fluorescent reporter genes here for sake of visibility, but may be replaced with genes to execute a function of choice; e g metabolite receptors and directed cellular movement.
+
-
 
+
-
[[Image:Cell division.jpg|800px]]
+
-
 
+
-
===Counting at the mercy of lac operators===
+
-
 
+
-
An divison-induced oscillator is constructed using genes with various numbers of lac operators upstream of them. LacI production is turned off and each cell division divides the remaining LacI protein amongst daughter cells. Thus gene functions are orderly induced as a function of the amount of upstream lac operators. Finally LacI production is induced and the process repeats.
+

Revision as of 18:21, 16 September 2007

MENU : Introduction | Background | Applications | Design | Realization | Modelling | Status | Conclusions

The Division PoPper is a device designed appositely for being coupled with other devices in order to offer its functionality for more complex systems. The Division PoPper has not signal inputs, so there are no possible upstream devices connected. Instead it is a generator of output signal, generating a PoPS pulse each time it senses a cell division. In this sense, the use of a standard signal format as PoPS is a important characteristic for the compositional power of the device. In the ongoing work of defining computational ability of cells, we think to be of immense interest a device able to "convert" a physical behaviour (the division) to an information flow (the PoPS pulse). Here we details some potential uses for the Division PoPper when coupled with other devices:

Contents


Division Counting

One possible application is to count the number of division of a cell by coupling the device to a counter. The simplest configuration is to connect the output of the Division PoPper to the input of the counter. For example, the counter designed by ETH Zurich for the 2005 edition of iGEM is able to receive a PoPS pulse signal and to count of many pulses arrive (ETH Zurich counter). We developed a mathematical model that simulates the behaviour of such a system by integrating our ODEs model to the ODEs model of ETH counter (details in the Modelling section).

Why should be important to count cell divisions? For example for trigger cell death after a certain number of divisions, as security control for avoiding spread of engineered bacteria when relised in the environment for certain tasks. Another possibility is to associate a function at each different division number in order to have cell behaviours that changes during time.

(image coming soon).

Division Frequency Analysis

The output of the Division PoPper could be linked to the production of a slowly degrading protein. Physically this can be easily achived by putting downstream a coding region that codes for the protein. The more frequent the divisions, the more often the PoPS pulse would start expression of the protein. So it is possible to quantitatively associate the protein concentration to the frequency of division. This can be useful for example for triggering cell reaction when a cell is dividing too fast, as it happens in some diseases.

(images coming soon)

Retrieved from "http://2007.igem.org/wiki/index.php/Edinburgh/DivisionPopper/Applications"