Introduction

1, 2, 3, ... not as easy as you might think!

The ability to count might appear as an easy task at first sight. But just hold on for a minute and ask yourself what you are actually doing when you are counting.
Let's assume you are First, you have to be able to perceive whatever you want to count. Second, and now its getting more complicated, you have to process the signal. Let's assume you are human, so - after receiving the first signal - you say "one".

The aim of our project is to design a genetic device working in E.coli able to count and memorize the occurrences of an input signal. This functionality is achieved by utilization of auto-inducing loops, that act as memory units, and an engineered riboregulator, acting as an AND gate. Each increase of the counter will result in a different state of the system that will subsequently lead to a defined output signal.

The design of the device is modular. This means, that both input and output signals can be changed freely, without disturbing the functionality of the memory system. Also, the design allows implementation of any number of memory units, as the AND gate design enables to extend the system in a hassle-free way. Therefore possible applications of our system range from a memory system of a turing complete machine, through bacteria used as biosensors measuring the number of occurrences of an event in a process, to bacteria that can perform multi-step bioconversions sequentially all by themselves without the need of changing them to another strain.

Our research is strongly depend on modelling support. We have created a genetic algorithm that will enable us to predict and calculate parameters of the parts used in the designed system. The framework of the model will be made usable for other researchers via a cloud-based application. We have also generated a bi-stability model, that furthermore includes predictions about the stability of information stored in the bi-stable switches.