a realization of information gate by using enterococcus faecalis pheromone system kenichi...

A Realization of Information Gate by UA Realization of Information Gate by Using sing Enterococcus faecalisEnterococcus faecalis Pheromon Pheromone Systeme System

Kenichi Wakabayashi and Masayuki Yamamura

Preliminary Proceedings of the 7th International Meeting on DNA Based Computers (DNA7)

pp. 199-207

Cho, Dong-Yeon

(C) 2001 SNU CSE Biointelligence Lab

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IntroductionIntroduction

Investigations that make use of organisms Simple computer-memory using plasmid A single carrier by making use of gene regulation syste

m of E. coli

In vivo computing Cells are able to be stocked up on a large scale as well a

s proteins and DNA. We can construct the highly parallel devices with these

materials. Cells have many control-regulated functions that we ca

nnot easily reproduce in vitro.


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Organic Materials in Organic Materials in Molecular ComputingMolecular Computing Information Carrier with Organic Materials

Cell-to-cell signal carrier with E. coli Pheromone producing and pheromone receiving cells It can produce luminescence protein only when two types of c

ells exist together.

Pheromone-induced Conjugation of Enterococcus faecalis Enterococcus faecalis and their pheromones induce con

jugative plasmid transfer. There are a few pheromone inhibitors secreted by male

E. faecalis.


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Design of Design of E. faecalisE. faecalis Information G Information Gateate

We can regard pheromone and plasmid as a kind of INPUT and OUTPUT. Entry of INPUT signal A and B i

nto the information gate. Data processing by E. faecalis ph

eromone system. Discharging of OUTPUT signal

X from the information gate.


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Realization Plan of Realization Plan of Information GateInformation Gate Outlines of Experimental Procedure

Input signals are virtually expressed by a combination of two pheromone inhibitors.


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Model of E. faecalis information gate


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Experimental Confirmation of Information Gate Four transfer-plasmids that contain antibiotic resistance

genes as a marker We will test if the entire procedure is correctly done by additio

n of antibiotic substances. If specificity of conjugation manner is enough, recipients can s

urvive under presence of only one class of antibiotic substance.


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DiscussionsDiscussions Features of E. faecalis information gate

Variety of conjugative plasmid There are up to 20 classes of conjugative plasmid. More complicated system may be able to construct with designin

g with additional a few plasmid.

Sensitivity to pheromones Transferability Kinetics

Entire reaction of E. faecalis information gate is comparably slow.

Other aspects Conjugation system of E. faecalis is inducible by pheromone, incl

udes homogenous conjugation, and carries highly aggregates.


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Cascading of Information Gate E. faecalis information gate is able to be piled up if we

design plasmids so as to produce certain classes of pheromone inhibitors.

We can set I3 and I4 inhibitor genes in p1 plasmid: OUTPUT signal ‘A=0’

We can set signal freely in every four plasmids. For example, we can set output signals {0, 0, 0, 1} in the four

plasmids {p1, p2, p3, p4} AND operation We can manage all types of Boolean operation and freely accu

mulate them.

Scale of Information Gate – Future Work


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ConclusionsConclusions

This paper introduces an information gate by using E. faecalis pheromone system.

E. faecalis information gate brings a different new look in molecular computing.

E. faecalis has experimentally some difficulties.

a realization of information gate by using enterococcus faecalis pheromone system kenichi...

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