Design of an irreversible DNA memory element

被引：2

作者：

Blenkiron M. ^{[1
]}

Arvind D.K. ^{[1
]}

Davies J.A. ^{[2
]}

机构：

[1] Institute for Computing Systems Architecture, School of Informatics, University of Edinburgh, Edinburgh

[2] Centre for Integrative Physiology, School of Biomedical Sciences, University of Edinburgh, Edinburgh EH8 9AG, Anatomy Building

来源：

Natural Computing | 2007年 / 6卷 / 4期

关键词：

DNAcomputing; Latch; Memoryelement; Rotatable; Synthetic biology;

D O I：

10.1007/s11047-007-9051-y

中图分类号：

学科分类号：

摘要：

We present the design of a novel, irreversible memory element for use in artificial DNA-based computing systems and provide 'wet-ware' demonstrations of the validity of key assumptions of our design. The mechanism makes use of a DNA switch with a rotatable mid-section that contains a bacterial promoter and non-rotatable end sections, each of which contains a gene encoding a different fluorescent protein. The state (orientation) of the rotatable mid-section is therefore reported by the fluorescent colour produced when the plasmid is in a system that permits transcription and translation. Rotation of the mid-section from the unset to the set state is achieved by digestion of specific sites on the switch by the asymmetric restriction enzyme, Bpu10I, followed by ligation. Once set, the rotatable section cannot be cut again by the enzyme, so that state is held irreversibly even when exposed again to the switching signal. This mechanism has potential applications for permanently recording, in DNA, the occurrence of transient events. © Springer Science+Business Media B.V. 2007.

引用

页码：403 / 411

页数：8

共 20 条

[1]

Adleman L.M., Molecular computation of solutions to combinatorial problems, Science, 266, pp. 1021-1024, (1994)

[2]

Atkinson M.R., Savageau M.A., Myers J.T., Ninfa A.J., Development of genetic circuitry exhibiting toggle switch or oscillatory behavior in Escherichia coli, Cell, 113, pp. 597-607, (2003)

[3]

Benenson Y., Paz-Elizur T., Adar R., Keinan E., Livneh Z., Shapiro E., Programmable and autonomous computing machine made of biomolecules, Nature, 414, pp. 430-434, (2001)

[4]

Braich R.S., Chelyapov N., Johnson C., Rothemund P.W., Adleman L., Solution of a 20-variable 3-SAT problem on a DNA computer, Science, 296, pp. 499-502, (2002)

[5]

Cai J., DuBow M.S., Use of a luminescent bacterial biosensor for biomonitoring and characterization of arsenic toxicity of chromated copper arsenate (CCA), Biodegradation, 8, pp. 105-111, (1997)

[6]

Chang W.L., Guo M., Ho M.S., Fast parallel molecular algorithms for DNA-based computation: Factoring integers, IEEE Trans Nanobioscience, 4, pp. 149-163, (2005)

[7]

Elowitz M.B., Leibler S., A synthetic oscillatory network of transcriptional regulators, Nature, 403, pp. 335-338, (2000)

[8]

Forster A.C., Church G.M., Towards synthesis of a minimal cell, Mol Syst Biol, 2, (2006)

[9]

Gardner T.S., Cantor C.R., Collins J.J., Construction of a genetic toggle switch in Escherichia coli, Nature, 403, pp. 339-342, (2000)

[10]

Gomada M., Inouye S., Imaishi H., Nakazawa A., Nakazawa T., Analysis of an upstream regulatory sequence required for activation of the regulatory gene xylS in xylene metabolism directed by the TOL plasmid of Pseudomonas putida, Mol Gen Genet, 233, pp. 419-426, (1992)

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