Universität zu Köln

Zhao, Jia, Pokhilko, Alexandra, Ebenhoeh, Oliver ORCID: 0000-0002-7229-7398, Rosser, Susan J. and Colloms, Sean D. (2019). A single-input binary counting module based on serine integrase site-specific recombination. Nucleic Acids Res., 47 (9). S. 4896 - 4910. OXFORD: OXFORD UNIV PRESS. ISSN 1362-4962

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Abstract

A device that counts and records the number of events experienced by an individual cell could have many uses in experimental biology and biotechnology. Here, we report a DNA-based 'latch' that switches between two states upon each exposure to a repeated stimulus. The key component of the latch is a DNA segment whose orientation is inverted by the actions of phi C31 integrase and its recombination directionality factor (RDF). Integrase expression is regulated by an external input, while RDF expression is controlled by the state of the latch, such that the orientation of the invertible segment switches efficiently each time the device receives an input pulse. Recombination occurs over a time scale of minutes after initiation of integrase expression. The latch requires a delay circuit, implemented with a transcriptional repressor expressed in only one state, to ensure that each input pulse results in only one inversion of the DNA segment. Development and optimization of the latch in living cells was driven by mathematical modelling of the recombination reactions and gene expression regulated by the switch. We discuss how N latches built with orthogonal site-specific recombination systems could be chained together to form a binary ripple counter that could count to 2N - 1.

Item Type:	Journal Article
Creators:	Creators Email ORCID ORCID Put Code Zhao, Jia UNSPECIFIED UNSPECIFIED UNSPECIFIED Pokhilko, Alexandra UNSPECIFIED UNSPECIFIED UNSPECIFIED Ebenhoeh, Oliver UNSPECIFIED orcid.org/0000-0002-7229-7398 UNSPECIFIED Rosser, Susan J. UNSPECIFIED UNSPECIFIED UNSPECIFIED Colloms, Sean D. UNSPECIFIED UNSPECIFIED UNSPECIFIED
URN:	urn:nbn:de:hbz:38-147989
DOI:	10.1093/nar/gkz245
Journal or Publication Title:	Nucleic Acids Res.
Volume:	47
Number:	9
Page Range:	S. 4896 - 4910
Date:	2019
Publisher:	OXFORD UNIV PRESS
Place of Publication:	OXFORD
ISSN:	1362-4962
Language:	English
Faculty:	Unspecified
Divisions:	Unspecified
Subjects:	no entry
Uncontrolled Keywords:	Keywords Language PHI-C31 INTEGRASE; ESCHERICHIA-COLI; TIGHT REGULATION; LOGIC; DIRECTIONALITY; REPLICATION; EXPRESSION; NETWORK; PROTEIN; MEMORY Multiple languages Biochemistry & Molecular Biology Multiple languages
Refereed:	Yes
URI:	http://kups.ub.uni-koeln.de/id/eprint/14798