In vivo generation of DNA sequence diversity for cellular barcoding

Peikon, I. D., Gizatullina, D. I., Zador, A. M. (July 2014) In vivo generation of DNA sequence diversity for cellular barcoding. Nucleic Acids Res, 42 (16). ISSN 0305-1048

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URL: http://www.ncbi.nlm.nih.gov/pubmed/25013177
DOI: 10.1093/nar/gku604

Abstract

Heterogeneity is a ubiquitous feature of biological systems. A complete understanding of such systems requires a method for uniquely identifying and tracking individual components and their interactions with each other. We have developed a novel method of uniquely tagging individual cells in vivo with a genetic 'barcode' that can be recovered by DNA sequencing. Our method is a two-component system comprised of a genetic barcode cassette whose fragments are shuffled by Rci, a site-specific DNA invertase. The system is highly scalable, with the potential to generate theoretical diversities in the billions. We demonstrate the feasibility of this technique in Escherichia coli. Currently, this method could be employed to track the dynamics of populations of microbes through various bottlenecks. Advances of this method should prove useful in tracking interactions of cells within a network, and/or heterogeneity within complex biological samples.

Item Type: Paper
Subjects: bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification
Investigative techniques and equipment > probes > DNA probes
CSHL Authors:
Communities: CSHL labs > Zador lab
Watson School > Publications
Depositing User: Matt Covey
Date: 10 July 2014
Date Deposited: 18 Jul 2014 15:08
Last Modified: 05 Dec 2014 20:36
PMCID: PMC4176322
Related URLs:
URI: http://repository.cshl.edu/id/eprint/30537

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