Originally published as Genetics Published Articles Ahead of Print on June 18, 2008.

Genetics, Vol. 179, 1237-1250, July 2008, Copyright © 2008
doi:10.1534/genetics.108.088161

DNA Damage Differentially Activates Regional Chromosomal Loci for Tn7 Transposition in Escherichia coli

Qiaojuan Shi, Adam R. Parks, Benjamin D. Potter, Ilan J. Safir, Yun Luo, Brian M. Forster and Joseph E. Peters1

Department of Microbiology, Cornell University, Ithaca, New York 14853

1 Corresponding author: 175A Wing Hall, Cornell University, Ithaca, NY 14853.
E-mail: jep48{at}cornell.edu

The bacterial transposon Tn7 recognizes replicating DNA as a target with a preference for the region where DNA replication terminates in the Escherichia coli chromosome. It was previously shown that DNA double-strand breaks in the chromosome stimulate Tn7 transposition where transposition events occur broadly around the point of the DNA break. We show that individual DNA breaks actually activate a series of small regional hotspots in the chromosome for Tn7 insertion. These hotspots are fixed and become active only when a DNA break occurs in the same region of the chromosome. We find that the distribution of insertions around the break is not explained by the exonuclease activity of RecBCD moving the position of the DNA break, and stimulation of Tn7 transposition is not dependent on RecBCD. We show that other forms of DNA damage, like exposure to UV light, mitomycin C, or phleomycin, also stimulate Tn7 transposition. However, inducing the SOS response does not stimulate transposition. Tn7 transposition is not dependent on any known specific pathway of replication fork reactivation as a means of recognizing DNA break repair. Our results are consistent with the idea that Tn7 recognizes DNA replication involved in DNA repair and reveals discrete regions of the chromosome that are differentially activated as transposition targets.