Delineation of the integrase-attachment and origin-of-transfer regions of the symbiosis island ICEMlSym R7A

Callum J. Verdonk, John T. Sullivan, Kate M. Williman, Leila Nicholson, Tahlia R. Bastholm, Michael F. Hynes, Clive W. Ronson, Charles S. Bond, Joshua P. Ramsay

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Abstract

Integrative and conjugative elements (ICEs) are chromosomally-integrated mobile genetic elements that excise from their host chromosome and transfer to other bacteria via conjugation. ICEMlSym R7A is the prototypical member of a large family of “symbiosis ICEs” which confer upon their hosts the ability to form a nitrogen-fixing symbiosis with a variety of legume species. Mesorhizobial symbiosis ICEs carry a common core of mobilisation genes required for integration, excision and conjugative transfer. IntS of ICEMlSym R7A enables recombination between the ICEMlSym R7A attachment site attP and the 3′ end of the phe-tRNA gene. Here we identified putative IntS attP arm (P) sites within the attP region and demonstrated that the outermost P1 and P5 sites demarcated the minimal region for efficient IntS-mediated integration. We also identified the ICEMlSym R7A origin-of-transfer (oriT) site directly upstream of the relaxase-gene rlxS. The ICEMlSym R7A conjugation system mobilised a plasmid carrying the cloned oriT to Escherichia coli in an rlxS-dependent manner. Surprisingly, an in-frame, markerless deletion mutation in the ICEMlSym R7A recombination directionality factor (excisionase) gene rdfS, but not a mutation in intS, abolished mobilisation, suggesting the rdfS deletion tentatively has downstream effects on conjugation or its regulation. In summary, this work defines two critical cis-acting regions required for excision and transfer of ICEMlSym R7A and related ICEs.

Original languageEnglish
Article number102416
JournalPlasmid
Volume104
DOIs
Publication statusPublished - 1 Jul 2019

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Verdonk, C. J., Sullivan, J. T., Williman, K. M., Nicholson, L., Bastholm, T. R., Hynes, M. F., ... Ramsay, J. P. (2019). Delineation of the integrase-attachment and origin-of-transfer regions of the symbiosis island ICEMlSym R7A. Plasmid, 104, [102416]. https://doi.org/10.1016/j.plasmid.2019.102416