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A system was previously developed for conducting I- Sce I-mediated allelic exchange in  Bacillus anthracis . In this system, recombinational loss of a chromosomally-integrated allelic exchange vector is stimulated by creation of a double-stranded break within the vector by the homing endonuclease I- Sce I. Although this system is reasonably efficient and represents an improvement in the tools available for allelic exchange in  B .  anthracis , researchers are nonetheless required to “pick and patch” colonies in order to identify candidate "exchangeants." In the present study, a number of improvements have been made to this system: 1) an improved I- Sce I-producing plasmid includes  oriT  so that both plasmids can now be introduced by conjugation, thus avoiding the need for preparing electro-competent cells of each integration intermediate; 2) antibiotic markers have been changed to allow the use of the system in select agent strains; and 3) both plasmids have been marked with fluorescent proteins, allowing the visualization of plasmid segregation on a plate and obviating the need for “picking and patching.” These modifications have made the process easier, faster, and more efficient, allowing for parallel construction of larger numbers of mutant strains. Using this improved system, the genes encoding the tripartite anthrax toxin were deleted singly and in combination from plasmid pXO1 of Sterne strain 34F2. In the course of this study, we determined that DNA transfer to  B .  anthracis  could be accomplished by conjugation directly from a methylation-competent  E .  coli  strain.

Improvements to a Markerless Allelic Exchange System for Bacillus anthracis