Enzyme

Expected kDNA Products

Topo I

None (all catenated kDNA networks).

Topo II

Decatenated kDNA monomers, Relaxed (nicked and circular species)

Topo II + catalytic inhibitor

None (all catenated kDNA networks) since enzyme action is blocked

Topo II + Poison

Linear and/or nicked (open circular) DNA monomers

DNA Gyrase

Decatenated kDNA monomers that are supercoiled (some nicked monomers may be detected as well; since they are nicked, supercoiling cannot be detected).

Xho1

Linear kDNA monomers (2.5 kilobases)

Nuclease Contamination

Degradation products less than 2.5 kilobases in length.