I read the story twice- they didn't stop it. The disease ran its course after spreading around the hospital for months. They had to run hundreds of tests on patients that would have been unnecessary otherwise. They managed to contain it to a degree with a massive conventional effort.
All the tales of KPC being able to spread in ways they couldn't account for before DNA sequencing is a lie. It's a bacteria- when you don't succeed in a fully sterile isolation it spreads so this:
The woman went into strict isolation: Everyone entering her room donned a protective gown and gloves and rigorously washed their hands. Her medical equipment got special decontamination. All other patients in the ICU had their throats and groins tested regularly to see if the bug was spreading.
...contains some kind of lie. The patient was obviously not received in isolation so someone upstream screwed up big-time at a minimum.
All the DNA sequencer did was confirm what they should have already known- and perhaps got those digi-dependent technocrats to move and do the right thing after the fact.
Technology doesn't replace due diligence. Nature is not tamed yet.