Excalibur, now dead, howling for his masters, who are quarantined in a Spanish hospital
Activists scuffled with police outside her home as the dog was taken away.
The nurse, Teresa Romero, is the first person known to have contracted the deadly virus outside West Africa.
She had treated two missionaries who later died from Ebola. The virus has killed 3,879 people, mostly in Liberia, Sierra Leone and Guinea.
A court order to euthanise Ms Romero's dog was issued on Tuesday despite uncertainty over whether the animal was also infected or risked spreading the disease.
On Wednesday about 50 animal rights activists held a protest outside the nurse's home in Madrid, shouting "assassins".
Two protesters were hurt when they tried to stop the van in which the animal was being transported, El Pais newspaper reported.
The fate of the dog, named Excalibur, sparked huge interest on social networks, after Ms Romero's husband, who like her is being kept in isolation in a hospital, alerted animal protection groups via social networks.
Comment: Hepburn, the author of the bile you can read above, is apparently a former "senior policy adviser" for the Canadian government, a founding member of the "Canadian Group for Democracy in Ukraine", and daughter of a survivor of Auschwitz. Unfortunately, she appears to be living in a fantasy world of her own creation, resembling the early '90s. It's been 20+ years, and still she sees the shadow of the Soviets under every bed, apparently. Speaking of the "Canadian Group for Democracy in Ukraine", check out their press release from 2013 of last year: They have got to be kidding... Well, no, actually. They've just got to be crazy.