The last known Ebola patient in the west African country was discharged from hospital in April.
WHO declares the end to an outbreak, also known as the end to viral transmission, 42 days after the last known patient tests negative for the second time.
"WHO commends the Government of Guinea and its people on ending this Ebola outbreak," said Abou Bekr Gaye, the UN agency's representative in Guinea.
He called for vigilance to "stop any new cases that may occur."
In the three countries hit hardest by the Ebola crisis -- Guinea, Liberia and Sierra Leone -- fresh cases emerged after an outbreak was declared over.
The worst-ever Ebola epidemic began in Guinea in December 2013 and went on to kill more than 11,300 people, devastating economies and health systems in the worst affected countries, while testing the world's capacity to respond to a global health emergency.
AFP