Test samples from the two patients "revealed the presence of the Ebola haemorrhagic fever virus", the government said in a statement yesterday, while officials feared further suspected cases.
"For now, we have two confirmed cases and three suspected cases," it added.
All five are from the town of Korokpara in the southern region of Nzerekore.
"The health authorities have taken the appropriate measures to contain the spread of the disease," the statement added.
The UN health agency confirmed Guinea's new cases on its Twitter account.
"WHO confirms that two people have tested positive for #Ebola in N'zerekore Prefecture, #Guinea," it said.
A source close to the local anti-Ebola coordination team told AFP that the two deceased patients were a married couple who had both shown symptoms of vomiting and diarrhoea.
"That attracted the attention of local people who alerted the health services in NZerekore," he said on condition of anonymity.
Nearly all of the deaths occurred in the three hardest-hit west African countries of Guinea, Sierra Leone and Liberia.
While the WHO hailed the fact that Sierra Leone had seen no new cases for 42 days -- or two Ebola incubation cycles -- as "a milestone" earlier yesterday, it also warned that a recurrence of the tropical disease remained a possibility.
"WHO continues to stress that Sierra Leone, as well as Liberia and Guinea, are still at risk of Ebola flare-ups, largely due to virus persistence in some survivors, and must remain on high alert and ready to respond," it said in a statement.
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