The virus was found in the samples of poultry taken in a small village near the Black Sea city of Samsun. Measures are under way to cull chickens to contain the disease, the ministry said.
It was not yet clear whether the virus was the deadly H5N1 strain, which has killed at least 219 people worldwide so far.
In mid-January, Turkish authorities confirmed an H5N1 virus in a village near the Black Sea city of Zonguldak.
In January 2006, four people died of bird flu in Turkey and Turkish authorities had to impose quarantine measures in many districts of the country.
Although no cases of human-to-human transmission of H5N1 have been reported, scientists fear the virus could mutate into a strain that could pass easily between people, causing a global pandemic.
