More than 10,000 susceptible birds have been killed as a result, according to the Office International des Épizooties (OIE), the world animal health organisation.
The outbreak began on 13 March, in the Dutch village of Bruchem. The Central Veterinary Institute, in Lelystad, screened a one-kilometre zone established as infected. All birds susceptible to the disease were destroyed.
Officials have also controlled movement of the animals inside the Netherlands.
The cause of the outbreak is unknown, and the virus could still be spreading, according to the OIE report.
This case follows another outbreak in the Netherlands last month, where more than 40,000 chickens were killed due to the spreading of the H5N1 strain. Previously, the country had not seen an avian flu outbreak since July 2013.
Elsewhere, there was an outbreak of the H5N1 strain in Libya recently, affecting backyard chickens and ducks in Kroum Alkhail, near Tubruq (Tobruk). All 50 birds affected were destroyed. The OIE has established that the outbreak, which began on 4 March, was due to illegal movement of the stock within Libya.