The girl caught the virus playing near sick chickens at her home in southeastern Prey Veng province and died on Tuesday after suffering fever, coughing and breathing difficulties, the health ministry said in a statement.
The toddler “slept and played” near a chicken cage at her family home where about 15 birds died and others are sick, it added.
Last month, a 28-year-old Cambodian man also died from bird flu after eating infected chicken meat.
The WHO called on all countries to step up influenza surveillance and reporting in animals and humans, and for nations to share samples and genetic sequences.
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