In total, 5,238 people have perished since January 1, or 951 more than at the same point in 2015, the Geneva-based IOM said in a statement.
The Mediterranean Sea route, used by nearly 330,000 people in 2016 seeking a new life in Europe, remains the world's deadliest.
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IOM put the number of dead and missing on that route at 3,930 for the year, but the two partner agencies often have different figures.
Migrant deaths also rose to 500 this year in Latin America, with people on the move killed by a range of causes including dehydration, vehicle accidents and murder.
IOM noted that in 60 per cent of cases the bodies of migrants who perish are never recovered.
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