In the first incident, two bombs exploded late Wednesday in the central island of Leyte, wounding 33 people who were watching a boxing match in Hilongos, government officials said.
Another unexploded bomb was also found in the town, which is about 620 kilometres south of Manila, said the town's mayor Albert Villahermosa.
A bomb went off on a highway on the southern island of Mindanao barely an hour later, wounding six people, the military said.
"A lamppost was catapulted from the impact of the explosion," said Lieutenant Colonel Edgar Delos Reyes.
Police said it was too early to say if Wednesday's bombings were connected or what the perpetrators' motives might be.
Mindanao has been wracked by bombings and other forms of violence carried out by Muslim extremists who consider the region their ancestral homeland, waging a decades-long independence struggle that is believed to have claimed more than 120,000 lives.
Muslim extremists have also been blamed for attacks outside Mindanao, such as the discovery of a bomb near the US embassy in Manila in November.
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