Gregoire Ndahimana was arrested yesterday Tuesday in the east of the country, an ICTR official said.
"Measures have been taken for him to be transferred to ICTR headquarters in Arusha in Tanzania," the official told AFP.
Accused of genocide and crimes against humanity, the former mayor of the town of Kivumu is alleged to have played a role in the massacre of more than 1,000 Tutsis who took refuge in the Catholic church in the village of Nyange.
They were buried alive under the rubble when the church was bulldozed.
According to the prosecution, Ndahimana helped prepare the massacre.
A Catholic priest, Athanase Seromba, was sentenced to life by the ICTR appeals court in 2008 for his role in the same massacre.
ICTR prosecutor Hassan Bubacar Jallow has said most of the 12 genocide suspects sought by the ICTR are in hiding in DR Congo.
Formed in late 1994, the UN-backed ICTR is responsible for judging primary suspects in the Rwanda genocide.
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SIC: AFP