Police fired tear gas to disperse the demonstrators who took to the streets in the latest protest against the country's former colonial power.
Ibrahim Traore becomes interim president and warns in a speech the West African country is "confronted with a security and humanitarian crisis without precedent."
Demonstrators chant support for Moscow, demand France exit the West African country and warn regional bloc ECOWAS against "meddling".
More than a dozen members of Burkina Faso's army seize control of state TV, declaring the country's coup leader-turned-president Paul Henri Sandaogo Damiba, has been overthrown.
Several main roads in the capital Ouagadougou have been blocked by troops, with state television broadcasting a blank screen.
A vehicle heading to the nation's capital hit an improvised explosive device, killing at least 35 people and wounding another 37, the military government said.
African and Western powers denounce what they called an "attempted coup" and the EU demands "immediate" release of President Roch Marc Christian Kabore.
The government denies rumours that a coup was under way as sustained gunfire rang out for hours from several military camps.
Soldiers in poor landlocked African country stage mutinies at several barracks to demand sacking of military top brass and allocation of more resources to seven-year battle against insurgents.
National flag lowered to half-mast at the parliament, presidency and government offices in capital Ouagadougou following Wednesday’s deadly raid in Burkina’s Sahel region that killed 65 civilians and 15 gendarmes.
Some towns weren’t able to conduct voting at all, including Bartiebougou and Tin Akoff, where 14 soldiers were killed in an ambush by Daesh earlier this month.
Burkina votes in second election since 2014 revolution with around 400,000 people unable to vote due to violence.
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