As spy claims ricocheted across the Atlantic in a row that has frazzled ties between US and European allies, two high-ranking Berlin officials will seek answers and fresh rules on intelligence cooperation, Merkel's spokesman said.
Steffen Seibert told reporters the talks were aimed at clarifying the allegations and working out "a new basis of trust and new regulation for our cooperation in this area."
France, Italy and Spain have also protested after media reports, based on leaks from fugitive US analyst Edward Snowden, that Washington collected tens of millions of European telephone calls and online communications as part of anti-terror operations.
Spanish Prime Minister Mariano Rajoy said the snooping, if confirmed, was "inappropriate and unacceptable between partners and friends" after a report alleged that more than 60 million telephone calls in Spain were spied on by the US National Security Agency (NSA) in a month.
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And they dismissed as "completely false" allegations that American spy agencies had swept up vast amounts of communications data.
France responded coolly, describing as "unlikely" the allegations that European spy agencies shared phone call records with US intelligence.
National Security Council spokeswoman Caitlin Hayden said in a statement that Obama and Merkel had recently agreed in a phone call "to intensify further the cooperation between US and German intelligence services".
National Security Advisor Susan Rice, Director of National Intelligence James Clapper and counter-terrorism advisor Lisa Monaco would meet the Germans, Hayden said.
"This process of clearing up the facts will last some time still," Seibert said, adding the heads of German foreign and domestic intelligence services would also travel to Washington in the coming days.