Closing all transport links with Qatar, the three Gulf states gave Qatari visitors and residents two weeks to leave, and Saudi Arabia, Bahrain and Egypt banned Qatari planes from landing and forbade them from crossing their air space.
At a May summit in Riyadh attended by Trump, the U.S. and Gulf Arab countries signed an agreement to coordinate efforts against the financing of terrorist groups.
Qatar hosts 8,000 United States military personnel at Al-Udeid, the largest USA air base in the region and a launch pad for US-led strikes on ISIS.
Earlier in the day, the president entered the diplomatic spat involving Qatar and major Arab nations over Doha's alleged support of Iran and Islamist militant groups sponsoring terrorism in the region.
Qatar hosts 8,000 USA military personnel at al Udeid, the largest US air base in the Middle East and a launchpad for USA -led strikes on Islamic State jihadists.
"The president emphasized the importance of all countries in the region working together to prevent the financing of terrorist organizations and stop the promotion of extremist ideology" in his call with Qatari ruler Tamim bin Hamad al-Thani, the White House said.
Bahrain's foreign minister said he appreciated Kuwaiti mediation to resolve an Arab row with Qatar, the Saudi newspaper Mecca reported on Wednesday, but that all options were open for his country to protect itself from Doha, Reuters reported.
The Arab world's biggest powers, including Saudi Arabia, Egypt and the United Arab Emirates, cut diplomatic relations with Qatar on Monday, accusing it of supporting Islamist militants and Iran.
That was enough, it seemed, to persuade Qatar the US wasn't abandoning its strategic partner.
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DOHA-BOUND - Overseas Filipino workers queue at a Qatar Airways check-in counter at the Ninoy Aquino International Airport for a flight to Doha Wednesday.
Countries across the globe re increasingly faced with the same conundrum: How much credence to give to the president's Twitter musings when they deviate sharply from US policy?
Trump had previously appeared to side with the Saudis and other nations against Qatar in a series of tweets on Tuesday.
But in Germany, Foreign Ministry spokesman Martin Schaefer pointed out that Trump's words differed substantially from those of State Department and Pentagon officials. "But what the position of the United States of America.is something I can't really say".
Other countries also are offering to intervene, and it's not clear if Trump will end up as the primary mediator.
A White House summit seemed an unlikely possibility.
Asked if he expects Qatar to change its policies at home and in the region, he replied "Our hope that this is the case".
CNN and The Guardian have also reported that the Federal Bureau of Investigation believes Russian hackers planted a false story about the emir of Qatar in recent weeks, potentially contributing to the crisis. Container and oil terminals in the UAE also closed off traffic to any ships touching Qatar, according to separate statements from three port operators.
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