As a result, the Mission said, "there is a serious need for dialogue" between the Trump administration and African countries.
She stressed that the United States was "much stronger than the sum total of one man".
On Monday, the department took that same action against immigrants from El Salvador, another country reportedly mentioned at an immigration meeting Thursday.
The outcry over Trump's remarks dominated news coverage on Friday and has complicated efforts to reach a deal on immigration. Trump allegedly said after being presented with a proposal to restore protections for immigrants from the countries in question.
"You can not dismiss entire countries and continents as "s***holes" whose entire populations, who are not white, are therefore not welcome", said Rupert Colville, spokesman for the United Nations human rights office. The Associated Press, however, reported that Trump privately defended the alleged comment, arguing it wasn't racist but "straightforward".
Reacting to the remarks made by Trump, Rupert Colville, spokesman of the United Nations human rights office, said: "You can not dismiss entire countries and continents as shitholes ..."
"President Trump, One day, I'll take you to a "s***hole" country called Ghana", wrote Ghanaian Edmond Prime Sarpong on Facebook.
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He tweeted: "God made me African. We have consistently been portrayed as shitty people from shitty countries".
"Please don't confuse the #s***hole leaders we Africans elect with our handsome continent ..."
Trump was widely condemned by many African countries and by worldwide rights organisations for the comments. We will not accept such insults, even from a leader of a friendly country, no matter how powerful.
Botswana calls on the Southern African Development Community (SADC), the African Union and all other progressive nations across the world to strongly condemn the remarks made by President Trump.
The US has about a little over 6,000 forces in Africa in about 53 different countries, where they focus on countering extremist groups and illicit activity, as well as peacekeeping, humanitarian aid and disaster response.
Addressing the media ahead of the ANC's January 8 statement in East London, deputy secretary general Jessie Duarte described Trump's comments as "unfortunate".
South African comedian Trevor Noah, star of America's The Daily Show, described himself as an offended citizen of "South Shithole" and also criticised Mr Trump's preferred choice of Norway for immigrants.