The intelligence agency said that William Burns tested positive for Covid-19 on Thursday.
Burns was wearing an N-95 mask when he met with President Joe Biden on Wednesday.
Director Burns is sharing the news of his positive test out of an abundance of transparency, according to the intelligence agency.
Burns will work from home, but he will still perform his duties as CIA director. He will return to the office after a negative test. The agency said that Burns had mild symptoms.
Two other virus cases have been reported within Biden's circle.
The White House deputy press secretary tested positive for Covid-19. Her positive test result came a few days after White House press secretary Jen Psaki tested positive for the virus, which prevented her from traveling with Biden to Belgium and Poland.
After two socially distanced meetings, Biden was not considered a close contact.
The second gentleman tested positive for Covid-19. Following the positive test result, the White House said that Vice President Kamala Harris would skip a scheduled event.
Biden received his fourth vaccine on Wednesday.