It comes just a day after the couple made their debut on the BBC dance show.
The BBC said in a statement: “Tom Fletcher and Amy Dowden have tested positive for Covid-19. The couple are now self-isolating separately in accordance with the latest government guidelines.
“While they will both miss the Saturday live show, the Strictly Come Dancing protocols mean that all is well, they will be back the following week. “
It comes amid a series of vaccines brewing behind the scenes, where three professional dancers are believed to have “refused” to be vaccinated.
Pro Amy, 30, was one of the first in her age group to receive the vaccine because she suffers from Crohn’s disease, an inflammatory bowel disease.
Previously, she had confided in The Mirror about being the victim of an early punch, saying people “write without thinking”.
Three other professionals – who have not been named – are said to be the only ones in 18 not to be vaccinated in this series.
A source previously warned that producers “fear” a coronavirus outbreak on set – and news that a celebrity and her partner have already contracted the virus does not bode well for the rest of the series.
Covid previously wreaked havoc and the latest round of Strictly and Dancing On Ice, which saw a number of couples pressured to quit the competition soon after catching it.
An insider previously told The Sun: “Dancers who won’t get vaccinated have been a topic of conversation between cast and crew for weeks – even before testing positive.
“There were vocal protests from celebrities that they didn’t want to be paired with them.
“It’s a headache for bosses, but employers can’t force workers to get bitten. “
They added that their position annoyed other pros, who got bitten for the sake of the show.
Earlier today, McFly confirmed via social media that Tom had withdrawn from the band’s concert in Glasgow tonight after falling ill.
They said in a statement: “Unfortunately Tom is not doing well and will not be on stage with us tonight in Glasgow. He offers his most sincere apologies to all the fans he won’t see tonight. The show will go on, we ‘I can’t wait to see you all and I need you to sing real loud for us tonight. ”
Tom retweeted the group’s post, adding, “So sorry. “