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The news comes less than three months after the couple married in an intimate wedding ceremony at Westminster Cathedral.
In a post to her Instagram, Ms Johnson revealed that she had suffered a miscarriage earlier in the year, and feels “incredibly blessed to be pregnant again”.
She said she is expecting to give birth to the baby in December.
“At the beginning of the year, I had a miscarriage which left me heartbroken,” she wrote. “I feel incredibly blessed to be pregnant again but I’ve also felt like a bag of nerves.”
Opening up about her miscarriage, Ms Johnson said she had found comfort in speaking to others who had also experienced a similar loss.
“Fertility issues can be really hard for many people, particularly when on platforms like Instagram it can look like everything is only ever going well.
“I found it a real comfort to hear from people who had also experienced loss so I hope that in some very small way sharing this might help others too,” she said.
Her announcement suggests that she was pregnant at the time of their wedding.
The couple were engaged in late 2019 and welcomed their first child, a son named Wilfred Lawrie Nicholas Johnson, in April 2020.
While this baby will be Ms Johnson’s second child, Mr Johnson is more familiar with the experience of parenthood. However, the exact number of offspring the prime minister has remains unclear.
Here is everything you need to know about Mr Johnson’s children.
When was the prime minister’s youngest baby born?
The youngest of Mr Johnson's children is his son with Carrie Symonds who was born on 29 April 2020.
The couple first announced that they were expecting a child in February 2020 and told the public that the child would be born in the early summer.
How many other children does Boris Johnson have?
It is believed that the prime minister has seven children, however, he has not officially confirmed the exact number.
What is known is that the prime minister and his second wife, Marina Wheeler, who separated in 2018, have four children together: Lara Lettice, 27, Milo Arthur, 25, Cassia Peaches, 23, and Theodore Apollo, 21.
Mr Johnson also has a fifth child, Stephanie Macintyre, who was fathered as a result of an affair with art consultant Helen Macintyre.
The Appeal Court ruled in 2013 that the public had a right to know that he had fathered a daughter during an adulterous liaison while Mayor of London in 2009.
“The core information in this story, namely that the father had an adulterous affair with the mother, deceiving both his wife and the mother’s partner and that the claimant, born about nine months later, was likely to be the father’s child, was a public interest matter which the electorate was entitled to know when considering his fitness for high public office,” the court said.
Why is the number of children Mr Johnson has vague?
During the court proceedings, it was alleged that Stephanie Macintyre was one of two children the prime minister fathered as a result of an affair.
The three appeal court judges said: “It was not material to the judge's conclusion whether contraceptive precautions were taken.
“What was material was that the father's infidelities resulted in the conception of children on two occasions.”
Has the prime minister ever spoken publicly about his children?
Boris Johnson has famously diverted questions about his family and personal life, especially during the election campaign in 2019.
During a radio interview with LBC, presenter Nick Ferrari asked the prime minister how many children he had and if he was “fully involved” in their lives.
The prime minister responded: “I love my children very much but they are not standing at this election.
“I'm not therefore going to comment on them.”
He added: ”I am not going to put them onto the pitch in their election campaign when I think what people want to hear is what my plans are for the country, what this government is determined to do and how we are going to take this country forward.
“That is the way all parties should be judged.”