The ABC reports the employee had direct contact with the public as part of their job, however the airline would not comment further on the staff member's position for privacy reasons.
Virgin Australia said it was in regular contact with all its staff to offer the latest information about the virus and proper hygiene practices and cleaning.
The diagnosis comes as Virgin Australia announced an innovative new cleaning chemical would be used on its planes, lounges and clubs to help protect passengers against the spread of germs.
The airline said the spray chemical, DuroPax – which has never been used in Australia before – created a barrier on surfaces that could last for 48 hours.
"In the current climate we know that aircraft cleanliness is of utmost importance for guests so we hope this new product will put travellers at ease," Virgin Australia general manager product and customer experience Sarah Adam said.
Coronavirus has been a major source of pain for the aviation industry as airlines slash routes and face heavy losses due to government-issued travel bans and general anxiety around travel during the pandemic.
Qantas and Virgin Australia are among the carriers that have axed services to China and across Asia in response to weaker demand due to the coronavirus outbreak.
They have also slashed airfares in an attempt to woo back deterred travellers, such as Virgin Australia's $250 business class sale, announced today.
Globally, airlines look set to lose about $44.7 billion in revenue this year as a result of the virus crisis, according to the International Air Transport Association, while analysts say the impact of the crisis on the industry will be bigger than the September 11 terror attacks.