Passengers flying out of Griffith and Leeton will now have their temperatures checked before boarding by Regional Express (Rex).
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Rex, which had reduced the number of flights in and out of the MIA, announced the new measure would be in place at 55 destinations it services.
The airline said anyone with a temperature outside the normal range won't be allowed to board the plane.
"As an added precautionary measure to protect our passengers, staff and the communities we service during this period of pandemic and national health emergency, all passengers will have their temperature taken by a digital thermometer at check-in (or boarding for web check-in passengers)," Rex's national airports manager David Brooksby said.
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Staff will also have temperature checks when they arrive for their shifts, and changes are planned for the in-flight catering service.
"Although this is not required under any existing regulation, Rex endeavours to space out the seating allocation of all passengers to facilitate social distancing," Mr Brooksby said.
"Unrelated parties will not be assigned seats next to each other where possible."