The Sunderland midfielder has featured in Wales' last two Group A fixtures - a 2-1 triumph over the Scots in Cardiff on October 12 and the 2-0 defeat in Croatia four days later.
He will miss the reverse against Gordon Strachan's men at Hampden Park but the Football Association of Wales confirmed the 30-year-old will rejoin the squad before next week's encounter with Croatia at Swansea's Liberty Stadium.
Vaughan's withdrawal gives Coleman yet another selection headache after Liverpool midfielder Joe Allen and Leeds striker Steve Morison were ruled out over the weekend, while there are also doubts over star man Gareth Bale.
The winger suffered an ankle knock in Tottenham's 1-0 defeat against Fulham on Sunday, although it is believed there are no doubts the 23-year-old will be available for the 'Battle of Britain' clash.
- Sports & Recreation
- Football Association of Wales