Buffon was set to appear before the media at the Arena da Amazonia on Friday evening following an hour-long practice session, but instead underwent treatment by physios after leaving training early.
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Paris Saint-Germain keeper Salvatore Sirigu is expected to start in his absence as the Azzurri look to get off to a flying start in Group D.
One positive for Prandelli, however, was the condition of the playing surface in Manaus, with a close inspection arresting fears of an uneven pitch that had been reported in the days leading up to the game.
"Regarding the pitch, the grass was described to me as being in very bad condition, but when I got here it was actually very good," said the 56-year-old.
Prandelli will keep his formation and selection a secret until the last minute, hoping to keep players competing for places.
He believes Roy Hodgson's England are a different prospect to the one Italy overcame on penalties in the Euro 2012 quarter-finals.
"Two years ago we won on penalties but England are a different team, they have changed their system, their style of play," Prandelli said.
"We have to remember the good things we did in the past but we are facing a new team. Especially in attack, they have four players who are very, very good."