The French Football Federation was also forced to release a statement clarifying the situation.
French Football Federation president Jean-Pierre Escalettes, meanwhile, is pleased with the decision to punish Chelsea.
And the French Football Federation (FFF) has no intention of proposing a replay, BBC Sport has learned.
Anelka later refused to apologise when asked to do so by French Football Federation president Jean-Pierre Escalettes.
Contractual issues with the French Football Federation have delayed Houllier's arrival and MacDonald is in charge for Saturday's game with Bolton.
Nicolas Anelka has been banned for two matches by the French football federation, after refusing a late call-up to international duty.
French Football Federation president Jean-Pierre Escalettes promised to hold a meeting in July to determine responsibility for France's embarrassing World Cup campaign.
French Football Federation chairman Claude Simonet caused confusion with an initial statement that said Zidane would definitely miss the first two games.
Ms Jouanno said the future of the national technical director, Francois Blaquart, who was suspended after the revelations, would be decided by the French Football Federation (FFF).
The affair has plunged the French Football Federation (FFF) into controversy less than a year after Laurent Blanc was brought in to sort out the national team, after its embarrassing performance at last year's World Cup.
Houllier was named the new Villa manager on Friday but his commitments as technical director with the French Football Federation mean he is unlikely to take charge of a Premier League game until 26 September when neighbours Wolves visit Villa Park.
BBC: Aston Villa secure Gary McAllister as assistant manager
Meanwhile in France, referees from the third division were brought in to officiate the day's Ligue 1 games after a row between the French football federation and the usual referees, who had wanted to delay the kick-offs in protest at recent criticism from players, coaches and pundits.
The Rugby Football League has asked the French Rugby League Federation to propose a club before 30 September.
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