The 23-year-old has been struggling with an ankle injury picked up in Bayern’s Champions League round of 16 first leg against Atalanta.
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Despite only lasting 45 minutes Musiala was expected to return to action in time for the second leg on Wednesday (March 18), however.
According to Sky Sport, that won’t be the case, and Musiala is now also a doubt for their Bundesliga clash against Union Berlin on Saturday.
Musiala only returned from broken fibula sustained at last summer’s Club World Cup in January.