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The Rangers defender, who earned his fourth cap in a 3-3 friendly draw against Russia last month, is a key player for Derek McInnes' side, having made his 20th appearance of the season in the weekend victory over St Mirren.
He is the third Ibrox player to miss out on international duty, following Kim Min-su and Bojan Miovski's exclusions from the South Korea and North Macedonia squads respectively.
However, Fernandez may still receive a call-up, as reports from Nigeria suggest he is the first choice to replace Hull City defender Semi Ajayi, who sustained an injury against Arsenal at the weekend.
This potential inclusion would depend on Ajayi's recovery ahead of the matches against Tanzania.