Brighton announced on Friday that technical director David Weir had left the club.
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The Daily Mail says Ayto is set to move to Falmer stadium as a direct replacement.
Ayto worked alongside Edu at Arsenal before replacing the Brazilian on a temporary basis after the latter left the club as technical director.
Ayto moved away from the Gunners after the arrival of new technical director Andrea Berta and is now set to make the move to Brighton.