In The Elder Scrolls V: Skyrim, one of the mages in the College of Winterhold, when asked about Necromancy being despised by the Nords, says something like:
Those Arcanic views vanished along with the Mage's Guild. Necromancy, like any other magic, is a tool to be used.
From my point of view the College of Winterhold serves as the Mages Guild and the Companions serves as the Fighters Guild in Skyrim, however from what I remember both the Mages and Fighters Guilds in Morrowind and Oblivion were more Tamrial (or at least Empire) wide organizations, so they should have had Guilds in Skyrim.
Since the Thieves Guild and the Dark Brotherhood are still in operation in Skyrim I am wondering what happened to the Mages and Fighters Guilds in the 200 years since the end of the 3rd era (the end of the Oblivion Crisis), are they just gone from Skyrim or gone from the world?