Barcelona had suffered their first defeat under coach Gerardo Martino against Ajax in midweek and Athletic appeared to learn from the Dutch champions' approach as, without the injured Lionel Messi, Barca struggled to impose themselves on the game yesterday.
Iker Muniain slotted home the only goal of the game from Markel Susaeta's cross 20 minutes from time as a third straight win moved the Basques into fourth.
The Catalans remain top of La Liga on goal difference only from Atletico Madrid with Real Madrid now just three points behind the leaders.
"They are a god team and it is difficult when we have chances and don't take them," said midfielder Sergio Busquets.
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"And yes the referee didn't do his job well either because it is a red card and that made it more difficult.
"I think that would have changed the game. He was through on the goalkeeper, I don't know where (Mikel) Balenziaga was but it was a clear one-on-one and for me it is a red card."
"We shouldn't be alarmed. We need to keep going, win the two games between now and the end of the year and learn from the mistakes we have made.