Alfonso Dastis was criticised as he compared the Catalan referendum to one tenant making a decision for an entire building complex.
Presenter Niall Paterson cut in to say the Catalonia region could not be compared to “a single tenant in a building”.
Catalans are set to hold a controversial referendum on the question of breaking away from Spain on Sunday.
Speaking on Sky News, Mr Dastis said it wasn’t right that one region could decide the fate of a whole country.
He said: “I don’t think you would be ready to allow a part of a system to vote for the whole.

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“If you are, let’s say, in a condominium, a single tenant cannot do its will and just decide to disregard the rules that apply to everyone else.”
But Mr Paterson questioned the comparison and highlighted Catalonia’s contribution to the national economy, which is 20 per cent of its GDP.
He said: “Catalonia is something rather bigger than a single tenant in a building, isn’t it. It’s a significant region in Spain, it provides 20 per cent of your GDP.
“Let’s be honest about all of this, it’s the financial loss that Spain could endure as a result of Catalonian independence, that’s driving the Government’s hand in all of this.”
Mr Dastis tried to argue his point and labelled the Catalan government “champions of alternative facts”.
He said: “Well, no really, the current Catalan government has been pushing a sort of PR campaign that is disregarding the facts.
“They are I think the champions of alternative facts.”
The 5.3 million registered voters of the north-east region is poised to vote on October 1 on whether or not to declare a republic and separate from the rest of Spain in a move that is highly controversial and could cause deep divisions in the country.
The central government in Madrid, headed by Prime Minister Mariano Rajoy, backed by the Constitutional Court has ruled the referendum as unconstitutional and therefore illegal.
However the Catalan President Carles Puigdemont has vowed to hold the vote no matter what, saying if the vote is to leave then he will declare Catalonia a republic within 48 hours.