Pope's comment, which immediately drew sharp reaction from Trump, came in an interaction with reporters travelling on his plane on his way back to Vatican from Mexico where he visited this week.
"Can a good Catholic vote for this man?" a reporter asked Pope Francis referring to the recent statements of Trump on immigration, deporting illegal immigrants and building a wall along the US-Mexico border to prevent illegal immigration.
"Thank God he said I was a politician, because Aristotle defined the human person as 'animal politicus.' So at least I am a human person. As to whether I am a pawn - well, maybe, I don't know. I'll leave that up to your judgment and that of the people," the leader of the 1.2 billion Catholics of the world responded.
"As far as what you said about whether I would advise to vote or not to vote, I am not going to get involved in that. I say only that this man is not Christian if he said things like that. We must see if he said things in that way and in this I give the benefit of the doubt," Pope Francis said.
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Trump, who was campaigning in South Carolina ahead of the crucial primary on Saturday, responded immediately in his characteristic style. He described this as "disgraceful."
"I am proud to be a Christian and as President I will not allow Christianity to be consistently attacked and weakened, unlike what is happening now, with our current President," Trump said at a rally Kiawah Island in South Carolina.
He said no leader, especially a religious leader, should have the right to question another man's religion or faith.
"They are using the Pope as a pawn and they should be ashamed of themselves for doing so, especially when so many lives are involved and when illegal immigration is so rampant," he said.
Trump said the Mexican government and its leadership has made many disparaging remarks about him to the Pope.
"The Pope only heard one side of the story - he didn't see the crime, the drug trafficking and the negative economic impact the current policies have on the US. He doesn't see how Mexican leadership is outsmarting President Obama and our leadership in every aspect of negotiation," he said.