The envoy Giacomo Sanfelice di Monteforte said the matter was being investigated to ascertain facts and responsibilities.
The Italian envoy met Vivek Katju, Secretary (West) in the Ministry of External Affairs, during which India registered the protest, saying religious sentiments of Indians need to be respected.
"The matter is very disturbing. Already been brought to the highest level in Rome and Milano. Investigation is on to ascertain facts and responsibilities. To this, personally I add my deep regrets," the Italian Ambassador told reporters after meeting Katju.
The envoy was called to the South Block, a day after Jeev Milkha Singh`s coach Amritinder Singh was asked to take off his turban while undergoing a security check at the Milan airport, the second time in the last one week.
External Affairs Minister S M Krishna has already condemned the behavior of airport personnel at Milan, saying religious sentiments of Indians need to be respected.