The explosive device contained a force equivalent to 200 grams of TNT.
Four people have been reportedly taken to hospital after an explosion in a storage locker at a supermarket in St. Petersburg, according to Russia Today. The explosion occurred on Wednesday evening at a supermarket.
Over a dozen people were murdered in the terrorist attack. No person or group has claimed responsibility for the attack.
Putin said he told the chief of Russia's main domestic security agency, the FSB, that agents who encounter resistance from terror suspects should "liquidate bandits on the spot". Eight of the injured remained hospitalized.
Putin's taunt to Chechen terrorists, that he would "rub them out in the outhouse", which catapulted him to new heights of popularity before his first run for president, in 2000.
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Storage boxes at all Perekrestok supermarkets in St. Petersburg were removed following the attack. One of the suspects recently pled guilty to recruiting terrorist operatives for the Islamic State.
In April, 14 people died in the St. Petersburg subway after a suicide bombing by a radical Islamist who was born in the central Asian republic of Kyrgyzstan. Russian authorities identified the bomber as a 22-year old Kyrgyz-born Russian national.
Mr Putin was speaking at an awards ceremony in the Kremlin for Russian military servicemen and women who served in Syria.
The president previously has spoken about Russia's operation in Syria as a pre-emptive strike against terrorism at home.
"What would have happened if those hundreds, thousands. had come back to us, trained, armed and well-prepared?"