Dzyuba then smashed the ball home for the game's first shot on target and his third goal of the tournament.
He had a warning for Russia's next opponents Croatia: "Being a good team and good players is one thing", he said.
Russia's captain and goalkeeper Igor Akinfeev saved spot-kicks from Jorge "Koke" Resurreccion and Iago Aspas, while all four Russian shooters scored before thousands of screaming home fans. Russia advanced to the Round of 16 from Group A after finishing as runners-up while Spain emerged as winners from Group B. Having surprised many by reaching the second stage, Russia, ranked 70th, will look to continue the fairytale.
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Russian Federation introduced Aleksandr Yerokhin for Daler Kuzyayev - the first time ever that a fourth substitute had been used at the World Cup - and Asensio fired straight at Akinfeev from the edge of the area before coming off for Rodrigo as Spain also used their fourth sub. "I accept the responsibility, I am the head coach". Lopetegui was sacked because he had failed to tell the national soccer federation he accepted an offer to coach Real Madrid after the tournament.
Rodrigo almost won it five minutes later, when he beat his man with a dummy, sprinted into the box and fired a shot Akinfeev again did well to save.
Akinfeev pushed away a 109th-minute shot from substitute Rodrigo who ran hard at goal from near the halfway line.
Five minutes after that, Spain's players were baying for VAR after more grappling in the box.
The World On Arirang
The expectation was high and so far Messi was on the low, possibly immersed in dancing to Flowking Stone's song, "Go Low". Indeed, the Croats are one of three teams, along with Belgium and Uruguay, to have won all three of their group games.
They rode that support, and occasionally their luck, to recover from falling behind to a 12th-minute own goal from Sergei Ignashevich.
Instead of waking from their slumber, La Roja continued tempting fate by reducing the game to a turgid affair of insomnia-inducing passes with no penetration. The 38-year-old was marking Sergio Ramos tightly on a free-kick, turned his back to the incoming cross and the ball redirected off his boot and into his own net. "We had great hopes for this World Cup and it was not to be". In a match where Spain enjoyed 79 per cent of possession, not even the positive impact of another stand-out performance from Isco could break down the Russian Federation defence to give Spain the easy win many had predicted.
True enough, Gerard Pique was the latest to experience a brain fade when he inexplicably raised his left arm to block Artem Dzyuba's 38th-minute header from Alexander Samedov's corner.
King Felipe VI of Spain was at the Luzhniki Stadium in Moscow.
Japan and Senegal fans clean stadiums after World Cup matches
Similar scenes were witnessed at the 2014 World Cup in Brazil, even after they were defeated 2-1 by Didier Drogba's Ivory Coast. One clip of the clean-up operation, shared by Argentinean channel TyC Sports, has been viewed more than 4 million times .
Spain came to the finals unbeaten in 20 matches since Lopetegui took over following Euro 2016, with the 2010 world champions winning just once in four games with Hierro at the helm.