Bumrah is the match victor for Indian team with just 5 runs in last two overs.
Shamshuddin's decision was met with angry incredulity by Root, who at least did his best to turn his head away from the official as he gave vent to his frustrations.
Kohli also picked opener KL Rahul for special praise after he stood out with a 47-ball 71 which helped India to finish with a respectable total.
He was a little lucky to get the wicket of England's joint top scorer Root (38) who appeared to get an inside edge but was adjudged to be out leg before but there was little doubt in the dismissal of Buttler (15) who was castled.
Chris Jordan was outstanding, taking three for 22 - his most economical four-over spell in a T20 for England.
England's chase had been set up by another fine, disciplined bowling performance after they had won the toss and sent India in to bat.
Chasing a modest target of 145, in-form England openers Jason Roy and Sam Billings hit couple of huge sixes to signal their intent.
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India's victory in Nagpur enabled them to level the three-match series ahead of the decider on Wednesday night in Bangalore.
The controversy overshadowed what was an exciting game that England really still should have won, as Morgan acknowledged, as they threw away their chance to claim a first limited-overs series success in India since 1984.
The unsafe duo of Eoin Morgan and Joe Root took charge at the crease and steadied England's boat.
"Bumrah produced a match-winning over on a tough wicket", England captain Eoin Morgan said.
While elaborating on their modus operandi, Nehra said it was imperative to have defined roles when it comes to bowlers and let their traits come to the fore at different stages of the game. He conceded just a single from the last two balls of the match. Such was their successful execution of plans that India managed just 75 runs in the last 10 overs. But Bumrah showed fearlessness and bowled full, cramping the batsman for room, and, as soon as Root came on strike on the fourth ball, he delivered two superb slow cutters.
Man of the match Jasprit Bumrah: "I tried to assess the wicket, to see what has happened in the first innings and what has worked for other bowlers". He took the vital wicket of Kohli for 21 with a 64mph slower ball which the Indian skipper slogged high in the air to Liam Dawson at long on. Rahul, who hit six fours and two sixes during his knock, got to his fifty, prompting England skipper Eoin Morgan to rotate his fielding and bowling options. I know how hard it is to stay fit because I'm a fast bowler and I bowl in the beginning and end both.
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