Trump scored a massive win Florida, which he termed as his second home, by gaining the support of 45.5 per cent of the votes counted, while Rubio was a distant second with 27.1 percent of the votes.
Florida Senator Rubio, who had so far won primaries in Minnesota, Puerto Rico and Washington DC and had 163 delegates, was banking heavily on a win in his home state. But Trump's victory margin of more than 400,000 put curtains down on his presidential ambition.
In his speech in Miami, Rubio acknowledged that the country is in the middle of a political storm -- tsunami.
"America's in the middle of a real political storm," Rubio said.
"This is the right way forward for our party, for our country. But after tonight, it's clear that while we are on the right side this year, we will not be on the winning side," Rubio said.
Noting that it was "not God's plan that I be the President in 2016", Rubio urged his countrymen not to give up on the sense of optimism he tried to push.
"I ask the American people do not give into the fear, do not give into the frustration," he said.
Notably, Rubio is not running for re-election of his Senate seat. His term ends in January 2016. Before dropping out of the race, Rubio did not indicate who he would be supporting for in the Republican presidential race but definitely not Trump.
Rubio said this was not his time, but would continue to be fighting for the rights of the people of his country.
"We live in a republic and our voters make these decisions," Rubio said.
His speech was a thinly veiled rebuke of Trump's campaign tactics, as he warned that it would have been easier for him to exploit the anger and anxiety driving the race. He warned that the politics of division were going to leave America a "fractured nation."
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