After the pontiff left, police fired tear gas to disperse protests against both the government and the cost of the visit.
Pope Francis is in Brazil to attend the Roman Catholic World Youth Day festival.
In a speech soon after his arrival, the Pope urged young Catholics to “make disciples of all nations”.
“I came to meet young people coming from all over the world, drawn to the open arms of Christ the Redeemer,” he said at the governor’s palace, referring to Rio’s famous vast statue of Jesus.
“They want to find a refuge in his embrace, right near his heart to hear his call clearly and powerfully.”
About an hour after the welcoming ceremony, police fired stun grenades and tear gas against the demonstrators outside the palace.
It was the latest rally against what the protesters described as endemic government corruption across the country.
But some were also unhappy about $53 million in public fund being spent for the pontiff’s visit.
There was little damage and few arrests, but it was a reminder that there is still a real possibility the pontiff’s high-profile visit to a huge Catholic festival in Rio could be overshadowed by political events.
In a separate development, the military said a homemade explosive device had been discovered at a shrine between Rio and Sao Paulo that the Pope is due to visit on Wednesday.
The device at the Shrine of Our Lady of the Conception of Aparecida was described as being “of low power” and was destroyed.
As Pope Francis disembarked from the Alitalia plane in Rio’s airport earlier on Monday, he was welcomed by President Dilma Rousseff to cheers and applause from the waiting crowd. A choir sang an anthem linked to Youth Day and he was presented with a bouquet of flowers.
The Pope waved before being taken by motorcade to the centre of Rio, where thousands of pilgrims have gathered.
Pope Francis looked relaxed and jovial as he was driven into Rio de Janeiro in a modest family car, with the window wound down and security officials struggling to keep back the crowds.
There were chaotic scenes as his car became stuck in one of the city’s infamous traffic jams, after the pope’s driver reportedly took the wrong turn and missed lanes that had been cleared by the security services.
Crowds immediately gathered round the vehicle hoping to catch a glimpse or touch Pope Francis. One woman passed her baby through the window for a kiss from the Holy Father.
Once in the city centre, the Pope switched to an open-air Popemobile, waving at the tens of thousands who lined the streets he travelled through.
The authorities have increased security during the Pope’s seven-day visit, following weeks of nationwide protests against corruption and bad governance.
Pope Francis refused to use an armored Popemobile, despite requests from Brazilian officials. Some 30,000 security staff – army and police are on duty throughout his visit.
More than a million young Catholics are expected to gather in Rio for World Youth Day, which takes place every two years, and is a celebration of the Catholic faith.
The Argentina-born Pope – who became head of the Catholic Church in March – is due to lead a prayer service on Copacabana beach on Thursday. He will also visit one of Rio’s shanty towns.
Speaking to reporters on his flight from Rome, the Pope said young people were “at this moment are in crisis,” in an apparent reference to the continuing economic crisis across Europe.
“We run the risk of having a generation that hasn’t worked,” he said, even though work confers dignity.
Pope Francis also criticized what he said was a “culture” of socially rejecting the elderly who were “thrown away” as if they had nothing to offer.
vGngxrajDmgQuincy Jones, the celebrated musician and producer who worked with Michael Jackson, Frank Sinatra, Ray…
Misleading allegations, rumours and outright lies about voting and fraud are flooding online spaces in…
At least 158 people have died in Spain's worst flooding disaster in generations. On October…
Google has been fined two undecillion (a two followed by 36 zeroes) roubles by a…
Embarking on a home remodel is an exciting journey, promising enhanced comfort, increased property value,…
The US presidential candidates continued to campaign across key swing states on October 20. Footage…