FIFA also opened proceedings against the Uruguayan Football Association (AUF) over potential breaches of fair play rules.
Spectators chanted "refund" after Messi stayed on the bench during the match.
Brazil return to winning ways with dreary win over Ecuador in their World Cup qualifiers.
The South American Football Confederation said Suarez's 29 goals came in 62 games, two games more than Messi, and his latest was typically spectacular, a bicycle kick from four meters out with 11 minutes remaining.
Neymar injured as Brazil lose 2-0 in Uruguay
Uruguay and Ecuador secured their spots at the World Cup, joining Brazil and Argentina as qualifiers from the South America
About 500 fans gathered outside Montevideo's Carrasco international airport to express solidarity with Uruguay's Luis Suarez and chant his name. Some had been waiting for hours, waving Uruguay flags, posters of Suarez and replicas of the World Cup trophy.
Liverpool manager Brendan Rodgers refused to criticise defender Kolo Toure after his glaring error gifted West Bromwich Albion striker Victor Anichebe an equalising goal in their 1-1 Premier League draw on Sunday.
Uruguay's Luis Suarez, in the eye of a diving storm in England, has recognised that he needs to curb his volatile reactions to refereeing decisions to avoid more suspensions.
'I admire his cunning. If he lost it, he'd become an ordinary forward.'
Uruguay's Luis Suarez risked his reputation in his country's interest at the World Cup. Many diplomats and leaders often face the same dilemma, say T Nandakumar.
Uruguay's Luis Suarez said his conscience was clear after being dismissed for a handball that denied Ghana a last-gasp winner in their World Cup quarter-final on Friday.
Uruguay striker Luis Suarez is set to play his first competitive international later this month since being banned for biting an opponent at the 2014 World Cup after he was called up on Friday for qualifiers against Brazil and Peru.
IMAGES from the FIFA World Cup Group H match played between Uruguay and South Korea at Education City Stadium in Al Rayyan, Qatar on Thursday
Barcelona's star striker Messi is an alien who plays with us humans, says the Juventus 'keeper
Uruguay's Luis Suarez has been suspended for nine matches and banned for four months from any football-related activity for biting an opponent, during the World Cup match against Italy.
Uruguay striker Luis Suarez heads to next month's World Cup in Russia looking for a measure of redemption after ending the previous two editions of the tournament in disgrace.
Adidas stopped short on Thursday of ending its sponsorship deal with Uruguay's Luis Suarez after FIFA banned him for nine matches for biting an Italy defender, but the German sportswear firm said it would not use him in any further World Cup marketing.
A restaurant in St Petersburg has struck a chord with the hordes of soccer fans in town for the World Cup by serving up pizzas featuring the faces of some of the tournament's biggest stars.
Pragmatic, difficult to beat, spearheaded by talismanic forwards and led by veteran, battle-hardened coaches -- few teams have as much in common with each other as Uruguay and Portugal who meet in a World Cup round of 16 tie on Saturday.
Uruguay coach Oscar Tabarez was at a loss to explain how Luis Suarez missed three golden chances in his side's 1-0 win over Egypt in their opening World Cup Group A game but refused to blame his leading striker.
A late header from Edinson Cavani gave Uruguay a 1-0 win over Copa America holders Chile which saw them snatch top spot in Group C at their opponents' expense and set up a quarter-final meeting with Peru.
IMAGES from the Group A match played between Russia and Uruguay in Samara on Monday
A magical Lionel Messi goal, the first of a personal double, led treble-chasing Barcelona to a 3-1 victory over Athletic Bilbao in the King's Cup final on Saturday.
As another eventful year draws to a close, Rediff.com gives you a pictorial look back at the best and worst moments that shaped the sports stories this year.
Surez comes to Uruguay's World Cup quarter-final against France on Friday an all-together wiser and maturer
Uruguay will head to the World Cup on a winning note after beating Uzbekistan 3-0 in a chilly warmup in front of their own fans on Thursday.
Uruguay have one of the best recent records of all 32 World Cup sides, having won all six of their games this year, conceding precisely zero goals.
Quaison fires Sweden to extra-time World Cup playoff win over Czechs
Former Newcastle United striker Faustino Asprilla is entering the world of business by designing and selling fruit-flavoured condoms in his native Colombia.
Uruguay crushed Ecuador 4-0 in their Copa America opener on Sunday with help from an early sending off that deflated their opponents and assured the 15-times champions the simplest of starts to their campaign.
No one expects Nigeria to win, but by now everyone knows that shirt...
Two goals in the first half from Roberto Firmino and Neymar gave Brazil an easy 2-0 victory over the United States in a friendly match in New Jersey on Friday.
Luis Suarez returned for Uruguay for the first time since his infamous World Cup biting incident and scored in a 1-1 friendly draw against Saudi Arabia.