Football’s world governing body Fifa also requested that all players wear black armbands in remembrance.
Nineteen players and coaching staff were among the 71 who died when the Brazilian’s team plane crashed.
The team was heading to Colombia for the final of the Copa Sudamericana, the biggest game in the club’s history.
Similar tributes were held before all four of the English Football League Cup quarterfinals on Tuesday and Wednesday.
Defender Alan Luciano Ruschel, reserve goalkeeper Jackson Ragnar Follmann and centre-back Helio Hermito Zampier Neto – were among the six survivors of the plane crash.
Ruschel and Neto were said to be in critical but stable conditions, with the former having had spinal surgery. Follmann has had his leg amputated and could lose his other foot.
Colombian authorities say evidence is growing that the plane crashed because it ran out of fuel as it tried to land.
Club director Cecilio Hans said the club would “rebuild from scratch” in memory of those who had died.
Arsenal’s Brazilian defender Gabriel paid tribute to his late friend Caio Junior, the Chapecoense coach, after his team’s quarter-final defeat by Southampton in the EFL Cup.
The 26-year-old said he was “very close friends” with the coach, the backroom staff and two of the players.
Chapecoense were in the Brazilian fourth tier in 2009, but had recently made themselves a national force before their run in South American football’s secondary continental competition – the equivalent of the Europa League.
Three of Brazil’s leading clubs have said they will offer players to Chapecoense.
Chapecoense opponents in the last game of the Brazilian league season meanwhile said they would not play the match out of respect for the stricken club, president of Atletico Mineiro said yesterday.
The Brazilian Football Confederation had given its blessing.
The Belo Horizonte club are in fourth place in the Serie A table, six points clear of the fifth-placed side with one game remaining. They have already qualified for one of the six Copa Libertadores spots. Chapecoense are in ninth place.
“Atletico will not play this game and the biggest punishment will probably be a loss of three points and as that will not affect the team’s position it is the minimum that we can do for the family members, for the city, for the state and the country that has suffered so much this week,” Nepomuceno said.
Monday’s crash occurred as Chapecoense plane approached Medellin where they were to play Atletico Nacional in the final of the Copa Sudamericana.
The confederation has not yet decided whether to play the final round of games which were scheduled for Sunday. It made no immediate official comment on Nepomuceno’s statement.