Thirteen players joined the practice at Sviyaga stadium, west of the city of Kazan, Efe news agency reported.
"Normally you prepare a match to play 11 players against 11 and to lose one player in the first three minutes - to lose such a crucial player - that's not an easy thing", Colombia coach Jose Pekerman said.
Senegal's 2-1 win over Poland on Tuesday was celebrated across the continent after the other teams from the continent including Egypt, Tunisia, Nigeria and Morocco lost their opening matches.
"We won the first game so the atmosphere is really good but we have to keep our feet on the ground", Japan captain Makoto Hasebe told reporters.
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"To score a goal at the World Cup has been a dream for me since I was little, so I was extremely happy", said the match-winner.
Shinji Kagawa converted the resulting penalty in the sixth minute only for Juan Quintero to equalise with a free-kick that flew under the Japan wall to make it 1-1 at the break.
Much of the second-half was a one-way traffic, with Japan making all the noise while Colombia were yet to come up with a real attacking move. "It is either them or us", the 32-year-old AS Monaco striker said in a press conference. "We have achieved one objective now and the second game will be crucial to our chances of reaching the knockout phase", defender Maya Yoshida said. "I think the simple fact of still being alive in the World Cup gives us the emotional drive for our two remaining matches".
Poland now haven't kept a clean sheet in any of their last nine World Cup matches, since beating Portugal 1-0 in 1986.
The judicial arm of the Colombian police has assigned a special team to investigate the threats made to Sanchez, 32, who is suspended for Sunday's clash with Poland.