Van Dijk was never likely to recover in time from the ACL injury he sustained against Everton last October, but Cillessen's positive COVID-19 test and van de Beek's groin injury led to both withdrawing from the squad in recent weeks.
Thirty-eight-year-old Martin Stekelenburg and Norwich City's Tim Krul will compete for a place in goal, with the former set to win that battle after looking more secure in the Netherlands' recent warm-up friendlies against Scotland and Georgia.
The 19-year-old Ajax midfielder bolstered his credentials by scoring his side's third goal against Georgia, but De Roon may be preferred against Ukraine in what is likely to be the Netherlands' toughest match of the group.
In attack, Wout Weghorst finally opened his international account against Georgia after enjoying a fine season for Wolfsburg. The 6ft 6in striker's 20 Bundesliga goals was a major reason the Wolves qualified for the Champions League for the first time in five years.
He looks set to partner Memphis Depay in de Boer's preferred 3-5-2 system, with the Lyon forward bagging three goals across the two warm-up friendlies after ending the season with six goals in his last six games in Ligue 1.
Netherlands possible starting lineup: Stekelenburg; Dumfries, De Ligt, De Vrij, Blind, Wijndal; De Roon, De Jong, Wijnaldum; Weghorst, Depay