The already-qualified Czechs squandered an opportunity to overtake Iceland for top spot in Group A but could not make their early possession pay in a mostly drab game in which neither side generated many scoring chances until late.
Turkey, needing four points from their last two games to clinch a play-off spot, broke through in the 62nd minute after Czech defender Filip Novak conceded a penalty for a foul on Serdar Aziz in the box.
Selcuk Inan converted the spot kick for the Turks, who doubled their lead in the 80th minute when Hakan Calhanoglu beat his marker and slotted home after latching onto Ara Turan's lofted pass into the penalty area.
The Czechs, playing without a number of regular players, including goalkeeper Petr Cech, remain in second place behind Iceland in Group A.
Either Turkey or the Netherlands will finish third after Tuesday's final qualifiers.
(Reporting by Michael Kahn, editing by Mike Collett; Editing by)
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