The 1999 European Long Course Championships were a swimming competition held in Istanbul, Turkey from Monday 26 July to Sunday 1 August, in the 50 m pool of the Ataköy Olympic Pool Stadium.

The Istanbul championships resulted in two world and eight European records.

Water polo was no longer part of the LEN European Aquatics Championships from 1999 and separate European Water Polo Championship was held in Florence, Italy.

For the first time, the 50 m backstroke, breaststroke and butterfly were contested.

Lars FrölanderSweden Cathleen RundGermany