Apicomplexa interactions with their host are exquisitely dependent on unique secretory organelles that exocytose their contents during gliding motility, attachment, and host cell invasion. Recent developments boosted by molecular genetics and high throughput methods have unraveled a number of biological processes and allowed a better understanding of the role of these organelles in Apicomplexa biology. The major contribution of microneme proteins to the gliding motility, the cooperation of microneme and rhoptry neck proteins to the moving junction during invasion, and the major role played by rhoptry bulb proteins in high-jacking the host cell are the basis of new paradigms that underline the unique characteristics of intracellular parasitism developed by Apicomplexa.