The intracellular bacteria Piscirickettsia salmonis is the most prevalent pathogen in the Chilean salmon industry, responsible for 50% of losses in recent years. So far, there are no effective treatments to control infections by this pathogen due to the emergence of antibiotics resistance. Therefore, it is extremely important to conduct research to find successful antibacterial therapies. In this paper, we evaluated the in vitro bactericidal activity of flavonoids and aromatic geranyl derivatives isolated from the resinous exudate of species Heliotropium filifolium, H. sinuatum y H. huascoense. The results showed that the compounds Filifolinone, Naringenine and 3-O-methylgalangine cause different percentage of mortality of bacteria and therefore they are good candidates to continue its evaluation in vitro and in vivo.