Abnormal social behavior is a hallmark of several human neuropsychiatric and neurodevelopmental disorders for which appropriate treatment is lacking. The zebrafish has been proposed as a tool with which these disorders may be modeled and their mechanisms analyzed. A potential starting point of such analyses is the identification of genetic differences between distinct zebrafish strains. Here we compare AB and TU, two well established zebrafish strains, and characterize the developmental trajectories of their shoaling (social) behavior and of the levels of dopamine, serotonin as well as a metabolite of each of these neurotransmitters, DOPAC and 5HIAA from whole brain extracts. Using a novel video-tracking software application, we demonstrate significant strain dependent changes in the maturation of shoaling between day 7 and day 87 post-fertilization. Using high-precision liquid chromatography specifically adapted to zebrafish, we uncover a significant age×strain interaction in dopamine and DOPAC that apparently correlates well with the behavioral differences found between the strains. We also report on strain differences in serotonin and 5HIAA. We discuss possible mechanistic analyses that will address causality and conclude that zebrafish will be a useful tool with which the neurobiological and genetic bases of social behavior may be analyzed in vertebrates.