Short-intestine agastric teleost species such as atherinopsids, are strong candidate species for promoting regional aquaculture diversification and sustainability. However, a main consideration for the culture of these species is the frequent feeding demand of these species which lack a stomach or a long intestine. However, the molecular mechanisms of appetite control in short-intestine agastric species, such as the Mexican pike silverside (Chirostoma estor), are currently unknown. In this work, an in silico analysis of three de novo transcriptomes of larvae and juvenile organisms of C. estor was carried out to identify relevant appetite-regulating peptide genes under different environmental and feeding conditions. Some appetite-regulating genes, such as ghrelin, were not expressed in any of the three transcriptomes, which can be explained by the absence of a stomach since it’s the main site of expression in gastric species. Other genes were only expressed in one or two of the transcriptomes, most likely due to the type of tissue analyzed. Other genes showed typical feedback expression with their receptors, although in general, expression was highly different between each transcriptome. With the results obtained, two preliminary appetite regulation conceptual schemes (larvae and juveniles) (Fig. 1 and 2) in this short-intestine agastric species were elaborated. Information regarding the neuroendocrine regulation of appetite in fish is scarce and difficult to compare due to the different species, their habits, digestive configuration, techniques, etc. Hence, this research will generate valuable information on the effect of different variables on appetite regulation and a better understanding of the main pathways involved in feeding of this biological digestive model and may prove crucial for developing ad hoc feeding strategies to optimize fish farming of these and other similar species.