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The threespine stickleback is a freshwater fish listed as endangered in Portugal, near the southern limit of the species global distribution. However, few measures have been proposed aiming at the conservation of this species in suboptimal environments. From existing databases and specific sampling campaigns, we obtained occurrence data of threespine stickleback for a total of 646 sites. The occurrence data, together with 15 environmental macrohabitat predictors, were used to model the potential distribution of the species using an ensemble of species distribution models. Through the results of our final ensemble, we project that the threespine stickleback occurs predominantly at lower stretches of river systems, where sandy substrate is dominant and flow is higher. Within this region, sticklebacks are also more likely to occur in sites with high levels of rainfall in the driest month, thus avoiding locations with high potential for drying during summer. The species also tends to avoid steep slope areas with high levels of annual precipitation. Based on our results, a map of the species probability of occurrence was generated and river sections were categorized into levels according to their importance for the species' conservation. [ABSTRACT FROM AUTHOR]