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In this paper, we aimed to contribute to the conservation research of a heavily impacted tropical lake ecosystem by characterizing its previously undescribed fish diversity and also elucidating the trophic structure of its fish community. Our study area is Lake Sampaloc, a small crater lake in the southern region of Luzon Island, Philippines. This lake has been heavily used for economic resource functions, such as aquaculture, for decades. Hindrances to the effective implementation of regulatory provisions have produced detrimental ecological effects on the lake, which has recently been declared as "Threatened Lake of the Year 2014". We employed several sporadic fish surveys during a span of two years (2012 to 2014) to identify fishes in the lake. We also used stable isotope analysis to elucidate the trophic level and production reliance of important aquatic consumers. We discovered that the lake fish populations are heavily reliant on periphyton production and are mostly composed of non-native and potentially established invasive fish species. In addition, trophic niche overlaps are observed among non-native fish and native species. For the past three decades, Lake Sampaloc has been classified as eutrophic with high phytoplankton standing biomass. A possible direction for lake rehabilitation research is to investigate ways to change the present turbid state into a clear water system that is predominantly composed of submerged native vegetation. Such a macrophyte-based environment may help sustain the development and recruitment of native juvenile fish and also provide a more diverse functional habitat for fish assemblages that have overlapping trophic niches. [ABSTRACT FROM AUTHOR]