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The magnitude of hydropower developments in emerging regions threatens the sustainability of their riverine landscapes. Fragmentation of river networks by multiple barriers and the imposition of new hydrological regimes influences the ability of these river ecosystems to absorb and adapt to these developments and other stressors. Direct transfer of paradigms built from a restricted geographical base to a global context is fraught with issues because of regional differences in eco‐hydro‐geomorphology, biological communities, and nonlinear interactions between the two. In this manuscript, some impacts of hydropower development on Chilean riverine ecosystems are presented. To understand the context of hydropower, we provide the political context of energy development in Chile. Interactions between hydropower generation and Chilean river ecosystems with special reference to native Chilean fish fauna are outlined. Three case studies are presented that considers: (a) habitat alteration downstream of the Rucúe Dam, (b) the effects of daily hydropeaking in the Biobío River, and (c) mitigation strategies to reduce habitat alteration upstream of the San Pedro Dam. These case studies illustrate the expanding scientific knowledge on Chilean riverine landscapes. Finally, new measures to reduce ecosystem impacts of hydropower development on native Chilean fish communities are outlined. Although specific scientific information is available, developing regional ecohydrological models and improving knowledge of ecosystem and sustainability science is required. The scientific approach on which solutions are sought to address present and future river ecosystem problems in Chile are inherently interdisciplinary nature.

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Background: Fragmentation (establishment of barriers e.g., hydropower dams, reservoirs for irrigation) is considered one of the greatest threats to conservation of river systems worldwide. In this paper we determine the fragmentation status of central Chilean river networks using two indices, namely Fragmentation Index (FI) and Longest Fragment (LF). These are based on the number of barriers and their placement as well as river length available for fish movement. FI and LF were applied to eight Andean river basins of central Chile in order to assess their natural, current (2018) and future (2050) fragmentation at the doorstep of a hydropower boom. Subsequently, we exemplify the use of these indices to evaluate different placement scenarios of new hydropower dams in order to maximize hydropower use and at the same time minimize impact on fish communities. Results: In the natural scenario 4 barriers (waterfalls) were present. To these 4 barriers, 80 new ones of anthropogenic origin were added in the current (2018) scenario, whereas 377 new barriers are expected in near future (2050). Therefore, compared to the 'natural' scenario, in 2050 we expect 115-fold increase in fragmentation in analysed river systems, which is clearly reflected by the increase of the FI values in time. At the same time, the LF diminished by 12% on average in the future scenario. The fastest increase of fragmentation will occur in small and medium rivers that correspond to 1st, 2nd and 3rd Strahler orders. Finally, case study on configuration of potential hydropower plants in the Biobío basin showed that hydropower output would be maximized and negative effects on fish communities minimised if new hydropower plants would be located in tributaries of the upper basin. Conclusions: Fragmentation of Chilean Andean river systems is expected to severely increase in near future, affecting their connectivity and ecological function as well as resilience to other anthropogenic stressors. Indices proposed here allowed quantification of this fragmentation and evaluation of different planning scenarios. Our results suggest that in order to minimise their environmental impact, new barriers should be placed in tributaries in the upper basin and river reaches above existing barriers.