Microcystins (MCs) pose potential threat for both aquatic organisms and humans, whereas their occurrence in response to hydrodynamic alterations are not clearly understood. Here, spatiotemporal variations of dissolved MC-RR and MC-LR were evaluated monthly in 2016 in the Yulin River, a tributary of the Three Gorges Reservoir (TGR). The environmental factors that linked to MCs concentration were discussed. The results revealed that MC-RR maximumly reached 3.55 mu g/L, and the maximum MC-LR concentration exceeded the threshold value of 1.0 mu g/L recommended by the WHO. MCs concentrations were higher during the flood season and decreased from the estuary to the upstream reach of the Yulin River. Ecological risk assessment confirmed that MC-LR had significant adverse effects on the benthonic invertebrates Potamopyrgus antipodarum. MCs content in the sediment was 1.70- to 20-fold higher than that in suspended particulate matter (SPM). The impacts of environmental factors on the MCs profile differed between flood and dry seasons and the longitudinal differences of MCs were determined by the longitudinal profile of water velocity and SPM content, which were affected by TGR operations. This study suggested that the occurrence of MCs in the Yulin River were influenced by hydrologic regime in TGR. (C) 2018 Elsevier B.V. All rights reserved.