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A bstract The distinctive estuary hydrodynamics and nutrient input make the estuary ecosystem play a key role in lake ecosystems.The Nanfei River and Zhaohe River are two main inlets of Chaohu Lake,Anhui,East China.We selected estuaries of the two rivers as representative areas to study temporal and spatial changes of bacterial communities.In August(summer)and November(autumn)2016 and February(winter)and May(spring)2017,16 water and sediment samples were collected from the estuaries.Physicochemical characteristics indicate signifi cant differences in the nutritional status and eutrophication index of the estuaries due mainly to organic input.Examination of the number of operational taxonomic units,the diversity index,the community composition,and redundancy analysis revealed the following.First,the existence of varying degrees of seasonal differences in the distribution of almost all bacteria.In addition,the species diversity in the sediment samples was higher than that in the water samples,and the dominant species differed also among these samples.Second,a large number of unknown genera were detected,especially in the sediment samples,such as unclassified Xanthomonadales incertae sedis,unclassified Anaerolineaceae,and unclassifi ed Alcaligenaceae.Last,TP,TN,and TOC were the main influential factors that affected the bacterial community structure.