We investigated chironomid fauna of surface sediments and a short sediment core (Bol’shoy Kharbey Lake) from Pechora river basin, Northern Russia. Twenty three investigated lakes have thermokarst, glacial or floodplain origin and are characterised by low mineralization, mostly hydrocarbon-calcium type of water and low concentration of nutrients. Most of the lakes have circumneutral pH around ≤7 and only two lakes are slightly more acidic with pH ≤ 6. Ninety six chironomid taxa were identified in the surface sediments. Distribution of chironomids in the studied region is driven by continentality, mean TJuly and рН. Chironomid communities from the core of the B. Kharbei Lake demonstrate the highest similarity with the fauna of the deeper lakes of the glacial origin. The glacial lakes have the highest indices of continentality and the lowest winter temperatures within the investigated data set. The chironomid fauna of the glacial lakes is composed of the profundal, oligotrophic and cold-stenotherm taxa. The fauna of the floodplain and thermokarst lakes is more closely related to TJuly and is composed of littoral and phytophilic taxa of meso – or eutrophic waters and moderate temperature conditions. The fauna of the acidic thermokarst lakes considerably differs from the other lakes. Chironomid communities here are represented by tolerant to acidification taxa, and by the typically littoral and shallow water acid-tolerant taxa that apparently also can tolerate acidification. Studied sediment record covers ca last 200 years. The reconstructed TJuly during the entire period remain slightly below the modern temperatures. From 1970 reconstructed TJuly shows steady increase to the modern level. The reconstructed water depths (WDs) of the lake are higher than today till 1980. The highest WDs are reconstructed for ca 1970. After that the WDs gradually decrease to the modern level. Changes of the WDs are most probably related to changes in the precipitation rate.