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The assessment of riverine fluxes of carbon, nutrients, and metals in surface waters of permafrost-affected regions is crucially important for constraining adequate models of ecosystem functioning under various climate change scenarios. In this regard, the largest permafrost peatland territory on the Earth, the Western Siberian Lowland (WSL) presents a unique opportunity of studying possible future changes in biogeochemical cycles because it lies within a south–north gradient of climate, vegetation, and permafrost that ranges from the permafrost-free boreal to the Arctic tundra with continuous permafrost at otherwise similar relief and bedrocks. By applying a “substituting space for time” scenario, the WSL south-north gradient may serve as a model for future changes due to permafrost boundary shift and climate warming. Here we measured export fluxes (yields) of dissolved organic carbon (DOC), major cations, macro- and micro- nutrients, and trace elements in 32 rivers, draining the WSL across a latitudinal transect from the permafrost-free to the continuous permafrost zone. We aimed at quantifying the impact of climate warming (water temperature rise and permafrost boundary shift) on DOC, nutrient and metal in rivers using a “substituting space for time” approach. We demonstrate that, contrary to common expectations, the climate warming and permafrost thaw in the WSL will likely decrease the riverine export of organic C and many elements. Based on the latitudinal pattern of riverine export, in the case of a northward shift in the permafrost zones, the DOC, P, N, Si, Fe, divalent heavy metals, trivalent and tetravalent hydrolysates are likely to decrease the yields by a factor of 2–5. The DIC, Ca, SO4, Sr, Ba, Mo, and U are likely to increase their yields by a factor of 2–3. Moreover, B, Li, K, Rb, Cs, N-NO3, Mg, Zn, As, Sb, Rb, and Cs may be weakly affected by the permafrost boundary migration (change of yield by a factor of 1.5 to 2.0). We conclude that modeling of C and element cycle in the Arctic and subarctic should be region-specific and that neglecting huge areas of permafrost peatlands might produce sizeable bias in our predictions of climate change impact.