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Mass flux assessment can provide information that is essential for a sustainable management of elements in agricultural soils. In this article, we present an assessment of regional-scale averages of zinc (Zn) fluxes into agricultural soils and crops of central Iran for the period 1997-2011, using available databases such as regional agricultural statistics. The basic units of the balances were 15 townships of the provinces Qom, Isfahan and Fars. Averaged over the entire study region, the net Zn input into arable soil resulting from all fertilizer inputs - Zn removal with harvested crops was 1515 g ha(-1) yr(-1) across the entire region, with a range of 438-3009 g ha(-1) yr(-1) among townships. Estimated average Zn inputs with manure, mineral fertilizers, sewage sludge and compost were 1254, 531, 19 and 7 g ha(-1) yr(-1), respectively. The input-to-output ratio of these fluxes ranged from 1.8 to 12.9 among townships and averaged 6.1 for the entire study area. Considering that outputs other than with crop harvests are minor, Zn stocks are rapidly building up in the soils of the study region. Uncertainties in the manure and crop removal data were the main sources of estimation uncertainty in this study.