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Desert wetlands, or cienegas, are regions of high conservation value in the American Deserts. These environments, in the Apache Highlands Ecoregion spanning the borderlands of Arizona, USA and Sonora, Mexico, contain an estimated 19% of endangered, threatened and candidate species within 2% of the regional area. Besides being crucial refugia for native fish, amphibians, snails, and plants, cienegas constitute critical habitat for migratory birds. Here we analyze the distribution, conservation status and restoration potential of cienegas in this region. Our results identified 97 cienegas of which only 60 had information useful for our analysis. Of these, 46 cienegas were considered functional, or extant, while the others were either dry or so altered that they no longer maintained their original ecological function. Using the ranking scheme of the National Gap Analysis Program we found that 80% of extant cienegas fall into the lowest categories of land stewardship, Gap 3 or 4, indicating conservation stewardship is largely lacking across all land management agencies, public or private. Our assessment suggests that increased and targeted habitat conservation of desert wetlands would yield great benefit to the maintenance of global biodiversity. (c) 2012 Elsevier Ltd. All rights reserved.