Eutrophication of wetlands can lead to extensive changes in the ecosystem structures. The water-borne nutrient inputs change the soil biogeochemistry prior to structural changes in the ecosystem. The objective of this study was to determine the biogeochemical variables that are strongly associated with eutrophication. We postulated that in wetlands the soil chemical properties function as driving factors (primary indicators) to which the indicators of the soil biological processes respond (secondary indicators). The alternative hypothesis is that the soil biology shows a more rapid response to an increase in nutrient availability from the water column, with the soil chemical properties responding more slowly. This study employed an extensive database from three sites covering a nutrient enrichment gradient in the Everglades, Florida (enriched, intermediate and unenriched). This database contained 28 biogeochemical variables, which we divided into two sets: a set of chemical descriptors and a set of microbiological descriptors. We applied a combination of stepwise discrimination and canonical discrimination ("stepwise canonical discrimination") to determine differences between the sites. For the group of chemical descriptors, the variables selected were total nitrogen (N), total carbon (C), organic C, labile organic phosphorus (P), fulvic-, humic-, labile inorganic-and residual P, ammonia and aluminium. We then applied the discriminant analysis using the microbiological descriptors. The variables selected were mineralizable P and N, microbial P and phosphatase activity. Discrimination using chemical variables was more successful than that based on the microbiological variables. Subsequent bootstrap cross-validation indicated that the microbiological variables seemed to have a more integrative function with associated stability and robustness. We suggest that for this system the canonical variates themselves may be viewed as indicator variables of enrichment, and that the constituent variables may be important as indicators in other P-limited marsh systems at risk of eutrophication.