Both bacteria and fungi play critical roles in decomposition processes in many natural environments, yet only rarely have they been studied as an integrated microbial community. Here we describe the bacterial and fungal assemblages associated with two decomposition stages of Spartina alterniflora detritus in a productive southeastern U.S. salt marsh. 16S rRNA genes and 18S-to-28S internal transcribed spacer (ITS) regions were used to target the bacterial and ascomycete fungal communities, respectively, based on DNA sequence analysis of isolates and environmental clones and by using community fingerprinting based on terminal restriction fragment length polymorphism (T-RFLP) analysis. Seven major bacterial taxa (six affiliated with the ␣-Proteobacteria and one with the Cytophagales) and four major fungal taxa were identified over five sample dates spanning 13 months. Fungal terminal restriction fragments (T-RFs) were informative at the species level; however, bacterial T-RFs frequently comprised a number of related genera. Amplicon abundances indicated that the salt marsh saprophyte communities have little-to-moderate variability spatially or with decomposition stage, but considerable variability temporally. However, the temporal variability could not be readily explained by either successional shifts or simple relationships with environmental factors. Significant correlations in abundance (both positive and negative) were found among dominant fungal and bacterial taxa that possibly indicate ecological interactions between decomposer organisms. Most associations involved one of four microbial taxa: two groups of bacteria affiliated with the ␣-Proteobacteria and two ascomycete fungi (Phaeosphaeria spartinicola and environmental isolate "4clt").Southeastern U.S. coastal salt marshes are among the most productive ecosystems known (24, 31) and provide a model environment for investigating detritus-based ecosystems and their decomposer communities. In these systems, both fungi and bacteria are recognized as key components of the decomposer community (1, 26), providing primary links in the remineralization and transformation of decaying vascular plant material.In the few studies that have considered the activity of salt marsh bacterial and fungal saprophytes simultaneously, interactions between fungi and bacteria have been hypothesized to be based on temporal resource partitioning (29). According to this view, fungal colonization of senescing salt marsh cord grass (Spartina alterniflora) mediates the initial transformation of organic matter through extracellular enzyme activity and physical disruption (24, 26). In the fungus-dominated stage, Spartina undergoes loss of up to 60% of the original organic mass (26). As decomposition proceeds, the blades gradually collapse onto the marsh sediment and are reduced to smaller pieces with larger surface areas. Bacterial standing crop gradually increases, and bacteria assume a more prominent position in the latter stages of the decomposition process (1,29).This view of temporally...