Information on functional diversity (metabolic potential) is essential for understanding the role of microbial communities in different environments. Variations of the commercially available BIOLOG bacterial identification system plates are now widely used to assess functional diversity of microorganisms from environmental samples, based on utilisation patterns of a wide range (up to 95) of single carbon sources. There are many problems as well as benefits of using the approach, but the former are often disregarded. Here the basis of the approach is summarised, including type of plate to use, treatment of samples, replication, incubation conditions, monitoring of plates, and statistical analysis. The pros and cons of its use are critically assessed, inherent biases and limitations are pointed out and methodological difficulties are considered. Possible ways of overcoming some of the difficulties are suggested.

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A total of 59 categories of litter items were found at 20 beaches (13 mechanically cleaned, 7 non-cleaned) in the Cádiz tourist environment, Spain. Cluster Analysis and Principal Components Analysis were used to highlight similarities and contrasts between sites and/or associations between litter categories. Multivariate analyses separated beaches according to the total numbers of litter items present. Non-cleaned sites showed a variety of litter category abundance with distinct origins and abundant, ubiquitous items (plastic and glass fragments). Of the 7 non-cleaned beaches (49 litter categories) river-mouth sites were distinct due with high numbers of litter items. The sheltered inner part of Cádiz Bay beaches had a wide range of litter type. Many sites were associated with locally deposited recreational litter categories; while industrial/commercial/fishing categories were abundant only at a few sites, indicating items transported onto the shore from the Guadalete river.

Fungal community structure and diversity in two types of agricultural grassland soil were investigated by amplified 18S ribosomal DNA restriction analysis (ARDRA) and 18S ribosomal DNA sequence analysis. These two grassland sites represent a species-rich old hay meadow and an agriculturally improved site with low floristic diversity. Two primer sets were used in combination to amplify approximately 550 bp of rDNA from three major fungal groups, the zygomycetes, basidiomycetes, and ascomycetes, and clone libraries were created for each site. 18S ARDRA was used to analyze 170 rDNA clones, and three diversity indices were calculated. A small-scale culturing analysis was also carried out and the most common isolates analyzed using ARDRA and sequence analysis. The soil fungal community revealed by the rDNA approaches was significantly different from that produced by this limited culture-based analysis. Twenty-eight soil-derived clones were sequenced, and many represented fungal taxa rarely reported in culture-based studies. The PCR-based techniques detected differences in diversity between the two fungal communities and changes in patterns of dominance that paralleled higher plant diversity. The results suggest that 18S rDNA-based approaches are a useful tool for initial screening of fungal communities, and that they represent a more comprehensive picture of the community than plate culturing.