Terminal restriction fragment length polymorphism (TRFLP) approaches enable the detection and identification of microbial taxa into samples coming from root or soil material DNA extraction. The low taxonomic diversity of arbuscular mycorrhizal (AM) fungi makes this technique a cheap and adequate method for fingerprinting their communities. Here, I describe the TRFLP database approach, a version of the technique in which the AM fungal taxa present in the sample pool is identified for, later, match their presence in the different samples contained in the experiment. A final AM fungal operational taxonomic unit x sample presence-absence matrix is obtained, which allows the subsequent multivariate statistical analysis of the experimental results.
Keywords: Community assembly; Fingerprinting; Operational taxonomic units; Phylogenetic analyses; R software; TRAMPR package.