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. 2004 May;53(5):685–693. doi: 10.1136/gut.2003.025403

Figure 4.

Figure 4

Phylogenetic tree of the operational taxonomic units (OTUs) identified in the single strand conformation polymorphism (SSCP) profiles by the Band Matching algorithm. Fragments were identified by NCBI blast search (BLAST, http://www.ncbi.nlm.nih.gov/). The corresponding representative OTUs from the clone libraries (highlighted in grey) were inserted as benchmarks for phylogenetic orientation. The phylogenetic tree was built from sequence data of the SSCP profiles and the corresponding region (V4 and V5) of the sequences of the clone libraries with the ARB software package (http://www.arb-home.de/), using the parsimony algorithm and the Jukes-Cantor correction.37,77 Three clusters are defined by phylogenetic relationships: Bacteroides/Prevotella group (cluster 1), Firmicutes phylum (cluster 2), and Enterobacteriaceae family (cluster 3).