Figure 5.

Phylogenetic tree based on 16S rDNA from Actinoplanes sp. SE50/110 and the 34 most closely related species. Shown is an excerpt of a phylogenetic tree build from the 100 best nucleotide BLAST hits for the Actinoplanes sp. SE50/110 16S rDNA. The shown subtree contains the 34 hits most closely related to Actinoplanes sp. SE50/110 (black arrow) with their evolutionary distances. The numbers on the branches represent confidence values in percent from a phylogenetic bootstrap test (1000 replications). The evolutionary history was inferred using the Neighbor-Joining method [56]. The bootstrap consensus tree inferred from 1000 replicates is taken to represent the evolutionary history of the taxa analyzed [57]. The tree is drawn to scale, with branch lengths in the same units as those of the evolutionary distances used to infer the phylogenetic tree. The evolutionary distances were computed using the Jukes-Cantor method [58] and are in the units of the number of base substitutions per site. The analysis involved 100 nucleotide sequences of which 35 are shown. Codon positions included were 1st + 2nd + 3 rd + Noncoding. All positions containing gaps and missing data were eliminated. There were a total of 1396 positions in the final dataset. Evolutionary analyses were conducted in MEGA5 [59]. Bar, 0.002 nucleotide substitutions per nucleotide position.

Schwientek et al. BMC Genomics 2012 13:112   doi:10.1186/1471-2164-13-112
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