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Fig. 8 | BMC Microbiology

Fig. 8

From: rpoB, a promising marker for analyzing the diversity of bacterial communities by amplicon sequencing

Fig. 8

Comparison of the bacterial composition data generated by Illumina sequencing of the nematode Steinernema glaseri SK39 (FROGS process) with the rpoB and 16S markers. Phylogenetic trees were inferred with MEGA7, using a PhyML-based maximum likelihood algorithm and the GTR model: (a) Phylogenetic tree of the observed OTUs obtained after Illumina-amplicon rpoB sequencing; (b) Phylogenetic tree of the observed OTUs obtained after Illumina-amplicon 16S rRNA sequencing. The OTUs of the three replicates are summed, but only OTUs with an abundance > 0.1% of total reads in individual replicates were included in the analysis. The OTUs corresponding to the true symbiotic bacterium (X. poinarii) are highlighted in blue. The OTUs corresponding to false-positive symbiotic bacteria from the genera Xenorhabdus and Photorhabdus are highlighted in red. The sum of the read numbers is indicated after the OTU name. Bootstrap values (percentages of 1000 replicates) of more than 80% are shown at the nodes

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