Extended Data Fig. 1: IPPB pipeline for identifying phz+ bacteria.
From: Phenazines contribute to microbiome dynamics by targeting topoisomerase IV
a, Schematic representation of the Identifier of Phenazine-Producing Bacteria (IPPB) pipeline. The pipeline automates the search for homologous proteins of phenazine biosynthetic core proteins (PhzA/B, PhzC, PhzD, PhzE, PhzF, PhzG) within a strain’s genome. Protein identity thresholds are applied as indicated, and strains are classified as phz+ if all core proteins are identified and the corresponding genes are located within 20 kb of each other. Strains meeting these criteria are classified as phz+ bacterium, and included in the phylogenetic tree. Abbreviations: NGDC, National Geoscience Data Centre; IMG/M, Integrated Microbial Genomes & Microbiomes system. b, Schematic representation of 23 reference phenazine biosynthetic gene clusters. Core biosynthetic genes (phzA/B, phzC, phzD, phzE, phzF, phzG) are shown in color, while adjacent, non-core genes are depicted in grey.
