Extended Data Fig. 9: Phylogenetic reconstruction of form I and II RbcL peptides. | Nature Microbiology

Extended Data Fig. 9: Phylogenetic reconstruction of form I and II RbcL peptides.

From: A ubiquitous gammaproteobacterial clade dominates expression of sulfur oxidation genes across the mesopelagic ocean

Extended Data Fig. 9

Among the Arenicellales, form I gene was found in 21 of the UBA868 family genomes, in one LS-SOB family genome and an unclassified Arenicellales (A). The form II gene was found in 88 UBA868 family and one BMS3Bbin11 family genomes and was not detected in the rest of the families in the order (B). The BMS3Bbin11 RbcL peptide fell within the unclassified Bacteria in (B). This maximum-likelihood tree was built with IQ-TREE. This reference phylogenetic tree was used to identify the metatranscriptome sequence reads from samples under the Ross Sea ice by placing the corresponding peptides on the tree. RbcL peptides from the Ocean Microbial Reference Gene Catalog (OM-RGC) were also taxonomically classified according to their placement within the subclusters. Circles at nodes are proportional to the bootstrap values ≥70% based on 100 replicates. Scale bar indicates number of substitutions per site.

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