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. 2022 Mar 31;11:e67667. doi: 10.7554/eLife.67667

Figure 6. Augmenting experimental data with GCs of unknown function.

Figure 6.

(A) We used the fitness values from the experiments from Price et al., 2018 to identify genes of unknown function that are important for fitness under certain experimental conditions. The selected gene belongs to the genomic unknown GC GU_19737823 and presents a strong phenotype (fitness = –3.1; t = –9.1) (B) Occurrence of GU_19737823 in the metagenomes used in this study. Darker bars depict the number of metagenomes where the GC is found. (C) GU_19737823 is a member of the GCC GU_c_21103. The network shows the relationships between the different GCs members of the gene cluster community GU_c_21103. The size of the node corresponds to the node degree of each GC. Edge thickness corresponds to the bitscore/column metric. Highlighted in red is GU_19737823. (D) We identified all the genes in the GTDB_r86 genomes that belong to the GCC GU_c_21103 and explored their genomic neighborhoods. GU_c_21103 members were constrained to the class Gammaproteobacteria, and GU_19737823 is mostly exclusive to the order Pseudomonadales. The gene order in the different genomes analyzed is highly conserved, finding GU_19737823 after the rpsF::rpsR operon and before rpll. rpsF and rpsR encode for the 30 S ribosomal protein S6 and 30 S ribosomal protein S18, respectively. The GTDB_r86 subtree only shows RefSeq genomes. Branch colors correspond to the different GCs found in GU_c_21103. The bubble plot depicts the number of genomes with a gene that belongs to GU_c_21103.