Figure 2
From: Single sample resolution of rare microbial dark matter in a marine invertebrate metagenome
Phylogenetic and functional analysis of divergent AB1_lowgc genome.
(a) Approximately maximum likelihood tree generated based on concatenated single-copy marker gene protein sequences from the AB1_lowgc genome assembly and 1,338 other reference genomes. Bootstrap proportions greater than 70% are expressed to the left of each node as a percentage of 1,000 replicates. (b) Proportion of normalized RNAseq reads, expressed as reads per kilobase of gene per million reads aligning to ORFs (RPKMO53) in the AB1_lowgc genome with assigned (39.3%) and unassigned (60.7%) function. (c) Plot of RNAseq read coverage against a locus in the AB1_lowgc chromosome containing 16S and 23S rRNA genes. Alignment to a structural model of the bacterial small ribosomal subunit (blue, Supplementary Fig. S23) shows two discrete homologous regions flanking an intervening sequence. This section appears as a gap in aligned RNAseq reads, indicating that it is excised from the mature RNA sequence. RNAseq coverage in the intervening sequence consists exclusively of reads that have no pairing partners in flanking genomic regions. The 23S rRNA gene is separated from the 16S rRNA gene and the annotated region shown in red.
