Fig. 3: Distribution of metabolic genes in marine bacteria.
From: Molecular hydrogen in seawater supports growth of diverse marine bacteria
a, Bubble plot showing metabolic potential of the metagenome-assembled genomes constructed from the three study sites (110 MAGs) and previously reported for the Tara Oceans dataset (1,877 MAGs). MAGs are summarized at phylum level, with the size of the circle corresponding to the number of genomes in that phylum with a given gene, and the colour reflecting the percentage of genome completeness. Marker genes that were not detected in any MAG are omitted. b, Maximum-likelihood phylogenetic tree of the catalytic subunit of the group 1 and 2 [NiFe]-hydrogenases. Hydrogenase sequences retrieved from the new MAGs (coloured green) and Tara MAGs (coloured blue) are shown alongside representative reference sequences (coloured yellow), including the three cultured marine bacteria (names in red). Evolutionary history was inferred by using the JTT matrix-based model, the tree was bootstrapped using 50 replicates and the tree is rooted using the outgroup group 4a [NiFe]-hydrogenase sequence. The tree includes hydrogenase subgroups implicated in aerobic respiration (groups 1d, 1f, 1l, 2a), anaerobic respiration (groups 1a, 1b, 1c, 1e) and H2 sensing (groups 2b and 2c).
