Fig 5.

Means ± SD of the sum of normalized gene abundances (reads/recA reads) associated with pathways/reactions for carbon, nitrogen, and sulfur metabolism and for photosynthesis for each sampling group. The list of genes used is provided in Table S1. Bars with multiple pathways/reaction names consist of KOs shared between these pathways/reactions, except pmo-amoABC genes, which were added to the sum of reads for nitrification and methane oxidation. Significantly differentially abundant genes (adjusted P-values ≤0.01) between shallow and deeper river sites and between plume surface and brackish water are presented in Fig. 6a and b.