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Fig. S1. Relative pooled abundance of Crenarchaeal OTUs ribotypes for WO = well-oxygenated water (Dissolved Oxygen ≥164 μM) and OD = oxygen-deficient waters (Dissolved Oxygen ≤27 μM) from the permanent and seasonal OMZ ecosystems.

Fig. S2. Consensus tree showing the phylogenetic relationship of crenarchaeal 16S rRNA gene sequences representing the different OTUs retrieved from the study area and from other previous reports from marine environments and amoA-containing Crenarchaeota. The OTU ID corresponds to the same number showed in the Fig. S1. The OTU names were coloured following the predominant sequences origin, well-oxygenated waters (blue, dissolved oxygen ≥ 164 μM) and oxygen-deficient waters (red, dissolved oxygen ≤ 27 μM). All branches are supported by bootstrap values ≥ 60%. The number of sequences is presented in brackets beside each polygon name. The scale bar is shown on the left and represents NJ branch length. Phylogenetic relationship analyses and consensus tree reconstructions are explained in the methods section.

Table S1. Operational taxonomic units ID of the archaeal amoA clones retrieved from the different sampling stations grouped according to the site and oxygen concentration in the water column.

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