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. 2021 May 21;4:604. doi: 10.1038/s42003-021-02112-2

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© The Author(s) 2021

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 4 — Normalized gene abundance (reads/recA reads) of 49 marker genes indicative of different autotrophic carbon-fixation pathways, nitrogen, sulfur, methane, and hydrogen metabolisms in the Malaspina Gene DataBase. Gene abundances from KOs belonging to the same pathway and KEGG module level have been plotted together (Supplementary Data 7). From top to the bottom: Reductive citrate cycle (rTCA): K15230, K15231); hydroxypropionate–hydroxybutyrate cycle: K15039; dicarboxylate-hydroxybutyrate cycle|hydroxypropionate-hydroxybutylate cycle: K15016; Calvin cycle: K00855; K01601 and K01602; 3-hydroxypropionate bi-cycle|ethylmalonyl pathway|formaldehyde assimilation: K08691; 3-hydroxypropionate bi-cycle: K14468, K14470 and K09709; CO oxidation (C1 metabolism): K03520; K03519 and K03518; H₂-oxidation: K00436; methane oxidation: K16158; coenzyme M biosynthesis: K05979, K06034, K08097 and K13039; C1 metabolism/methanogenesis: K00320, K00200, K00201, K00202, K00672, K03390, K14083, and K00577; nitrification|methane oxidation: K10944, K10945, and K10946; Nitrogen fixation: K02588; nitrification|denitrification|dissimilatory nitrate reduction: K00370 and K00371; dissimilatory nitrate reduction (DNRA): K00362 and K00363; denitrification|dissimilatory nitrate reduction: K00374, K02567, and K02568; denitrification: K00368, K15864, K04561, K02305, and K00376; assimilatory nitrate reduction: K00367 and K00372; dissimilatory sulfate reduction: K00394, K00395 and K11181. Wilcoxon tests were done to test for significant differences between the particle-attached (PA) and free-living (FL) assemblages and significant (P value < 0.05) differences are labeled with asterisks. FL (empty boxes) and PA (filled boxes) bathypelagic microbial communities are shown next to each other.