Metagenome-assembled genomes of phytoplankton microbiomes from the Arctic and Atlantic Oceans

Duncan, Anthony, Barry, Kerrie, Daum, Chris, Eloe-Fadrosh, Emiley, Roux, Simon, Schmidt, Katrin, Tringe, Susannah G., Valentin, Klaus U., Varghese, Neha, Salamov, Asaf, Grigoriev, Igor V., Leggett, Richard M., Moulton, Vincent ORCID: and Mock, Thomas ORCID: (2022) Metagenome-assembled genomes of phytoplankton microbiomes from the Arctic and Atlantic Oceans. Microbiome, 10. ISSN 2049-2618

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Background: Phytoplankton communities significantly contribute to global biogeochemical cycles of elements and underpin marine food webs. Although their uncultured genomic diversity has been estimated by planetary-scale metagenome sequencing and subsequent reconstruction of metagenome-assembled genomes (MAGs), this approach has yet to be applied for complex phytoplankton microbiomes from polar and non-polar oceans consisting of microbial eukaryotes and their associated prokaryotes. Results: Here, we have assembled MAGs from chlorophyll a maximum layers in the surface of the Arctic and Atlantic Oceans enriched for species associations (microbiomes) with a focus on pico- and nanophytoplankton and their associated heterotrophic prokaryotes. From 679 Gbp and estimated 50 million genes in total, we recovered 143 MAGs of medium to high quality. Although there was a strict demarcation between Arctic and Atlantic MAGs, adjacent sampling stations in each ocean had 51–88% MAGs in common with most species associations between Prasinophytes and Proteobacteria. Phylogenetic placement revealed eukaryotic MAGs to be more diverse in the Arctic whereas prokaryotic MAGs were more diverse in the Atlantic Ocean. Approximately 70% of protein families were shared between Arctic and Atlantic MAGs for both prokaryotes and eukaryotes. However, eukaryotic MAGs had more protein families unique to the Arctic whereas prokaryotic MAGs had more families unique to the Atlantic. Conclusion: Our study provides a genomic context to complex phytoplankton microbiomes to reveal that their community structure was likely driven by significant differences in environmental conditions between the polar Arctic and warm surface waters of the tropical and subtropical Atlantic Ocean. [MediaObject not available: see fulltext.]

Item Type: Article
Additional Information: Funding Information: This work was supported by the Natural Environmental Research Council [grant number NE/N012070/1]. The work conducted by the US Department of Energy Joint Genome Institute is supported by the Office of Science of the US Department of Energy under contract no. DE-AC02-05CH11231. Funding Information: The authors would like to thank the following collaborators from the Joint Genome Institute: A. Clum, A. Copeland, B. Foster, Br. Foster, M. Huntemann, N. N. Ivanova, N. C. Kyrpides, E. Lindquist, S. Mukherjee, K. Palaniappan and T.B.K. Reddy. Sea surface temperature data in Fig. 1 is taken from NASA Goddard Space Flight Center, Ocean Ecology Laboratory, Ocean Biology Processing Group; (2014): Moderate-resolution Imaging Spectroradiometer (MODIS) Aqua 11?m Day/Night Sea Surface Temperature Data; 2014 Reprocessing, NASA OB.DAAC. doi: data/10.5067/AQUA/MODIS/L3B/SST/2014. Accessed on 09/01/2020. Publisher Copyright: © 2022, The Author(s).
Uncontrolled Keywords: microbiology,microbiology (medical),sdg 14 - life below water ,/dk/atira/pure/subjectarea/asjc/2400/2404
Faculty \ School: Faculty of Science > School of Computing Sciences
Faculty of Science > School of Environmental Sciences
Faculty of Science
University of East Anglia Research Groups/Centres > Theme - ClimateUEA
UEA Research Groups: Faculty of Science > Research Groups > Norwich Epidemiology Centre
Faculty of Medicine and Health Sciences > Research Groups > Norwich Epidemiology Centre
Faculty of Science > Research Groups > Computational Biology
Faculty of Science > Research Groups > Centre for Ocean and Atmospheric Sciences
Faculty of Science > Research Centres > Centre for Ecology, Evolution and Conservation
Faculty of Science > Research Groups > Environmental Biology
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Depositing User: LivePure Connector
Date Deposited: 13 Jan 2023 09:30
Last Modified: 09 Mar 2024 08:31
DOI: 10.1186/s40168-022-01254-7


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