Characterizing organisms from three domains of life with universal primers from throughout the global ocean

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McNichol, Jesse, Williams, Nathan L.R., Raut, Yubin, Carlson, Craig, Halewood, Elisa R., Turk-Kubo, Kendra, Zehr, Jonathan P., Rees, Andrew P., Tarran, Glen, Gradoville, Mary R., Wietz, Matthias, Bienhold, Christina, Metfies, Katja, Torres-Valdés, Sinhué, Mock, Thomas, Eggers, Sarah Lena, Jeffrey, Wade, Moss, Joseph, Berube, Paul, Biller, Steven, Bodrossy, Levente, Van De Kamp, Jodie, Brown, Mark, Sow, Swan L.S., Armbrust, E. Virginia and Fuhrman, Jed (2025) Characterizing organisms from three domains of life with universal primers from throughout the global ocean. Scientific Data, 12 (1). ISSN 2052-4463

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Abstract

We introduce the Global rRNA Universal Metabarcoding Plankton database (GRUMP), which consists of 1194 samples that were collected from 2003–2020 and cover extensive latitudinal and longitudinal transects, as well as depth profiles in all major ocean basins. DNA from unfractionated (>0.2 µm) seawater samples was amplified using the 515Y/926 R universal three-domain rRNA gene primers, simultaneously quantifying the relative abundance of amplicon sequencing variants (ASVs) from bacteria, archaea, eukaryotic nuclear 18S, and eukaryotic plastid 16S. Thus, the ratio between taxa in one sample is directly comparable to the ratio in any other GRUMP sample, regardless of gene copy number differences. This obviates a problem in prior global studies that used size-fractionation and different rRNA gene primers for bacteria, archaea, and eukaryotes, precluding comparisons across size fractions or domains. On average, bacteria contributed 71%, eukaryotes 19%, and archaea 8% to rRNA gene abundance, though eukaryotes contributed 32% at latitudes >40°. GRUMP is publicly available on the Simons Collaborative Marine Atlas Project (CMAP), promoting the global comparison of marine microbial dynamics.

Item Type: Article
Additional Information: Publisher Copyright: © The Author(s) 2025.
Uncontrolled Keywords: statistics and probability,information systems,education,computer science applications,statistics, probability and uncertainty,library and information sciences,sdg 14 - life below water ,/dk/atira/pure/subjectarea/asjc/2600/2613
Faculty \ School: Faculty of Science > School of Environmental Sciences
University of East Anglia Research Groups/Centres > Theme - ClimateUEA
UEA Research Groups: Faculty of Science > Research Centres > Centre for Ecology, Evolution and Conservation
Faculty of Science > Research Groups > Wolfson Centre for Advanced Environmental Microbiology
Faculty of Science > Research Groups > Environmental Biology
Faculty of Science > Research Groups > Centre for Ocean and Atmospheric Sciences
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Depositing User: LivePure Connector
Date Deposited: 27 Mar 2026 12:30
Last Modified: 31 Mar 2026 02:08
URI: https://ueaeprints.uea.ac.uk/id/eprint/102618
DOI: 10.1038/s41597-025-05423-9

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