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"study-abstract": "The study here includes 182 samples (91 DNA and 91 RNA) of the 16S from the Malaspina-2010 expedition. The samples were sequenced using Illumina MiSeq 2x250bp.",
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"study-abstract": "Bathypelagic samples collected during the global\ncircumnavigation Expedition Malaspina 2010 were generated by\namplifying the 18S rRNA gene\nusing primers XXXXX and XXXX. Sequencing was performed in an Illumina\nMiSeq platform (iTAGs) using 2x250 bp paired-end approach at\nGenoscope. The data generated has been used mainly to describe the\neukaryotic diversity from bathypelagic samples and describe its\nbiogeography.",
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"secondary-accession": "ERP129125",
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"study-abstract": "Bathypelagic samples collected during the global\ncircumnavigation Expedition Malaspina 2010 were generated by\namplifying the V4 and V5 hypervariable regions of the 16S rRNA gene\nusing primers 515F-Y (5’-GTGYCAGCMGCCGCGGTAA-3’) and 926R\n(5′-CCGYCAATTYMTTTRAGTTT-3′). Sequencing was performed in an Illumina\nMiSeq platform (iTAGs) using 2x250 bp paired-end approach at\nGenoscope. The data generated has been used mainly to describe the\nbacterial diversity from bathypelagic samples and describe its\nbiogeography.",
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"study-abstract": "Analysis of 18S DNA in Tara Oceans Protists size fractions through amplicon sequencing: Seawater was filtered from different depths to retain small and large cell sizes. The DNA was extracted and amplified by PCR.",
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"secondary-accession": "SRP064784",
"centre-name": "Max Planck Institute for Marine Microbiology",
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"study-abstract": "The methane cold seeps near Pomonte (Elba) are unique ecosystems situated in very shallow and porous coastal sands. We investigated the influence on hydrodynamics on microbial community structure and function. Understanding these ecosystems is important to estimate their role in carbon cycling and their emission of methane to the atmosphere.",
"study-name": "Microbial communities of methane seeps in shallow, porous sands off Elba",
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"last-update": "2024-04-15T19:18:18",
"secondary-accession": "SRP043706",
"centre-name": "University of Tartu",
"public-release-date": null,
"study-abstract": "This is a global dataset of unprecedented scope to disentangle the relative roles of climatic, edaphic, floristic, and spatial variables governing global-scale patterns of soil fungal diversity. We also address key macro-ecological phenomena such as latitudinal gradients of diversity and Rapoport’s rule (expansion of species’ latitudinal range with increasing latitude) as well as cross-biome and cross-continental biogeographic relationships in multiple phylogenetic and functional groups of fungi.",
"study-name": "Global fungal diversity",
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"secondary-accession": "ERP013833",
"centre-name": "SCIENCE FOR LIFE LABORATORY, KTH ROYAL INSTITUTE OF TECHNOLOGY",
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"study-abstract": "Microscopic plankton form the productive base of both marine and freshwater ecosystems and are key drivers of global biogeochemical cycles of carbon and nutrients. Plankton diversity is immense with representations from all major phyla within the three domains of life. So far, plankton monitoring has mainly been based on microscopic identification, which has limited sensitivity and reproducibility, not least because of the numerical majority of plankton being unidentifiable under the light microscope. Next Generation Sequencing (NGS) of taxonomic marker genes offers a means to identify taxa inaccessible by traditional methods; thus, recent studies have unveiled an extensive previously unknown diversity of plankton. Here, we conducted ultra-deep Illumina sequencing (average 105 sequences/sample) of rRNA gene amplicons of surface water eukaryotic and bacterial plankton communities along a 2000 km transect following the salinity gradient of the Baltic Sea. Community composition was strongly correlated with salinity for both bacterial and eukaryotic plankton assemblages, highlighting the importance of salinity for structuring the biodiversity within this ecosystem. The distribution of major planktonic taxa followed expected patterns as observed in monitoring programs, but also novel groups to the Baltic were observed, such as relatives to the coccolithophore Emiliana huxleyi in the northern Baltic Sea. The deep sequencing also enabled accurate enumeration of highly resolved (> 99% identity) operational taxonomic units, which revealed contrasting distribution profiles among closely related populations, reflecting niche partitioning into ecotypes. This study provides the first ultra-deep sequencing-based survey on eukaryotic and bacterial plankton biogeography in the Baltic Sea.",
"study-name": "Diversity of Pico- to Mesoplankton Along the 2000 km Salinity Gradient of the Baltic Sea",
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"secondary-accession": "SRP109262",
"centre-name": "Institute of Deep-Sea Science and Engineering, Chinese Academy of Sciences",
"public-release-date": null,
"study-abstract": "To share species we detected in the South China Sea",
"study-name": "marine sediment metagenome Genome sequencing and assembly",
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"last-update": "2024-04-15T19:06:05",
"secondary-accession": "DRP003833",
"centre-name": "Marine Microbiology Lab., Atmosphere and Ocean Research Institute, University of Tokyo, University of Tokyo",
"public-release-date": null,
"study-abstract": "The specific aim of this project was to determine bacterial and archaeal community structures in the PA assemblage in comparison to the free-living (FL) assemblage in the tropical and subtropical Pacific Ocean.",
"study-name": "Distinctive community structure and high diversity in particle-associated prokaryotes in tropical and subtropical Pacific Ocean surface seawater",
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"id": "MGYS00003989",
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"is-private": false,
"last-update": "2024-04-15T19:01:32",
"secondary-accession": "SRP041427",
"centre-name": "Marine Biological Laboratory",
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"study-abstract": "The classic view of polar ocean foodwebs emphasizes large predators sustained by energy and materials flow through short, efficient diatom-krill-predator food chains. Bacterial activity is generally low in cold polar waters compared to lower latitudes. This view appears to be changing, with new studies of microbial foodwebs in Arctic and Antarctic oceans. We characterized bacterial, archaeal, and eukaryotic community diversity and composition from two depths (near surface and below the euphotic zone) at four sites, including the inshore and offshore, and north and south corners of a sampling grid along the western coast of the Antarctic Peninsula (WAP). We detected up to 2-fold higher richness in microbial eukaryotes at surface and deep inshore northern stations as compared to southern ones but offshore northern and southern stations revealed either no trend or higher richness at depth in the south. In contrast, bacterial and archaeal richness showed no significant differences either inshore or offshore at northern versus southern extents but did vary with depth. Archaea were virtually absent in summer surface waters but were present in summer deep and winter surface samples. Overall, winter bacterial and archaeal assemblages most closely resembled summer sub-euphotic zone assemblages, reflecting well-established seasonal patterns of water column turnover and stratification that result in an isolated layer of “winter water” below the euphotic zone. Inter-domain heterotroph-phototroph interactions were evident from network analysis. The WAP is among the most rapidly warming regions on earth. Our results provide a baseline against which future change in microbial communities may be assessed.",
"study-name": "Marine bacterial, archaeal and eukaryotic diversity and community structure on the continental shelf of the Western Antarctic Peninsula",
"data-origination": "HARVESTED"
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"centre-name": "Laval University",
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"secondary-accession": "SRP115592",
"centre-name": "Shanghai Jiao Tong University",
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"study-abstract": "metabolic capabilities of Bathyarchaeota",
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