Seawater metagenome
Ontology highlight
ABSTRACT:
PROVIDER: PRJDB10629 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| DRR249367_1.fastq.gz | Fastqsanger.gz | |||
| DRR249367_2.fastq.gz | Fastqsanger.gz | |||
| DRR249368_1.fastq.gz | Fastqsanger.gz | |||
| DRR249368_2.fastq.gz | Fastqsanger.gz | |||
| DRR249369_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 12 |
Similar Datasets
Project description:Response of polar microbial communities to terrestrially-derived dissolved organic matter amendments
| PRJNA310254 | ENA
Project description:<p>Sponges are sessile filter-feeders that can process vast amounts of water and are known to influence the chemistry of the surrounding seawater. There has been limited work however to understand the extent to which sponges alter dissolved organic matter (DOM), yet in areas where sponges are abundant, sponges may contribute significantly to the reef seawater profile of DOM. This work provides an in-depth examination of six prevalent sponges on Caribbean reefs and how they alter DOM and other seawater nutrients. Incurrent and excurrent seawater samples were collected for each of the six sponge species and processed for: inorganic nutrients, fluorescent dissolved organic matter (fDOM), untargeted and targeted metabolomics, and particulate matter by flow cytometry. Sponges were sampled from two coral reef sites in the Florida Keys (Florida, USA): Looe Key reef and Wonderland reef in the southern Florida Keys. We found higher that sponges altered a relatively small subset of the DOM profile and were a net sink of most mass features from untargeted metabolomics. However, sponges also released some putatively labile metabolites and processed DOM in a species-specific manner. These results provide additional support for the large impact that sponges have in the dissolved nutrient profile on coral reefs and provide support for a species-specific impact, with some species altering the DOM profile, fDOM profile, and/or inorganic nutrients to a greater extent than other species. These results have implications for better understanding the influence of the sponge community on coral reef nutrient dynamics.</p>
2025-10-21 | MTBLS13194 | MetaboLights
Project description:Cultures of Synechococcus (WH8102) were grown in polycarbonate bottles with a continuous culturing method with an artificial seawater medium. The experimental design included two concentration ratios of macronutrients (NO3-:PO43- = 1.7 and 80) and 3 levels of temperature (20, 24 and 28°C). Light was supplied with white fluorescent lamps at ~125 umol quanta m-2 s-1 on a 12h:12h light:dark cycle. Cultures were stable 38 days after initiation and cells were collected on days 38, 43, 47, 50 and 57 for particulate organic matter, nutrient analysis and cellular proteins.
2024-06-16 | PXD043180 | Pride
Project description:<p>Untargeted features from the Bermuda Atlantic Time-series Study (BATS) site collected during the time period spanning 2016 to 2019. Metabolites were sampled from surface seawater to 1000 m deep and throughout the year. Dissolved organic matter extracts were analyzed in positive and negative ion mode with an ultra-high performance liquid chromatography system (Vanquish UHPLC, Thermo Scientific) coupled with an Orbitrap Fusion Lumos Tribid mass spectrometer.</p>
2024-02-28 | MTBLS5228 | MetaboLights
Project description:Measure changes in dissolved organic matter composition and resulting microbial decomposition rates in an experimentally warmed peatland.
2021-05-27 | PXD019912 | Pride
Project description:Hawaii Dissolved Organic Matter (HIDOM) microcosm perturbation experiments
| PRJNA196863 | ENA
Project description:The fraction of dissolved dimethylsulfoniopropionate (DMSPd) converted by marine bacterioplankton into the climate-active gas dimethylsulfide (DMS) varies widely in the ocean, with the factors that determine this value still largely unknown. One current hypothesis is that the ratio of DMS formation:DMSP demethylation is determined by DMSP availability, with 'availability' in both an absolute sense (i.e., concentration in seawater) and in a relative sense (i.e., proportionally to other labile organic S compounds) being proposed as the critical factor. We investigated these models during an experimentally-induced phytoplankton bloom using an environmental microarray targeting DMSP-related gene expression in the Roseobacter group, a taxon of marine bacteria known to play an important role in the surface ocean sulfur cycle. The array consisted of 1,578 probes to 431 genes, including those previously linked to DMSP degradation as well as core genes common in sequenced Roseobacter genomes. The prevailing pattern of Roseobacter gene expression showed depletion of DMSP-related transcripts during the peak of the bloom, despite the fact that absolute concentrations and flux of DMSP-related compounds were increasing. A likely interpretation is that DMSPd was assimilated by Roseobacter populations in proportion to its relative abundance in the organic matter pool (the “relative sense” hypothesis), and that it is not taken up in preference to other sources of labile organic sulfur or carbon produced during the bloom. The relative investment of the Roseobacter community in DMSP demethylation did not predict the fractional conversion of DMSP to DMS, however, suggesting a complex regulatory process that may involve multiple fates of DMSPd.
2010-08-05 | GSE21325 | GEO
Project description:<p><strong>RATIONALE: </strong>Marine dissolved organic matter (DOM) has long been recognized as a large and dynamic component of the global carbon cycle. Yet, DOM is chemically varied and complex and these attributes present challenges to researchers interested in addressing questions about the role of DOM in global biogeochemical cycles.</p><p><strong>METHODS: </strong>Organic matter extracts from seawater were analyzed by direct infusion with electrospray ionization into a Fourier transform ion cyclotron resonance mass spectrometer. Network analysis was used to quantify the number of chemical transformations between mass-to-charge values in each sample. The network of chemical transformations was calculated using the MetaNetter plug-in within Cytoscape. The chemical transformations serve as markers for the shared structural characteristics of compounds within complex DOM.</p><p><strong>RESULTS: </strong>Network analysis revealed that transformations involving selected sulfur-containing moieties and isomers of amino acids were more prevalent in the deep sea than in the surface ocean. Common chemical transformations were not significantly different between the deep sea and surface ocean. Network analysis complements existing computational tools used to analyze ultrahigh-resolution mass spectrometry data.</p><p><strong>CONCLUSIONS: </strong>This combination of ultrahigh-resolution mass spectrometry with novel computational tools has identified new potential building blocks of organic compounds in the deep sea, including the unexpected importance of dissolved organic sulfur components. The method described here can be readily applied by researchers to analyze heterogeneous and complex DOM.</p>
2016-10-31 | MTBLS366 | MetaboLights
Project description:<p>Organic carbon in seawater plays a significant role in the global carbon cycle. The concentration and composition of dissolved organic carbon, operationally defined in this project as organic carbon that passes through a 0.2 µm filter, reflect the actions of the biological community and chemical reactions that occur in seawater. Here, we repeatedly sampled the oligotrophic northwest Sargasso Sea in the vicinity of the Bermuda Atlantic Time-Series Study site (BATS) to quantitatively follow select known compounds within the pool of dissolved organic matter in the upper 1000 meters of the water column over a four-year period. Metabolite concentrations revealed patterns with depth and time with most metabolites showing surface enrichment and lower concentrations with depth. Select metabolites had a pattern of increased and decreased concentrations throughout the year, which was observed in each of the years sampled. Vitamins, including pantothenic acid, biotin, and riboflavin, presented annual increases in the winter period when mixed layer depths are deepest. Light-sensitive riboflavin also showed significant decreases during daylight hours under diel sampling. The metabolites examined in this study are all components of central carbon metabolism. By examining these metabolites at finer resolution and in a relatively long time series, we have clues on microbial actions in marine systems, data which are fundamental to understanding the chemical response of marine systems to future changes in climate.</p>
2022-02-09 | MTBLS2356 | MetaboLights