Ontology highlight
ABSTRACT:
PROVIDER: PRJNA675293 | ENA |
REPOSITORIES: ENA
Similar Datasets
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:Ammonia oxidizer community structure were examined in a depth profile from 20 to 2000 m at the Bermuda Atlantic Time-series Study using a functional gene microarray to look at amoA diversity
2012-11-15 | GSE42287 | GEO
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
Project description:This project presents field metaproteomics data from Trichodesmium colonies collected from the surface ocean. Most were collected from the tropical and subtropical Atlantic ocean, but there is also data from the long term Bermuda Atlantic Time Series and Hawaii Ocean Time Series. Trichodesmium is a globally important marine microbe and its growth and nitrogen fixation activity is limited by nutrient availability in the surface ocean. This dataset was generated to answer questions about limitations on Trichodesmium's growth and activity in the nature.
2020-05-08 | PXD016225 | Pride
Project description:Bermuda Atlantic Time-series Study metagenomes
| PRJNA504027 | ENA
Project description:Ammonia oxidizer community structure were examined in a depth profile from 20 to 2000 m at the Bermuda Atlantic Time-series Study using a functional gene microarray to look at amoA diversity Two color array (cy3 and cy5): the universal standard 20 bp oligo (fluoresced with cy5) is printed to the slide with a 70-mer. Environmental DNA sequences (fluoresced with Cy3) within 15% of the 70-mer will bind to it. Signal is the cy3/cy5. Two replicate arrays were run on duplicate targets.
2012-11-15 | E-GEOD-42287 | biostudies-arrayexpress
Project description:This project characterizes the metabolic consequences of the daily physiological rhythms and diel vertical migration for the model subtropical copepod, Pleuromamma xiphias. P. xiphias were collected near the Bermuda Atlantic Time Series in plankton tows at different times of day, representing different parts of their daily vertical migration. Single copepods were isolated from the tows and flash-frozen for proteomics analysis.
2024-01-14 | PXD021156 | Pride
Project description:Sinking particles microbial 16S rRNA
| PRJNA476153 | ENA
Project description:Diverse diazotrophs on sinking marine particles
| PRJNA392595 | ENA
Project description:Peptides and proteins were identified using a novel de novo-discovery approach in suspended and sinking organic particles from the eastern tropical North Pacific and in a culture of a dominant autotroph from the region, the cyanobacterium Prochlorococcus. De novo peptide sequencing, where the sequence of amino acids is determined directly from mass spectra rather than from comparison to theoretical spectra from a selected sequence database, was found to be a useful tool for discovery of peptides present in a sample but not initially included in the search database. Iterative de novo-informed database search results suggested the presence of fungal peptides and proteins in deep sinking particles, consistent with growing evidence that fungi play an important role in degradation of sinking material in the ocean. The de novo-discovery approach also allowed the tracking of modified autotrophic cyanobacterial peptides to the deep sea, where they contributed 0.63% of the phylum-level identifiable peptide pool in a bathymetric sediment trap sample. Overall, the amino acid composition of the peptides in the sinking material showed little change with depth, consistent with earlier observations of bulk organic matter and/or amino acid composition during the early stages of degradation. However, we identified an abundance of modified amino acids in sinking and suspended particles, including high levels of deamidation, suggesting that partial degradation of protein could potentially fuel observed anammox and contribute to observed pool of refractory organic nitrogen. We also observe methylation of arginine, which has previously been shown to slow degradation of peptides in seawater. Our results demonstrate several examples how de novo-discovery allows for a deeper evaluation of proteins and peptides in environmental systems undergoing degradation.
2022-01-10 | PXD023187 | Pride