Data · dataset
[RNA taxonomy from PUPCYCLE II Iron incubation experiment] - RNA taxonomy data from an iron incubation experiment during the PUPCYCLE II cruise (R/V Sally Ride) within the California Current System in May and June of 2023 (CAREER: An integrated molecular and physiological approach to examining the dynamics of upwelled phytoplankton in current and changing oceans)
Listed in Biological and Chemical Oceanography Data Management Office (BCO-DMO) ERDDAP
This dataset includes metatranscriptomic (RNA-seq) taxonomy results from an iron incubation experiment using upwelled waters sampled in the California Current System (CCS) during the PUPCYCLE II cruise with Chief Scientist Adrian Marchetti.
Description
PUPCYCLE II (Phytoplankton response to the UPwelling CYCLE) took place onboard the R/V Sally Ride from May 29th to June 10th, 2023. Freshly upwelled seawater for the incubation experiment was collected within the northern CCS and placed into designated cubitainers.
Three cubitainers were immediately harvested for the initial timepoint (T0). The remaining twenty-seven cubitainers were assigned treatments: nine were unamended (Ctrl), nine were amended with 5 nM FeCl2 (Fe), and nine were amended with 200 nM Desferrioxamine B, a strong iron chelator (DFB). Three cubitainers from each treatment were harvested for each of the three subsequent timepoints: 48 hours (T1), 168 hours (T2), and 264 hours (T3) after incubation.
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Approximately 2.5 to 4 liters of each sample was harvested for RNA-seq of the natural phytoplankton community, or metatranscriptomics. The dataset provides results of RNA-seq analyses for relative taxonomic compositions of each sample, focused on broad protist groups, mixotroph genera, and diatom genera. These results show the differences in transcriptional activity of phytoplankton taxa groups between different iron regimes, specifically the domination of diatoms in Ctrl/+Fe and the steady presence of mixotrophs in DFB.
Links
Where it is published
- ERDDAP dataset info erddap.bco-dmo.org/erddap/info/bcodmo_dataset_1003525_v1/index.html ↗
landing page · from erddap bco dmo org
Catalogue records · 1
- ERDDAP tabledap access form erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_1003525_v1.html ↗
metadata API · from erddap bco dmo org
Topics
- From keywords
- Ocean & Atmospheric Science
- Inferred from text
- RNA sequencing 65%
Provenance · 1 source records, 5 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| Biological and Chemical Oceanography Data Management Office (BCO-DMO) ERDDAP | bcodmo_dataset_1003525_v1 | 16 h ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · erddap bco dmo org | connector:erddap_bco_dmo_org@1.0.0 | |
| concepts[field].local:field:ocean-atmospheric | mapping · erddap bco dmo org | connector:erddap_bco_dmo_org@1.0.0 | |
| concepts[modality].local:modality:rna-seq | enrichment · erddap bco dmo org | keyword-concept-rules@1.0.0 | title+description (65%) |
| description | source · erddap bco dmo org | connector:erddap_bco_dmo_org@1.0.0 | /summary |
| title | source · erddap bco dmo org | connector:erddap_bco_dmo_org@1.0.0 | /title |