CCE LTER P1908 Upwelling Filament Ocean Acidification Phytoplankton Iron Incubation Experiments
Metatranscriptome assembly, read counts, and annotations from four sets of trace metal clean ocean acidification experimeints in the California Current Ecosystem. Experiments were conducted during August 2019 as part of the CCE LTER program. Samples were collected at the initial time point (T0), and...
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| Format: | Dataset |
| Language: | unknown |
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Zenodo
2021
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| Online Access: | https://dx.doi.org/10.5281/zenodo.5758777 https://zenodo.org/record/5758777 |
| Summary: | Metatranscriptome assembly, read counts, and annotations from four sets of trace metal clean ocean acidification experimeints in the California Current Ecosystem. Experiments were conducted during August 2019 as part of the CCE LTER program. Samples were collected at the initial time point (T0), and three pCO 2 treatments (400, 800, and 1200 ppm) with two time points for each experiment. Poly-A selected mRNA was sequenced on an Illumina NovaSeq 6000 and then assembled with Trinity for each separate experiment. Proteins from the assembly were then predicted with Genemark S-T. Taxonomic annotation was performed with DIAMOND BLASTP searches against PhyloDB v1.076 and based on the Lineage Proability Index from the top hits. Functional annotation was similarly performed using KEGG with KEGG Orthology annotation based on KofamKOALA results. Read quantification was conducted with Bowtie2. Predicted proteins from each assembly is provided in fasta format. The read counts and annotations for each experiment are in tab-delimited files. |
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