The Ocean Archive System searches our original datasets as they were submitted to us, not individual points or profiles. If you want to search and retrieve ocean profiles in a common format, or objectively analyzed fields, your better option may be to use one of our project applications. See: Access Data
OAS accession Detail for 0288303
| << previous | |revision: 1 |
| accessions_id: | 0288303 | archive |
|---|---|
| Title: | Metabarcoding zooplankton at station ALOHA: Operational taxonomic unit (OTU) tables and fasta files for representative sequences from each OTU (Plankton Population Genetics project) from 2014-06-13 to 2014-06-19 (NCEI Accession 0288303) |
| Abstract: | This dataset contains biological data collected on R/V Falkor during cruise FK140613 in the North Pacific Ocean from 2014-06-13 to 2014-06-19. These data include taxon. The instruments used to collect these data include Automated DNA Sequencer, Bioanalyzer, and PCR Thermal Cycler. These data were collected by Dr Erica Goetze of University of Hawaii as part of the "Basin-scale genetics of marine zooplankton (Plankton Population Genetics)" project. The Biological and Chemical Oceanography Data Management Office (BCO-DMO) submitted these data to NCEI on 2017-06-12. The following is the text of the dataset description provided by BCO-DMO: Operational taxonomic unit (OTU) tables and fasta files for representative sequences from each OTU Dataset Description: This data submission consists of metabarcoding data for the zooplankton community in the epipelagic, mesopelagic and upper bathypelagic zones (0-1500m) of the North Pacific Subtropical Gyre. The goal of this study was to assess the hidden diversity present in zooplankton assemblages in midwaters, and detect vertical gradients in species richness, depth distributions, and community composition of the full zooplankton assemblage. Samples were collected in June 2014 from Station ALOHA (22.75, -158) using a 1-meter square Multiple Opening and Closing Nets and Environmental Sampling System (MOCNESS, 200um mesh), on R/V Falkor cruise FK140613. Next generation sequence data (Illumina MiSeq, V3 chemistry, 300-bp paired-end) of the zooplankton assemblage derive from amplicons of the V1-V2 region of 18S rRNA (primers described in Fonseca et al. 2010). The data includes sequences and read count abundance information for molecular OTUs from both holoplanktonic and meroplanktonic taxa. All results derive from analyses in mothur v1.36.1 (Schloss et al. 2009, Kozich et al. 2013). Tables from four analyses are included in this submission: 1) 97_OTUtable: read counts for each OTU (clustered at 97% similarity) across 54 samples (depth, size fractionated), with NCBI BLAST results for the top representative sequence from each OTU. 2) 97_OTU_subsampled: read counts for each OTU (clustered at 97% similarity), subsampled for even sequencing coverage across 54 samples (depth, size fractionated, with NCBI BLAST results for the top representative sequence from each OTU. 3) 99_OTU: read counts for each OTU (clustered at 99% similarity) across 54 samples (depth, size fractionated), with NCBI BLAST results for the top representative sequence from each OTU. 4) 99_OTU_subsampled: read counts for each OTU (clustered at 99% similarity), subsampled for even sequencing coverage across 54 samples (depth, size fractionated), with NCBI BLAST results for the top representative sequence from each OTU. fasta files: RepSeqs97.fasta: representative sequences for each OTU identified by abundance (top read) and with alignment gaps removed. Clustered at 97% similarity. RepSeqs99.fasta: representative sequences for each OTU identified by abundance (top read) and with alignment gaps removed. Clustered at 99% similarity. Related dataset containing NCBI accession numbers for sequence data: Metabarcoding zooplankton at station ALOHA: NCBI SRA accession numbers |
| Date received: | 20170612 |
| Start date: | 20140613 |
| End date: | 20140619 |
| Seanames: | North Pacific Ocean |
| West boundary: | -158 |
| East boundary: | -158 |
| North boundary: | 22.75 |
| South boundary: | 22.75 |
| Observation types: | biological |
| Instrument types: | PCR machine |
| Datatypes: | TAXONOMIC CODE |
| Submitter: | |
| Submitting institution: | Biological and Chemical Oceanography Data Management Office |
| Collecting institutions: | The University of Hawai'i System |
| Contributing projects: | |
| Platforms: | Falkor (CIFR) |
| Number of observations: | |
| Supplementary information: | Acquisition Description: Sample Codes: Read count parameter names (e.g. FA3_N7_SF1) include the following three codes: MOCNESS tow FA3: Night sampling FA4: Day sampling Depth range: N1: 1500-1000m N2: 1000-700m N3: 700-500m N4: 500-300m N5: 300-200m N6: 200-150m N7: 150-100m N8: 100-50m N9: 50m-0m Wet-sieved zooplankton size fractions SF1: 0.2-0.5 mm SF2: 0.5-1.0 mm SF3: 1.0-2.0 mm Data parameters with the prefix (NCBI_) are from the National Center for Biotechnology Information (NCBI, https://www.ncbi.nlm.nih.gov/) Data parameters with the prefix (silva_) are from the Silva database (https://www.arb-silva.de/). |
| Availability date: | |
| Metadata version: | 1 |
| Keydate: | 2024-02-02 15:03:31+00 |
| Editdate: | 2024-02-02 15:04:47+00 |