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OAS accession Detail for 0299505
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| accessions_id: | 0299505 | archive |
|---|---|
| Title: | Microbial 16S OTU annotation information from staghorn coral health experiments with treatment with and without antibiotics from 2015-06-01 to 2015-06-30 (NCEI Accession 0299505) |
| Abstract: | This dataset contains biological and survey - biological data collected from 2015-06-01 to 2015-06-30. These data include class, family, genus, kingdom, order, and phylum. The instruments used to collect these data include Automated DNA Sequencer and PCR Thermal Cycler. These data were collected by Steven V. Vollmer and Tarik C. Gouhier of Northeastern University as part of the "Coral-microbial interactions as determinants of disease dynamics (Coral-microbial interactions)" project. The Biological and Chemical Oceanography Data Management Office (BCO-DMO) submitted these data to NCEI on 2021-02-01. The following is the text of the dataset description provided by BCO-DMO: Microbes priority annotations (OTU taxonomy) Dataset Description: This dataset reports assigned taxonomy of microbial 16S OTU's from a priority experiment with staghorn coral treated with and without antibiotics. |
| Date received: | 20210201 |
| Start date: | 20150601 |
| End date: | 20150630 |
| Seanames: | |
| West boundary: | -82.2565 |
| East boundary: | -82.2565 |
| North boundary: | 9.3513 |
| South boundary: | 9.3513 |
| Observation types: | biological, survey - biological |
| Instrument types: | PCR machine |
| Datatypes: | SPECIES IDENTIFICATION |
| Submitter: | |
| Submitting institution: | Biological and Chemical Oceanography Data Management Office |
| Collecting institutions: | Northeastern University |
| Contributing projects: | |
| Platforms: | |
| Number of observations: | |
| Supplementary information: | Acquisition Description: A priority experiment was conducted in 24 recirculating tanks at the Smithsonian stations in Bocas del Toro, Panama. Replicate staghorn corals fragments from 10 genotypes were placed into the tanks containing 12 liters of UV sterilized seawater. Twelve tanks were then exposed to an antibiotic cocktail of Kanamycin, Ampicillan, Tetracycline and Choloramphenicol (100mg/ml each) twice over a 48hr period, and the corals from the antibiotic treated and untreated tanks were sampled for DNA (T0 sample point) and lesioned with an airbrush. Half of the antibiotic- treated and untreated tanks were then exposed to 30ml of disease slurry (D) or healthy slurry (H) for the first exposure. 24hrs later a second dose of disease or healthy slurry was applied to complete the priority experiment treatments of healthy_healthy (h_h), disease_disease (d_d), healthy_disease (h_d), and disease_healthy (d_h). DNA for the microbial analyses were sampled 18hrs later (T2) and then disease was monitored over the course of the experiment. Corals that developed disease were sampled (T3) and sacrificed. All of the corals were sampled (T3 timepoint) on day 7. DNA from preserved coral samples were extracted using an Agencourt DNAdvance kit, in order to prepare 16S rDNA profiling libraries. 16s libraries of the hypervariable V3_v4 region were then prepared using a two-step PCR protocol and combinatorial barcodes, resulting in amplicon lengths from ~300-400 bp paired-end joined sequences from Illumina 250 bp sequencing on an Illumina HiSeq 2500. 16s sequencing data were clustered into operational taxonomic units (OTUs) using a 97% identity threshold in QIIME. Default QIIME settings were used to align reads, to remove chimera sequences, and to assign taxonomy. |
| Availability date: | |
| Metadata version: | 1 |
| Keydate: | 2024-12-01 17:29:37+00 |
| Editdate: | 2024-12-01 17:29:57+00 |