<div><p>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.</p>
<p>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.</p>
<p>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.</p></div>
Microbe priority experiment counts (OTU counts)
<div><p>This dataset reports the number of reads of microbial 16S OTU's from a priority experiment with staghorn coral treated with and without antibiotics. Please note that this dataset contains over 1.4 million records and is slow to load on the data display page. The data file is available for download via the "Data Files" section.</p></div>
Microbe priority experiment counts
<div><p><strong>BCO-DMO Processing Notes:</strong><br />
- added conventional header with dataset name, PI name, version date<br />
- converted color codes to full color words<br />
- removed column 'tank'</p></div>
816379
Microbe priority experiment counts
2020-06-22T16:23:05-04:00
2020-06-22T16:23:05-04:00
2023-07-07T16:10:26-04:00
urn:bcodmo:dataset:816379
Microbial 16S OTU count data from staghorn coral health experiments with treatment with and without antibiotics
This dataset reports the number of reads of microbial 16S OTU's from a priority experiment with staghorn coral treated with and without antibiotics.
false
Gouhier, T. C., Vollmer, S. V. (2021) Microbial 16S OTU count data from staghorn coral health experiments with treatment with and without antibiotics. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2020-06-25 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.816379.1 [access date]
true
1
10.26008/1912/bco-dmo.816379.1
false
2021-02-01
priority effects
microbes
16S RNA
antibiotics
white band disease
WBD
2020-06-25
Datapackage.json
Frictionless Data Package
https://www.bco-dmo.org/dataset/816379/datapackage.json
application/vnd.datapackage+json
PDF
https://www.bco-dmo.org/dataset/816379/Dataset_description.pdf
application/pdf
ISO 19115-2 (NOAA Profile)
https://www.bco-dmo.org/dataset/816379/iso
application/xml
http://www.isotc211.org/2005/gmd-noaa
Dublin Core
https://www.bco-dmo.org/dataset/816379/dublin-core
application/xml
http://purl.org/dc/elements/1.1/
816379
http://lod.bco-dmo.org/id/dataset/816379
2015-06 - 2015-06
2015-06
--06
2015
2015-06
--06
2015
OSPREY
http://www.opengis.net/def/crs/OGC/1.3/CRS84
<http://www.opengis.net/def/crs/OGC/1.3/CRS84> POINT (-82.2565 9.3513)
9.3513
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