Abstract:

A mesocosm scale experiment was conducted to monitor the temporal changes in microbial diversity of microaggregates that form in response to the presence of oil and chemically dispersed oil. DNA was extracted from filter concentrated water samples and the SSU rRNA was sequenced.

Suggested Citation:

Achberger, Amanda, Shawn Doyle, and Jason Sylvan. 2020. Mesocosm: microbial community structure, MICROX, microbial oxidation and degradation of oil, SSU rRNA sequences. Distributed by: GRIIDC, Harte Research Institute, Texas A&M University–Corpus Christi. doi:10.7266/n7-fw1g-6935

Purpose:

To monitor the temporal changes in microbial diversity in response to the presence of oil and chemically dispersed oil.

Data Parameters and Units:

The headers are BioSample, DATASTORE_filetype, DATASTORE_provider, DATASTORE_region Experiment, Library_Name MBases, Mbytes, Run, SRA_Sample, Sample_Name description, sample_title, Assay_Type, AvgSpotLen, BioProject, BioSampleModel, Center_Name, Consent, InsertSize, Instrument, LibraryLayout, LibrarySelection, LibrarySource, LoadDate, Organism, Platform, ReleaseDate, SRA_Study, collection_date, depth env_biome, env_feature, env_material, geo_loc_name, lat_lon, organism and seq_methods.

Methods:

Water was collected from mesocosm tanks on days 0, 0.5, 1, 3, 6, 8, and 12. Three treatments were prepared: (1) Control, containing only seawater; (2) WAF, containing seawater and the water accommodated fraction of oil, and (3) DCEWAF, containing seawater and chemically enhanced WAF diluted by 10-fold. A fourth treatment containing seawater and Corexit alone with no oil was also prepared and sampled on days 0 and 12. Sampled water was filtered onto 0.2um PES membranes and frozen at -80°C until DNA extraction. Extracted DNA was used for PCR amplification of the V4 hyper-variable region of the 16S rRNA gene using primers 515F-806R. The resulting amplicon library was sequenced on the Illumina MiSeq platform.

Provenance and Historical References:

Knap, Anthony H., Thomas D. Sleeter, Richard E. Dodge, Sheila C. Wyers, Harold R. Frith, and Struan R. Smith. 1983. The effects of oil spills and dispersants use on corals: A review and multidisciplinary experimental approach. Oil and Petrochemical Pollution 1(3): 157–169. DOI: 10.1016/S0143-7127(83)90134-5 Wade, Terry L., Maya E. Morales-McDevitt, Gopal Bera, Dawai Shi, Stephen T. Sweet, Binbin Wang, Gerado Gold-Bouchot, Antonietta Quigg, and Anthony H. Knap. 2017 A method for the production of large volumes of WAF and CEWAF for dosing mesocosms to understand marine oil snow formation. Heliyon 3(10): e00419 DOI: 10.1016/j.heliyon.2017

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