Abstract:

Mesocosm experiments were carried out to test the effect of oil and Corexit on microbial communities over time. Three mesocosm treatments were prepared for this study: (1) Control (seawater only); (2) Water accommodated fraction (WAF; oil + seawater); and (3) Diluted chemically enhanced WAF of crude oil (DCEWAF; 1:10 dilution). Water was collected from each mesocosm and filtered (47mm, 0.2um PES membranes). Total DNA was extracted from filtered water samples and shotgun sequenced using Illumina HiSeq 2500.

Suggested Citation:

Amanda Achberger, Jason Sylvan. 2020. Microaggregate microbial community metagenome, LTMOSE, a Long Term Marine Oil Snow Mesocosm Experiment, sequence data. Distributed by: GRIIDC, Harte Research Institute, Texas A&M University–Corpus Christi. doi:10.7266/n7-1kx8-0z36

Publications:

Achberger, A. M., Doyle, S. M., Mills, M. I., Holmes, C. P., Quigg, A., & Sylvan, J. B. (2021). Bacteria-Oil Microaggregates Are an Important Mechanism for Hydrocarbon Degradation in the Marine Water Column. MSystems, 6(5). https://doi.org/10.1128/msystems.01105-21

Purpose:

To characterize the microbial community response to oil and dispersed oil in the Long Term Marine Oil Snow Mesocosm Experiment (LTMOSE).

Data Parameters and Units:

BioSample (SAMN14771364-SAMN14771373), DATASTORE_filetype (fastq sra), DATASTORE_provider, DATASTORE_region, Experiment, Library_Name, MBases, MBytes, Run, SRA_Sample, Sample_Name, timepoint, treatment, Assay_Type, AvgSpotLen, BioProject (PRJNA629337), BioSampleModel (MIMS.me), Center_Name (TEXAS A&M UNIVERSITY), Consent (public), InsertSize, Instrument (Illumina HiSeq 2500), LibraryLayout (PAIRED), LibrarySelection (RANDOM), LibrarySource (METAGENOMIC), LoadDate (4/29/2020; MM/DD/YYYY), Organism (seawater metagenome), Platform (ILLUMINA), ReleaseDate (4/29/2020; MM/DD/YYYY), SRA_Study (SRP259172), collection_date (May-17; Mon-YY), depth, env_broad_scale, env_local_scale, env_medium, geo_loc_name (USA: Galveston), lat_lon (29.2726 N 94.8126 W).

Methods:

Surface seawater collected in May 2017 from the coastal Northern Gulf of Mexico was used to establish 18 mesoscale incubations in large 80-100L glass tanks. A total of six identical tanks (A-F) were devoted to each of three experimental treatments. Natural seawater without the addition of oil served as the Control while seawater amended with the water accommodated fraction (WAF) of oil and seawater containing a diluted chemically enhanced water accommodated fraction (DCEWAF) of oil constituted the other two treatments. WAF was generated by mixing 25 mL of Macondo Surrogate Crude oil with seawater for 4hrs using the method previously described by Wade et al., (2017). To generate a chemically enhanced water accommodated fraction of oil, 25 MLS of Macado oil and Corexit 9500 (20:1) was added to seawater and processed using the same method as for WAF. This material was then divided and subsequently diluted 10-fold among 6 tanks to create a DCEWAF treatment that had concentrations consistent with those observed during the Deep Water Horizon oil spill event. Water samples (200 MLS) were gravity filtered through a 47mm, 3.0 m Isopore TSTP filter to collect micro-aggregates. All filters were placed into cryovials and immediately preserved at -80C until extraction. Total DNA was extracted from each of the filters using the FastDNA Spin Kit for Soil (MP Biomedicals) according to the manufacturer’s protocol. DNA was sequenced on the Illumina HiSeq platform (100bp PE) at the University of Delaware DNA Sequencing & Genotyping Center (Newark, DE, USA).

Provenance and Historical References:

Wade, T. L., Morales-McDevitt, M., Bera, G., Shi, D., Sweet, S., Wang, B., Gold-Bouchot, G., Quigg., A. & Knap, A. H. (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.e00419

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