Dataset Available

Microphytobenthic community and microelectrode profile responses in oiled coastal marine sediment microcosms, based on samples collected at Chandeleur Island, Louisiana and Estero Bay, Florida in 2017

Authors: Hidetoshi Urakawa and Megan F. Feeney

Published On: Aug 03 2020 21:47 UTC

DOI: https://doi.org/10.7266/2KJXRNCG

UDI: R4.x262.000:0059

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Project Information

Funded By:
Gulf of Mexico Research Initiative

Funding Cycle:
RFP-IV

Research Group:
Alabama Center for Ecological Resilience (ACER)

Point of Contact

Hidetoshi Urakawa
Florida Gulf Coast University / Department of Marine and Ecological Sciences
hurakawa@fgcu.edu

Theme keywords

The Deepwater Horizon oil spill, tidal flat, benthic algae, diatoms, Microcosm, Metagenomic, Sediment metagenome

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Abstract:

The Deepwater Horizon oil spill impacted tidal flats in the Gulf of Mexico. This collection of datasets is generated from oiled tidal flat microcosms to examine the oil spill responses on benthic algal communities. Genomic DNA was extracted from the surface sediment cores. The abundance and biodiversity of microphytobenthic communities were characterized based on the 23S rRNA gene using Illumina MiSeq 2x 250 bp technology. Research background and DNA sequence data can be accessed at the National Center for Biotechnology Information (NCBI) under accession number PRJNA631343.

Suggested Citation:

Hidetoshi Urakawa and Megan F. Feeney. 2020. Microphytobenthic community and microelectrode profile responses in oiled coastal marine sediment microcosms, based on samples collected at Chandeleur Island, Louisiana and Estero Bay, Florida in 2017. Distributed by: GRIIDC, Harte Research Institute, Texas A&M University–Corpus Christi. doi:10.7266/2KJXRNCG

Purpose:

Shared research information and DNA sequences can be used as references by other researchers who study oiling effects on benthic algal communities.

Data Parameters and Units:

Sequence data have been submitted to NCBI. The accession is: PRJNA631343 To access summary: https://www.ncbi.nlm.nih.gov/bioproject/?term=PRJNA631343 To browse a list of datasets: https://www.ncbi.nlm.nih.gov/sra?linkname=bioproject_sra_all&from_uid=631343 The PRJNA631343_Oiling_effects_on_ microphytobenthic community.csv file contains detail information regarding the submission at NCBI and includes: Run (SRR11743583-SRR11743600), Assay Type (AMPLICON), AvgSpotLen (500), Bases, BioProject (PRJNA631343), BioSample (SAMN14832876-SAMN14832893), BioSampleModel (Metagenome or environmental), Bytes, Center Name (FLORIDA GULF COAST UNIVERSITY), Collection_Date (MM/DD/YYYY), Consent (public), DATASTORE filetype (fastq, sra), DATASTORE provider, DATASTORE region, Experiment, geo_loc_name_country (USA), geo_loc_name_country_continent (North America), geo_loc_name (Chandeleur Island, Louisiana and Estero Bay, Florida), Instrument (Illumina MiSeq), isolation_source (marine sediment), lat_lon (26.4303 N 81.859167 W; 29.8959400 N 88.8301300 W), Library Name, LibraryLayout (PAIRED), LibrarySelection (PCR), LibrarySource (METAGENOMIC), Organism (sediment metagenome), Platform (ILLUMINA), ReleaseDate (MM/DD/YY HH:MM), Sample Name, source_material_id, SRA Study (SRP260886).

Methods:

Sediment samples were used to determine the 23S rRNA gene of benthic algal communities. DNA extraction was performed with a PowerMag DNA Isolation kit by using KingFisher Nucleic Acid and Protein Purification System. DNA samples were sequenced using the Illumina MiSeq platform. Samples were sequenced using 23S rRNA gene primers p23SrV_f1 and p23SrV_r1, which can target both eukaryotic algae and cyanobacteria.