Dataset Authors

Wade Jeffrey


These data are identified ciliates from deepwater and sediment-water interface samples from the northern Gulf of Mexico based on sequences of cloned 17S rRNA genes.


Supplemental Information

Computative identification of individual clones. Samples are identified by the station location from which they were collected and by the depth (either water column depth in meters (m) or Water over Core (WOC)). Ciliate_sequencing_summary.xlsx-- excel spreadsheet tab named Header: Station (1.DSH07, 2.DWH, 3.SE02, 4.SL1040, 5.SL5100, 6.SL7150, 7.SL9150, 8.SL11150, 9.SL14100, 10.SL16150), Date (MM/DD/YYYY), Latitude (decimal degrees), Longitude (decimal degrees), site map (Note: the map contains an additional 11.SW01 site without data in the excel file), sample photo of the WOC "Water over Core" (or water column at specified meter depths) collected on Sterivex filters. DATA PARAMETERS Clone ID, Organism, Accession #, Max Identity % were collected for the excel spreadsheet tabs 1.DSH07, 2.a.DWH1570m, 2.b.DWH_WOC, 3.SE02_WOC, 4.a.SL1040_55m, 4.b.SL1040_surface, 4.c.SL1040_WOC, 5.a.SL5100_167m, 5.b.SL5100_WOC, 6.a.SL7150_340m, 6.b.SL7150_WOC, 7.SL9150_WOC, 8.SL11150_WOC, 9.a.SL14100_204m, 9.b.SL14100_WOC, 10.SL16150_WOC.||Samples collected during a research cruise aboard the RV WEATHERBIRD II during August 2013 in the northern Gulf of Mexico. |All samples were collected on Sterivex® filters and immediately frozen. DNA was extracted by removing the filter from its housing and extracting using the PowerSoil DNA extraction kit (MoBio® Laboratories, Inc., Carlsbad, CA, USA). PCR amplification of ciliate 17S rRNA was performed using primers as described by Dopheide et al. 2008. PCR products were gel purified, cloned into pCR 2.1 TOPO vector (Life Technologies, Carlsbad, CA, USA) and transformed into elctrocompetent E. coli. Transformants were shipped to Beckman-Coulter Genomics (Danvers, MA, USA) for Sanger Sequencing. Sequence data were then trimmed and evaluated for quality using CodonCode Aligner version 4.14 (CodonCode Corporation, Centerville, MA, USA). Sequence data was analyzed for infractions using software prior to evaluation using the NCBI database via Basic Local Alignment Search Tool (BLAST).|Identify percentage match to existing data bases|Dopheide A, G. Lear, R. Stott and G Lewis. 2008. Molecular Characterization of Ciliate Diversity in Stream Biofilms. Appl. Environ. Microbiol. 2008, 74(6):1740. DOI: 10.1128/AEM.01438-07.


The goal was to examine the diversity and stability of ciliate community structure in deepwater and sediment water interface (immediately above sediments) in deep Gulf of Mexico samples that may have been impacted by the Deepwater Horizon Oil Spill.


ciliate community structure




July 2014

Point of Contact


Wade H. Jeffrey


University of West Florida / Center for Environmental Diagnostics and Bioremediation

Funding Source




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This work is licensed under a Creative Commons Public Domain Dedication 1.0 License.