Dataset: Synthesis of publicly-available sequence datasets of the 16S rRNA gene in environmental DNA extracted from seafloor and subseafloor samples from the Dorado outcrop, Lō'ihi Seamount, North Pond, and Juan de Fuca Ridge flank

ValidatedFinal no updates expectedDOI: 10.1575/1912/bco-dmo.789136.1Version 1 (2020-02-04)Dataset Type:Cruise ResultsDataset Type:Other Field ResultsDataset Type:experimental

Principal Investigator: Beth N. Orcutt (Bigelow Laboratory for Ocean Sciences)

Co-Principal Investigator: Timothy D'Angelo (Bigelow Laboratory for Ocean Sciences)

BCO-DMO Data Manager: Shannon Rauch (Woods Hole Oceanographic Institution)

Project: Microbial activity in the crustal deep biosphere (Slow Life in Crust)

Abstract

To summarize crustal bacterial and archaeal taxa for this review, we synthesized publicly-available sequence datasets of the 16S rRNA gene in environmental DNA extracted from seafloor and subseafloor basalts generated using 454, Illumina and Ion Torrent amplicon platforms. These include seafloor basalts from the Dorado Outcrop and the Lō'ihi Seamount in the Pacific Ocean and subseafloor basalts from North Pond on the western flank of the Mid-Atlantic Ridge and the Juan de Fuca Ridge flank in the...

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Cite Dataset

Metadata for sequence datasets used in ocean crust microbiome survey.

This metadata table and supporting PDF document describe data analysis performed for a review chapter to be published in an edited book:

Authors: Beth N. Orcutt, Timothy D'Angelo, Sean P. Jungbluth, Julie A. Huber, Jason B. Sylvan
Chapter Title: Microbial Life in Oceanic Crust
Book title: The Microbiology of the Deep-Sea
Editors: Donato Giovannelli, Costantino Vetriani
Publisher: Springer International Publishing AG

Related Datasets

Software
Dataset: https://doi.org/10.1371/journal.pone.0061217
McMurdie, P. J., & Holmes, S. (2013). phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data. PLoS ONE, 8(4), e61217. doi:10.1371/journal.pone.0061217

Related Publications

Results
Orcutt, B., D’Angelo, T., Jungbluth, S. P., Huber, J. A., & Sylvan, J. B. (2020). Microbial life in oceanic crust. https://doi.org/10.31219/osf.io/2wxe6
IsDerivedFrom
Jacobson Meyers, M. E., Sylvan, J. B., & Edwards, K. J. (2014). Extracellular Enzyme Activity and Microbial Diversity Measured on Seafloor Exposed Basalts from Loihi Seamount Indicate the Importance of Basalts to Global Biogeochemical Cycling. Applied and Environmental Microbiology, 80(16), 4854–4864. doi:10.1128/aem.01038-14
IsDerivedFrom
Jørgensen, S. L., & Zhao, R. (2016). Microbial Inventory of Deeply Buried Oceanic Crust from a Young Ridge Flank. Frontiers in Microbiology, 7. doi:10.3389/fmicb.2016.00820
IsDerivedFrom
Labonté, J. M., Lever, M. A., Edwards, K. J., & Orcutt, B. N. (2017). Influence of Igneous Basement on Deep Sediment Microbial Diversity on the Eastern Juan de Fuca Ridge Flank. Frontiers in Microbiology, 8. doi:10.3389/fmicb.2017.01434
IsDerivedFrom
Lee, M. D., Walworth, N. G., Sylvan, J. B., Edwards, K. J., & Orcutt, B. N. (2015). Microbial Communities on Seafloor Basalts at Dorado Outcrop Reflect Level of Alteration and Highlight Global Lithic Clades. Frontiers in Microbiology, 6. doi:10.3389/fmicb.2015.01470

Orcutt, B., D'Angelo, T. (2020) Synthesis of publicly-available sequence datasets of the 16S rRNA gene in environmental DNA extracted from seafloor and subseafloor samples from the Dorado outcrop, Lō'ihi Seamount, North Pond, and Juan de Fuca Ridge flank. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2020-02-04 [if applicable, indicate subset used]. doi:10.1575/1912/bco-dmo.789136.1 [access date]

Terms of Use

This dataset is licensed under Creative Commons Attribution 4.0.


If you wish to use this dataset, it is highly recommended that you contact the original principal investigators (PI). Should the relevant PI be unavailable, please contact BCO-DMO (info@bco-dmo.org) for additional guidance. For general guidance please see the BCO-DMO Terms of Use document.

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Funded by the U.S. National Science Foundation