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Metagenomic data from samples collected on cruise Chikyu-331 in the Okinawa Trough, Japan from September to October 2010 (NCEI Accession 0278305)

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This dataset contains physical data collected on Chikyu during cruise Chikyu-331 in the East China Sea (Tung Hai) from 2010-09-16 to 2010-09-27. These data include water temperature. The instruments used to collect these data include Automated DNA Sequencer and Piston Corer. These data were collected by Christopher House and Leah Brandt of Pennsylvania State University as part of the "An In-Depth analysis of the subvent biosphere within Okinawa Backarc Basin (IODP 331, Iheya North Hydrothermal Field) sediments (Subvent_Biosphere_Sediments)" project and "Center for Dark Energy Biosphere Investigations (C-DEBI)" and "International Ocean Discovery Program (IODP)" programs. The Biological and Chemical Oceanography Data Management Office (BCO-DMO) submitted these data to NCEI on 2019-11-22.

The following is the text of the dataset description provided by BCO-DMO:

Metagenomic data

Dataset Description:
Next-generation sequencing data across a hydrothermal gradient; Okinawa Backarc Basin IODP 331 – subvent biosphere. The purpose these metagenomic data was to capture a distinct changeover of microbial assemblages between the mesophilic horizons above 10 mbsf and the hottest (55C) hydrothermal clay horizon. In this section of the dynamic Iheya North Hydrothermal system, the temperature gradient was estimated to be ~3C/m. These metagenomes provide functional evidence to this model, demonstrating that molecular signals represent a responsive microbial community to the increasingly demanding environmental conditions.
  • Cite as: House, Christopher; Brandt, Leah (2023). Metagenomic data from samples collected on cruise Chikyu-331 in the Okinawa Trough, Japan from September to October 2010 (NCEI Accession 0278305). [indicate subset used]. NOAA National Centers for Environmental Information. Dataset. https://www.ncei.noaa.gov/archive/accession/0278305. Accessed [date].
gov.noaa.nodc:0278305
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  • TSV
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Distributor NOAA National Centers for Environmental Information
+1-301-713-3277
NCEI.Info@noaa.gov
Dataset Point of Contact NOAA National Centers for Environmental Information
ncei.info@noaa.gov
Time Period 2010-09-16 to 2010-09-27
Spatial Bounding Box Coordinates
West: 126.901
East: 126.901
South: 27.79
North: 27.79
Spatial Coverage Map
General Documentation
Associated Resources
  • Biological, chemical, physical, biogeochemical, ecological, environmental and other data collected from around the world during historical and contemporary periods of biological and chemical oceanographic exploration and research managed and submitted by the Biological and Chemical Oceanography Data Management Office (BCO-DMO)
    • NCEI Collection
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  • House, C., Brandt, L. (2019) Metagenomic data from samples collected on cruise Chikyu-331 in the Okinawa Trough, Japan from September to October 2010. Biological and Chemical Oceanography Data Management Office (BCO-DMO). Dataset version 2019-11-05. https://doi.org/10.1575/1912/bco-dmo.781137.1
  • Parent ID (indicates this dataset is related to other data):
    • gov.noaa.nodc:BCO-DMO
Publication Dates
  • publication: 2023-05-16
Data Presentation Form Digital table - digital representation of facts or figures systematically displayed, especially in columns
Dataset Progress Status Complete - production of the data has been completed
Historical archive - data has been stored in an offline storage facility
Data Update Frequency As needed
Supplemental Information
Acquisition Description:
Sampling of cores was done in accordance with IODP protocols.

All C0014 samples were cored on 16 September 2010 via via HPCS (hydraulic piston coring system).
All C0015 samples were cored on 18 September 2010 via HPCS.
All C0017 samples were cored on 27 September 2010 via HPCS.

Core sections were kept frozen (-80°C) until DNA extractions. A MoBio® Power Soil kit was used to extract environmental DNA. Metagenomic data was produced from whole genome amplified environmental DNA (REPLI-g Mini Kit, Qiagen).

Sequencing was performed at the Penn State Genomics Core Facility – University Park, PA using the Illumina® HiSeq 2500 (NSF-MRI award DBI-1229046 (Axtell et al., 2012)). The sequencing facility prepared DNA libraries using Nextera XT Library Preparation Kits prior to sequencing. Together, the samples were run on one-half of a sequencing plate. This sequencing run was run using rapid-run model that averages up to 300 million single reads, or 600 million paired reads of ~150 nucleotides per rapid-run.
Purpose This dataset is available to the public for a wide variety of uses including scientific research and analysis.
Use Limitations
  • accessLevel: Public
  • Distribution liability: NOAA and NCEI make no warranty, expressed or implied, regarding these data, nor does the fact of distribution constitute such a warranty. NOAA and NCEI cannot assume liability for any damages caused by any errors or omissions in these data. If appropriate, NCEI can only certify that the data it distributes are an authentic copy of the records that were accepted for inclusion in the NCEI archives.
Dataset Citation
  • Cite as: House, Christopher; Brandt, Leah (2023). Metagenomic data from samples collected on cruise Chikyu-331 in the Okinawa Trough, Japan from September to October 2010 (NCEI Accession 0278305). [indicate subset used]. NOAA National Centers for Environmental Information. Dataset. https://www.ncei.noaa.gov/archive/accession/0278305. Accessed [date].
Cited Authors
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Acknowledgments
Theme keywords NODC DATA TYPES THESAURUS NODC OBSERVATION TYPES THESAURUS WMO_CategoryCode
  • oceanography
BCO-DMO Standard Parameters Global Change Master Directory (GCMD) Science Keywords Originator Parameter Names
Data Center keywords NODC COLLECTING INSTITUTION NAMES THESAURUS NODC SUBMITTING INSTITUTION NAMES THESAURUS Global Change Master Directory (GCMD) Data Center Keywords
Platform keywords NODC PLATFORM NAMES THESAURUS BCO-DMO Platform Names Global Change Master Directory (GCMD) Platform Keywords ICES/SeaDataNet Ship Codes
Instrument keywords NODC INSTRUMENT TYPES THESAURUS BCO-DMO Standard Instruments Originator Instrument Names
Place keywords NODC SEA AREA NAMES THESAURUS Global Change Master Directory (GCMD) Location Keywords Provider Place Names
Project keywords BCO-DMO Standard Programs BCO-DMO Standard Projects Provider Cruise IDs Provider Funding Award Information
Keywords NCEI ACCESSION NUMBER
Use Constraints
  • Cite as: House, Christopher; Brandt, Leah (2023). Metagenomic data from samples collected on cruise Chikyu-331 in the Okinawa Trough, Japan from September to October 2010 (NCEI Accession 0278305). [indicate subset used]. NOAA National Centers for Environmental Information. Dataset. https://www.ncei.noaa.gov/archive/accession/0278305. Accessed [date].
Data License
Access Constraints
  • Use liability: NOAA and NCEI cannot provide any warranty as to the accuracy, reliability, or completeness of furnished data. Users assume responsibility to determine the usability of these data. The user is responsible for the results of any application of this data for other than its intended purpose.
Fees
  • In most cases, electronic downloads of the data are free. However, fees may apply for custom orders, data certifications, copies of analog materials, and data distribution on physical media.
Lineage information for: dataset
Processing Steps
  • 2023-05-16T05:52:31Z - NCEI Accession 0278305 v1.1 was published.
Output Datasets
Acquisition Information (collection)
Instrument
  • corer
Platform
  • Chikyu
Last Modified: 2024-05-31T18:50:46Z
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