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Dataset Overview | National Centers for Environmental Information (NCEI)

Catalog numbers, GenBank accession numbers, and key details for specimens collected during cruises AT37-13 (2017), AT42-03 (2018), and FK190106 (2019) and vouchered in the Scripps Institution of Oceanography Benthic Invertebrate Collection (NCEI Accession 0278625)

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This dataset contains biological and survey - biological data collected on Alvin, R/V Atlantis, and R/V Falkor during cruises AT37-13, AT42-03, and FK190106 and deployments AT37-13_Alvin_Dives and AT42-03_Alvin_Dives in the North Pacific Ocean from 2017-05-21 to 2018-10-25. These data include depth, family, genus, order, phylum, sex, species, and stage. The instruments used to collect these data include Alvin Slurp Sampler, Bushmaster, Mussel Pot, and ROV SuBastian. These data were collected by Victoria J. Orphan of California Institute of Technology, Erik E. Cordes of Temple University, Gregory Rouse and Lisa A. Levin of University of California-San Diego, and Christopher Roman of University of Rhode Island as part of the "Collaborative research: Quantifying the biological, chemical, and physical linkages between chemosynthetic communities and the surrounding deep sea (Costa Rica Seeps)" project. The Biological and Chemical Oceanography Data Management Office (BCO-DMO) submitted these data to NCEI on 2021-01-27.

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

Vouchered specimens

Dataset Description:
This dataset includes catalog numbers, GenBank accession numbers, and key details for specimens collected during cruises AT37-13 (2017), AT42-03 (2018), and FK190106 (2019) and vouchered in the Scripps Institution of Oceanography Benthic Invertebrate Collection.

The Scripps Institution of Oceanography Benthic Invertebrate Collection (SIO-BIC) specimen holdings are publicly available in DarwinCore format via GBIF, but please note that this version is updated infrequently: https://www.gbif.org/dataset/a267b6a7-91f9-457c-889a-481e7aa920b6

For the most up-to-date version of this dataset, please use the SIO-BIC searchable database: https://sioapps.ucsd.edu/collections/bi/ . This database is updated at least weekly to reflect corrections, updated identifications, new GenBank accession numbers, and newly added specimens.
  • Cite as: Rouse, Gregory; Cordes, Erik E.; Levin, Lisa A.; Orphan, Victoria J.; Roman, Christopher Neil (2023). Catalog numbers, GenBank accession numbers, and key details for specimens collected during cruises AT37-13 (2017), AT42-03 (2018), and FK190106 (2019) and vouchered in the Scripps Institution of Oceanography Benthic Invertebrate Collection (NCEI Accession 0278625). [indicate subset used]. NOAA National Centers for Environmental Information. Dataset. https://www.ncei.noaa.gov/archive/accession/0278625. Accessed [date].
gov.noaa.nodc:0278625
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Distribution Formats
  • 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 2017-05-21 to 2018-10-25
Spatial Bounding Box Coordinates
West: -87.459
East: -84.214
South: 4.979
North: 9.659
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
      Navigate directly to the URL for data access and direct download.
  • Rouse, G., Levin, L. A., Cordes, E. E., Orphan, V. J., Roman, C. (2021) Catalog numbers, GenBank accession numbers, and key details for specimens collected during cruises AT37-13 (2017), AT42-03 (2018), and FK190106 (2019) and vouchered in the Scripps Institution of Oceanography Benthic Invertebrate Collection. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2021-01-26. https://doi.org/10.26008/1912/bco-dmo.838088.1
    • Parent ID (indicates this dataset is related to other data):
    • gov.noaa.nodc:BCO-DMO
Publication Dates
  • publication: 2023-05-22
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:
Samples were collected using the deep-sea submersibles HOV Alvin (cruise AT37-13 in 2017; cruise AT42-03 in 2018) or ROV SuBastian (cruise FK190106 in 2019). Sampling instruments used by the deep-sea submersibles include: manipulator arm, scoops, suction sampler (also known as a "slurp"; suctions material into an enclosed chamber), mussel pot (stainless steel pot with a twistable handle connected to a Kevlar bag insert; used for quantitative sampling of deep-sea mussel beds), and Bushmaster (hydraulic rods surrounding a fine mesh; original instrument developed at Penn State University for quantitative sampling of deep-sea tubeworms).

Live specimens were relaxed with an appropriate agent (e.g. 7% MgCl2 in fresh water, menthol) and photographed. For genetic analysis, specimens were preserved whole or subsampled into 95% ethanol, RNAlater, and/or liquid nitrogen. Whole or partial specimens serving as morphological vouchers were fixed in 10% seawater formalin for at least 24 hours, then rinsed with fresh water and transferred to 50% ethanol for long-term archival. For certain taxa, e.g. echinoderms and crustaceans, vouchers were treated with 95% ethanol instead of formalin. Selected specimens were treated with paraformaldehyde, glutaraldehyde, or osmium tetroxide for histology and electron microscopy.
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: Rouse, Gregory; Cordes, Erik E.; Levin, Lisa A.; Orphan, Victoria J.; Roman, Christopher Neil (2023). Catalog numbers, GenBank accession numbers, and key details for specimens collected during cruises AT37-13 (2017), AT42-03 (2018), and FK190106 (2019) and vouchered in the Scripps Institution of Oceanography Benthic Invertebrate Collection (NCEI Accession 0278625). [indicate subset used]. NOAA National Centers for Environmental Information. Dataset. https://www.ncei.noaa.gov/archive/accession/0278625. Accessed [date].
Cited Authors
Principal Investigators
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Acknowledgments
Theme keywords NODC DATA TYPES THESAURUS NODC OBSERVATION TYPES THESAURUS WMO_CategoryCode
  • oceanography
BCO-DMO Standard Parameters 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 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 Projects Provider Cruise IDs Provider Deployment IDs Provider Funding Award Information
Keywords NCEI ACCESSION NUMBER
Use Constraints
  • Cite as: Rouse, Gregory; Cordes, Erik E.; Levin, Lisa A.; Orphan, Victoria J.; Roman, Christopher Neil (2023). Catalog numbers, GenBank accession numbers, and key details for specimens collected during cruises AT37-13 (2017), AT42-03 (2018), and FK190106 (2019) and vouchered in the Scripps Institution of Oceanography Benthic Invertebrate Collection (NCEI Accession 0278625). [indicate subset used]. NOAA National Centers for Environmental Information. Dataset. https://www.ncei.noaa.gov/archive/accession/0278625. 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
  • 2023-05-22T04:57:28Z - NCEI Accession 0278625 v1.1 was published.
Output Datasets
Acquisition Information (collection)
Platform
  • DSV Alvin
  • R/V Atlantis
  • R/V Falkor
Last Modified: 2024-06-26T15:35:16Z
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