Dataset Overview | National Centers for Environmental Information (NCEI)

Net tow metaproteome of Trichodesmium species mapped to a Trichodesmium metagenome plus cyanoGEBA species genomes in units of normalized protein spectral counts from samples collected in the Atlantic and Pacific Ocean between 2000 and 2018 (NCEI Accession 0292015)

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This dataset contains biological data collected on R/V Atlantis and RRS James Cook during cruises AT39-05 and JC150 in the North Atlantic Ocean and North Pacific Ocean from 2000-07-27 to 2018-03-18. These data include depth and taxon. The instruments used to collect these data include Mass Spectrometer. These data were collected by Mak A. Saito of Woods Hole Oceanographic Institution as part of the "Collaborative Research: Iron and phosphorus balanced limitation of nitrogen fixation in the oligotrophic ocean (TriCoLim)", "Collaborative Research: Evolutionary, biochemical and biogeochemical responses of marine cyanobacteria to warming and iron limitation interactions (Cyanobacteria Warming Responses)", "Marine Microbial Investigator Award: Investigator Mak Saito (MM Saito)", and "New technology for high resolution analysis of proteins and other organic materials produced by marine microorganisms (MM Proteins and Organics Tech)" projects. The Biological and Chemical Oceanography Data Management Office (BCO-DMO) submitted these data to NCEI on 2023-10-23.

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

Dataset Description: Net tow metaproteome of Trichodesmium species mapped to a Trichodesmium metagenome plus cyanoGEBA species genomes, analyzed by 2D LC-MS/MS in units of normalized protein spectral counts. Samples were collected in North Atlantic surface waters, at station BATS (Bermuda Atlantic Time-series Study), and station ALOHA (A Long-Term Oligotrophic Habitat Assessment) between 2000 and 2018.

An alternative form of these data are available as dataset: "Trichodesmium field metaproteomes - protein spectral counts in alternative format" https://www.bco-dmo.org/dataset/787078

Related datasets: Trichodesmium field metaproteomes - sequence fasta: https://www.bco-dmo.org/dataset/787181 Trichodesmium field metaproteomes - peptide spectral counts: https://www.bco-dmo.org/dataset/787168 Trichodesmium sample provenance: https://www.bco-dmo.org/dataset/787093 - Sample provenance file, which includes sample locations, filter sizes

Dataset Citation

Cite as: Saito, Mak A. (2024). Net tow metaproteome of Trichodesmium species mapped to a Trichodesmium metagenome plus cyanoGEBA species genomes in units of normalized protein spectral counts from samples collected in the Atlantic and Pacific Ocean between 2000 and 2018 (NCEI Accession 0292015). [indicate subset used]. NOAA National Centers for Environmental Information. Dataset. https://www.ncei.noaa.gov/archive/accession/0292015. Accessed [date].

Dataset Identifiers

ISO 19115-2 Metadata

gov.noaa.nodc:0292015

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Download Data	HTTPS (download) Navigate directly to the URL for data access and direct download. FTP (download) These data are available through the File Transfer Protocol (FTP). FTP is no longer supported by most internet browsers. You may copy and paste the FTP link to the data into an FTP client (e.g., FileZilla or WinSCP).
Distribution Formats	CSV
Ordering Instructions	Contact NCEI for other distribution options and instructions.
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	2000-07-27 to 2018-03-18
Spatial Bounding Box Coordinates	West: -158 East: -21.59 South: .18 North: 31.4
Spatial Coverage Map

General Documentation

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Descriptive Information
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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.
Saito, M. A. (2020) Net tow metaproteome of Trichodesmium species mapped to a Trichodesmium metagenome plus cyanoGEBA species genomes in units of normalized protein spectral counts from samples collected in the Atlantic and Pacific Ocean between 2000 and 2018. Dataset version 2020-04-30. https://doi.org/10.26008/1912/bco-dmo.787147.1
- https://doi.org/10.26008/1912/bco-dmo.787147.1 (download)
  originator dataset

gov.noaa.nodc:BCO-DMO

Publication Dates	publication: 2024-04-29
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: A 200um plankton net net was deployed to ~20m depth, then recovered to just below surface, repeating five times. Trichodesmium colonies were hand picked into 0.2um filtered surface seawater, rinsed twice in 0.2um filtered surface seawater, and decanted onto a 0.2-4um Supor filter (indicated in sample provenance table, see dataset https://www.bco-dmo.org/dataset/787093). Proteins were extracted and trypsin digested in-gel following Saito et al., 2014 (Science). Peptides were analyzed by LC-MS/MS in data discovery mode on a Thermo Orbitrap Fusion.
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: Saito, Mak A. (2024). Net tow metaproteome of Trichodesmium species mapped to a Trichodesmium metagenome plus cyanoGEBA species genomes in units of normalized protein spectral counts from samples collected in the Atlantic and Pacific Ocean between 2000 and 2018 (NCEI Accession 0292015). [indicate subset used]. NOAA National Centers for Environmental Information. Dataset. https://www.ncei.noaa.gov/archive/accession/0292015. Accessed [date].
Cited Authors	Saito, Mak A. Woods Hole Oceanographic Institution
Principal Investigators	Mak A. Saito Woods Hole Oceanographic Institution (WHOI)
Contributors	Woods Hole Oceanographic Institution (WHOI)
Resource Providers	Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Points of Contact	Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Publishers	NOAA National Centers for Environmental Information
Acknowledgments	Funding provided by Gordon and Betty Moore Foundation (GBMF) Award Number: GBMF3934 Funding provided by Gordon and Betty Moore Foundation: Marine Microbiology Initiative (MMI) Award Number: GBMF3782 Award URL: https://www.moore.org/grant-detail?grantId=GBMF3782 Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1657766 Award URL: http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1657766 Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1850719 Award URL: http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1850719

Theme keywords	NODC DATA TYPES THESAURUS TAXONOMIC CODE NODC OBSERVATION TYPES THESAURUS biological WMO_CategoryCode oceanography BCO-DMO Standard Parameters accession number cruise id date_local depth filter_size latitude longitude no standard parameter sample description sample identification station taxon time_local weight Originator Parameter Names cruise_id date_y-m-d depth_m enzyme_comm_id kegg_description kegg_id kegg_pathway latitude_dd longitude_dd maximum_filter_size_microns minimum_filter_size_microns molecular_weight_kDa ncbi_id ncbi_name other_identified_proteins pfams_id pfams_name protein_id protein_name sample_id sample_type station_id time_h-m-d top3_precursor uniprot_id
Data Center keywords	NODC COLLECTING INSTITUTION NAMES THESAURUS Woods Hole Oceanographic Institution NODC SUBMITTING INSTITUTION NAMES THESAURUS Biological and Chemical Oceanography Data Management Office Global Change Master Directory (GCMD) Data Center Keywords BCO-DMO > Biological and Chemical Oceanography Data Management Office WHOI > WOODS HOLE OCEANOGRAPHIC INSTITUTION
Platform keywords	NODC PLATFORM NAMES THESAURUS R/V Atlantis RRS James Cook BCO-DMO Platform Names R/V Atlantis RRS James Cook Global Change Master Directory (GCMD) Platform Keywords Ships ICES/SeaDataNet Ship Codes ATLANTIS (call sign: KAQP, ICES code: 33AT, 1997)
Instrument keywords	NODC INSTRUMENT TYPES THESAURUS mass spectrometer BCO-DMO Standard Instruments Mass Spectrometer Global Change Master Directory (GCMD) Instrument Keywords MASS SPECTROMETERS > MASS SPECTROMETERS Originator Instrument Names Thermo Orbitrap Fusion mass spectrometer
Place keywords	NODC SEA AREA NAMES THESAURUS North Atlantic Ocean North Pacific Ocean Global Change Master Directory (GCMD) Location Keywords OCEAN > ATLANTIC OCEAN > NORTH ATLANTIC OCEAN OCEAN > PACIFIC OCEAN > NORTH PACIFIC OCEAN Provider Place Names North Atlantic Ocean Tropical and subtropical Atlantic; 20 N - 8 S, 22 W - 67 W
Project keywords	BCO-DMO Standard Projects Collaborative Research: Evolutionary, biochemical and biogeochemical responses of marine cyanobacteria to warming and iron limitation interactions (Cyanobacteria Warming Responses) Collaborative Research: Iron and phosphorus balanced limitation of nitrogen fixation in the oligotrophic ocean (TriCoLim) Marine Microbial Investigator Award: Investigator Mak Saito (MM Saito) New technology for high resolution analysis of proteins and other organic materials produced by marine microorganisms (MM Proteins and Organics Tech) Provider Cruise IDs AT39-05 JC150 Provider Funding Award Information Funding provided by Gordon and Betty Moore Foundation (GBMF) Award Number: GBMF3934 Funding provided by Gordon and Betty Moore Foundation: Marine Microbiology Initiative (MMI) Award Number: GBMF3782 Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1657766 Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1850719
Keywords	NCEI ACCESSION NUMBER 0292015

Use Constraints	Cite as: Saito, Mak A. (2024). Net tow metaproteome of Trichodesmium species mapped to a Trichodesmium metagenome plus cyanoGEBA species genomes in units of normalized protein spectral counts from samples collected in the Atlantic and Pacific Ocean between 2000 and 2018 (NCEI Accession 0292015). [indicate subset used]. NOAA National Centers for Environmental Information. Dataset. https://www.ncei.noaa.gov/archive/accession/0292015. Accessed [date].
Data License	This dataset is licensed under a Creative Commons Attribution 4.0 International (CC BY 4.0) License. SPDX License: Creative Commons Attribution 4.0 International (CC-BY-4.0)
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	2024-04-29T15:50:35Z - NCEI Accession 0292015 v1.1 was published.
Output Datasets	NCEI Accession 0292015 v1.1 NCEI Accession 0292015 v1.1 (download) published 2024-04-29T15:50:35Z

Acquisition Information (collection)
Instrument	mass spectrometer
Platform	R/V Atlantis RRS James Cook

Last Modified: 2024-06-04T18:34:55Z
For questions about the information on this page, please email: ncei.info@noaa.gov

Net tow metaproteome of Trichodesmium species mapped to a Trichodesmium metagenome plus cyanoGEBA species genomes in units of normalized protein spectral counts from samples collected in the Atlantic and Pacific Ocean between 2000 and 2018 (NCEI Accession 0292015)

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