Proteomic Signatures of Corals from Thermodynamic Reefs (NCEI Accession 0216077)
In this work, I took a protein profiling approach known as iTRAQ approach to characterize and quantify the proteins synthesized by 12 experimental coral samples. Specifically, corals were collected from an upwelling site in the Luzon Strait ("Houbihu"; 21°56’18.01’’N, 120°44’45.54’’E) and a non-upwelling "control" site in the nearby Taiwan Strait ("Houwan"; 22°01'23.30"N, 120°41'18.29"E) and exposed to either highly variable (upwelling-simulating) or stable temperatures in the laboratory for seven days prior to sacrificing for protein analysis (the "Seriatopora hystrix variable temperature study" [SHVTS]). In this submission, I have uploaded the proofs of the manuscript describing the proteomic data (Mayfield in press Microorganisms), two RAW files (SHVTS-A & SHVTS-B for iTRAQ batches A & B, respectively), two MZML (open-access mass spectrometry data) files (SHVTS-A.mzml & SHVTS-B.mzml), two MZID files (SHVTS-A.mzid & SHVTS-B.mzid), and a tab-delimited file that describes which samples were labeled with which iTRAQ tag ("Mayfield online supplemental data file"). I have also uploaded the supplemental material that accompanies the Mayfield (in press) article since that is what readers interested in the specifics of the proteomic analysis pipeline should consult. The peak data were queried against a conceptually translated S. hystrix-Cladocopium dinoflagellate transcriptome described in Mayfield et al. (2016 Mol Ecol) and found here: http://symbiont.iis.sinica.edu.tw/s_hystrix/static/html/#stat. Please note that all proteomic data represent a mix of multiple organisms (namely the anthozoan host and the dinoflagellate endosymbionts that inhabit their gastrodermal cells). All data analysis was conducted with Proteome Discoverer (Thermo-Fisher Scientific).
Complete Metadata
| @type | dcat:Dataset |
|---|---|
| accessLevel | non-public |
| contactPoint |
{
"fn": "NOAA National Centers for Environmental Information",
"@type": "vcard:Contact",
"hasEmail": "mailto:ncei.info@noaa.gov"
}
|
| describedByType | application/octet-steam |
| description | In this work, I took a protein profiling approach known as iTRAQ approach to characterize and quantify the proteins synthesized by 12 experimental coral samples. Specifically, corals were collected from an upwelling site in the Luzon Strait ("Houbihu"; 21°56’18.01’’N, 120°44’45.54’’E) and a non-upwelling "control" site in the nearby Taiwan Strait ("Houwan"; 22°01'23.30"N, 120°41'18.29"E) and exposed to either highly variable (upwelling-simulating) or stable temperatures in the laboratory for seven days prior to sacrificing for protein analysis (the "Seriatopora hystrix variable temperature study" [SHVTS]). In this submission, I have uploaded the proofs of the manuscript describing the proteomic data (Mayfield in press Microorganisms), two RAW files (SHVTS-A & SHVTS-B for iTRAQ batches A & B, respectively), two MZML (open-access mass spectrometry data) files (SHVTS-A.mzml & SHVTS-B.mzml), two MZID files (SHVTS-A.mzid & SHVTS-B.mzid), and a tab-delimited file that describes which samples were labeled with which iTRAQ tag ("Mayfield online supplemental data file"). I have also uploaded the supplemental material that accompanies the Mayfield (in press) article since that is what readers interested in the specifics of the proteomic analysis pipeline should consult. The peak data were queried against a conceptually translated S. hystrix-Cladocopium dinoflagellate transcriptome described in Mayfield et al. (2016 Mol Ecol) and found here: http://symbiont.iis.sinica.edu.tw/s_hystrix/static/html/#stat. Please note that all proteomic data represent a mix of multiple organisms (namely the anthozoan host and the dinoflagellate endosymbionts that inhabit their gastrodermal cells). All data analysis was conducted with Proteome Discoverer (Thermo-Fisher Scientific). |
| distribution |
[
{
"@type": "dcat:Distribution",
"title": "NCEI Dataset Landing Page",
"mediaType": "placeholder/value",
"description": "Navigate directly to the URL for a descriptive web page with download links.",
"downloadURL": "https://www.ncei.noaa.gov/archive/accession/0216077",
"describedByType": "application/octet-steam"
},
{
"@type": "dcat:Distribution",
"title": "Descriptive Information",
"mediaType": "placeholder/value",
"description": "Navigate directly to the URL for a descriptive web page with download links.",
"downloadURL": "https://www.ncei.noaa.gov/archive/accession/oas/216077",
"describedByType": "application/octet-steam"
},
{
"@type": "dcat:Distribution",
"title": "HTTPS",
"mediaType": "placeholder/value",
"description": "Navigate directly to the URL for data access and direct download.",
"downloadURL": "https://www.ncei.noaa.gov/archive/accession/download/216077",
"describedByType": "application/octet-steam"
},
{
"@type": "dcat:Distribution",
"title": "FTP",
"mediaType": "placeholder/value",
"description": "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).",
"downloadURL": "ftp://ftp-oceans.ncei.noaa.gov/nodc/archive/arc0159/0216077/",
"describedByType": "application/octet-steam"
},
{
"@type": "dcat:Distribution",
"title": "Proteomic signatures of corals from thermodynamic reefs",
"mediaType": "placeholder/value",
"description": "MassIVE Metadata Record",
"downloadURL": "https://massive.ucsd.edu/ProteoSAFe/dataset.jsp?task=558adcff310b48279b6692dbe3ea41c0",
"describedByType": "application/octet-steam"
},
{
"@type": "dcat:Distribution",
"title": "https://doi.org/10.1242/jeb.071688",
"mediaType": "placeholder/value",
"description": "related journal article",
"downloadURL": "https://doi.org/10.1242/jeb.071688",
"describedByType": "application/octet-steam"
},
{
"@type": "dcat:Distribution",
"title": "https://doi.org/10.3390/microorganisms8081171",
"mediaType": "placeholder/value",
"description": "NOAA Central Library: Journal Article",
"downloadURL": "https://doi.org/10.3390/microorganisms8081171",
"describedByType": "application/octet-steam"
},
{
"@type": "dcat:Distribution",
"title": "GCMD Keyword Forum Page",
"mediaType": "placeholder/value",
"description": "Global Change Master Directory (GCMD). 2025. GCMD Keywords, Version 21. Greenbelt, MD: Earth Science Data and Information System, Earth Science Projects Division, Goddard Space Flight Center (GSFC), National Aeronautics and Space Administration (NASA). URL (GCMD Keyword Forum Page): https://forum.earthdata.nasa.gov/app.php/tag/GCMD+Keywords",
"downloadURL": "https://forum.earthdata.nasa.gov/app.php/tag/GCMD%2BKeywords",
"describedByType": "application/octet-steam"
},
{
"@type": "dcat:Distribution",
"title": "NCEI Contact Information",
"mediaType": "placeholder/value",
"description": "Information for contacts at NCEI.",
"downloadURL": "https://www.ncei.noaa.gov/contact",
"describedByType": "application/octet-steam"
}
]
|
| identifier | gov.noaa.nodc:0216077 |
| issued | 2020-08-04T00:00:00.000+00:00 |
| keyword |
[
"0216077",
"CORAL",
"ORGANIC CHEMICALS",
"mass spectrometer",
"swimmer/diver",
"biological",
"laboratory analyses",
"University of Miami",
"NOAA Atlantic Oceanographic and Meteorological Laboratory",
"South China Sea (Nan Hai)",
"Taiwan Strait or Formosa Strait (T'ai-Wan Hai-Hsia)",
"oceanography",
"DOC/NOAA/OAR/AOML > Atlantic Oceanographic and Meteorological Laboratory, OAR, NOAA, U.S. Department of Commerce",
"Numeric Data Sets > Biology",
"EARTH SCIENCE > Biosphere > Zoology > Corals > Reef Monitoring and Assessment > Molecular Genetic Analysis > Proteomic Analysis",
"EARTH SCIENCE > Biosphere > Zoology > Corals > Scleractinia (stony corals)",
"EARTH SCIENCE > Oceans > Coastal Processes > Coral Reefs",
"EARTH SCIENCE > Oceans > Marine Biology > Coral",
"EARTH SCIENCE > OCEANS > OCEAN CHEMISTRY",
"EARTH SCIENCE > SOLID EARTH > GEOMORPHIC LANDFORMS/PROCESSES > COASTAL LANDFORMS > CORAL REEFS",
"MASS SPECTROMETERS > MASS SPECTROMETERS",
"COUNTRY/TERRITORY > Taiwan > Hengchung > Nanwan Bay (21N120E0008)",
"OCEAN BASIN > Pacific Ocean > Hengchung > Nanwan Bay (21N120E0008)",
"OCEAN > PACIFIC OCEAN > NORTH PACIFIC OCEAN",
"OCEAN > PACIFIC OCEAN > WESTERN PACIFIC OCEAN > SOUTH CHINA SEA",
"BELJ6L"
]
|
| landingPage | https://www.ncei.noaa.gov/contact |
| language |
[]
|
| license | https://creativecommons.org/publicdomain/zero/1.0/ |
| modified | 2020-09-09T00:00:00.000+00:00 |
| publisher |
{
"name": "NOAA National Centers for Environmental Information",
"@type": "org:Organization"
}
|
| references |
[
"https://massive.ucsd.edu/ProteoSAFe/dataset.jsp?task=558adcff310b48279b6692dbe3ea41c0",
"https://doi.org/10.1242/jeb.071688",
"https://doi.org/10.3390/microorganisms8081171"
]
|
| rights | otherRestrictions |
| spatial | 120.74598,21.93834,120.68841,22.02314 |
| temporal | 2010-05-14T00:00:00+00:00/2010-06-15T00:00:00+00:00 |
| title | Proteomic Signatures of Corals from Thermodynamic Reefs (NCEI Accession 0216077) |
