Shotgun proteomics of thermally challenged Caribbean reef corals (NCEI Accession 0227133)

Description

A proteome profiling approach was taken to characterize the cellular biology of massive corals of the Upper Florida Keys exposed to experimentally elevated temperatures. Specifically, Orbicella faveolata specimens from two inshore (Cheeca Rocks & The Rocks) and one offshore reef (Little Conch) were incubated at either 33°C for 5 days or 32°C days for 31 days (with controls maintained at 30°C), and proteins were extracted from a subset of 16 samples (representing multiple coral genotypes at each temperature x time), separated by liquid chromatography, and sequenced by mass spectrometry (MS). The associated, open-access manuscript (Mayfield et al. 2021) includes all methodological details needed to interpret the proteomic data. However, I have nevertheless reiterated the majority of these details in this document to aid those in navigating the NCEI data submission. Alongside this detailed methodological treatise, I have also uploaded 16 RAW files generated by the MS (Q Exactive™, Thermo-Fisher Scientific [TFS]), 16 MZML (open-access MS mass peaks) files, 16 MZID (open-access MS results) files, two sequence libraries needed to query the proteomic data (fasta files for the coral host & its dinoflagellate [family Symbiodiniaceae] endosymbionts), and a tab-delimited “online supplemental data file” (OSDF) that 1) describes which samples were analyzed; 2) defines MS jargon and explains how to interpret the MS output; and 3) presents all data in a distilled format that is more amenable to analysis by traditional statistical approaches. Please note that there are 32 MZID files, rather than 16, because each of the 16 MZML files was separately queried against each of the two aforementioned fasta sequence libraries.

Resources

Name Format Description Link
0 Navigate directly to the URL for a descriptive web page with download links. https://www.ncei.noaa.gov/archive/accession/0227133
0 Navigate directly to the URL for a descriptive web page with download links. https://www.ncei.noaa.gov/archive/accession/oas/227133
0 Navigate directly to the URL for data access and direct download. https://www.ncei.noaa.gov/archive/accession/download/227133
0 Information for contacts at NCEI. https://www.ncei.noaa.gov/contact
0 Institution web page https://www.aoml.noaa.gov/
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0 Institution web page https://www.aoml.noaa.gov/
0 Institution web page https://www.aoml.noaa.gov/
0 Information for contacts at NCEI. https://www.ncei.noaa.gov/contact
0 Mayfield AB, Aguilar C, Kolodziej G, Enochs IC and Manzello DP. 2021. Shotgun Proteomic Analysis of Thermally Challenged Reef Corals. Frontiers in Marine Science 8:660153. https://doi.org/10.3389/fmars.2021.660153 https://doi.org/10.3389/fmars.2021.660153
0 Global Change Master Directory (GCMD). 2023. GCMD Keywords, Version 17. 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 https://forum.earthdata.nasa.gov/app.php/tag/GCMD%2BKeywords
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0 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). ftp://ftp-oceans.ncei.noaa.gov/nodc/archive/arc0184/0227133/
0 Global Change Master Directory (GCMD). 2023. GCMD Keywords, Version 17. 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 https://forum.earthdata.nasa.gov/app.php/tag/GCMD%2BKeywords
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0 Navigate directly to the URL for a descriptive web page with download links. https://www.ncei.noaa.gov/archive/accession/0227133
0 Navigate directly to the URL for a descriptive web page with download links. https://www.ncei.noaa.gov/archive/accession/oas/227133
0 Navigate directly to the URL for data access and direct download. https://www.ncei.noaa.gov/archive/accession/download/227133
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0 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). ftp://ftp-oceans.ncei.noaa.gov/nodc/archive/arc0184/0227133/
0 related journal article https://doi.org/10.3389/fmars.2021.660153
0 Navigate directly to the URL for a descriptive web page with download links. https://www.ncei.noaa.gov/archive/accession/0227133
0 Navigate directly to the URL for a descriptive web page with download links. https://www.ncei.noaa.gov/archive/accession/oas/227133
0 Navigate directly to the URL for data access and direct download. https://www.ncei.noaa.gov/archive/accession/download/227133
0 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). ftp://ftp-oceans.ncei.noaa.gov/nodc/archive/arc0184/0227133/
0 Information for contacts at NCEI. https://www.ncei.noaa.gov/contact
0 Institution web page https://www.aoml.noaa.gov/
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0 Institution web page https://cimas.earth.miami.edu/
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0 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 https://forum.earthdata.nasa.gov/app.php/tag/GCMD%2BKeywords
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0 related journal article https://doi.org/10.3389/fmars.2021.660153
0 Navigate directly to the URL for a descriptive web page with download links. https://www.ncei.noaa.gov/archive/accession/0227133
0 Navigate directly to the URL for a descriptive web page with download links. https://www.ncei.noaa.gov/archive/accession/oas/227133
0 Navigate directly to the URL for data access and direct download. https://www.ncei.noaa.gov/archive/accession/download/227133
0 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). ftp://ftp-oceans.ncei.noaa.gov/nodc/archive/arc0184/0227133/
0 Information for contacts at NCEI. https://www.ncei.noaa.gov/contact
0 Institution web page https://www.aoml.noaa.gov/
0 Institution web page https://www.aoml.noaa.gov/
0 Institution web page https://cimas.earth.miami.edu/
0 Institution web page https://cimas.earth.miami.edu/
0 Institution web page https://www.aoml.noaa.gov/
0 Information for contacts at NCEI. https://www.ncei.noaa.gov/contact
0 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 https://forum.earthdata.nasa.gov/app.php/tag/GCMD%2BKeywords
0 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 https://forum.earthdata.nasa.gov/app.php/tag/GCMD%2BKeywords
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0 Navigate directly to the URL for a descriptive web page with download links. https://www.ncei.noaa.gov/archive/accession/0227133
0 Navigate directly to the URL for a descriptive web page with download links. https://www.ncei.noaa.gov/archive/accession/oas/227133
0 Navigate directly to the URL for data access and direct download. https://www.ncei.noaa.gov/archive/accession/download/227133
0 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). ftp://ftp-oceans.ncei.noaa.gov/nodc/archive/arc0184/0227133/
0 Information for contacts at NCEI. https://www.ncei.noaa.gov/contact
0 Institution web page https://www.aoml.noaa.gov/
0 Institution web page https://www.aoml.noaa.gov/
0 Institution web page https://cimas.earth.miami.edu/
0 Institution web page https://cimas.earth.miami.edu/
0 Institution web page https://www.aoml.noaa.gov/
0 Information for contacts at NCEI. https://www.ncei.noaa.gov/contact
0 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 https://forum.earthdata.nasa.gov/app.php/tag/GCMD%2BKeywords
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0 related journal article https://doi.org/10.3389/fmars.2021.660153
0 Navigate directly to the URL for a descriptive web page with download links. https://www.ncei.noaa.gov/archive/accession/0227133
0 Navigate directly to the URL for a descriptive web page with download links. https://www.ncei.noaa.gov/archive/accession/oas/227133
0 Navigate directly to the URL for data access and direct download. https://www.ncei.noaa.gov/archive/accession/download/227133
0 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). ftp://ftp-oceans.ncei.noaa.gov/nodc/archive/arc0184/0227133/
0 Information for contacts at NCEI. https://www.ncei.noaa.gov/contact
0 Institution web page https://www.aoml.noaa.gov/
0 Institution web page https://www.aoml.noaa.gov/
0 Institution web page https://cimas.earth.miami.edu/
0 Institution web page https://cimas.earth.miami.edu/
0 Institution web page https://www.aoml.noaa.gov/
0 Information for contacts at NCEI. https://www.ncei.noaa.gov/contact
0 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 https://forum.earthdata.nasa.gov/app.php/tag/GCMD%2BKeywords
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0 related journal article https://doi.org/10.3389/fmars.2021.660153
0 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 https://forum.earthdata.nasa.gov/app.php/tag/GCMD%2BKeywords
0 Navigate directly to the URL for a descriptive web page with download links. https://www.ncei.noaa.gov/archive/accession/0227133
0 Navigate directly to the URL for a descriptive web page with download links. https://www.ncei.noaa.gov/archive/accession/oas/227133
0 Navigate directly to the URL for data access and direct download. https://www.ncei.noaa.gov/archive/accession/download/227133
0 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). ftp://ftp-oceans.ncei.noaa.gov/nodc/archive/arc0184/0227133/
0 Information for contacts at NCEI. https://www.ncei.noaa.gov/contact
0 Institution web page https://www.aoml.noaa.gov/
0 Institution web page https://www.aoml.noaa.gov/
0 Institution web page https://cimas.earth.miami.edu/
0 Institution web page https://cimas.earth.miami.edu/
0 Institution web page https://www.aoml.noaa.gov/
0 Information for contacts at NCEI. https://www.ncei.noaa.gov/contact
0 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 https://forum.earthdata.nasa.gov/app.php/tag/GCMD%2BKeywords
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0 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 https://forum.earthdata.nasa.gov/app.php/tag/GCMD%2BKeywords
0 Navigate directly to the URL for a descriptive web page with download links. https://www.ncei.noaa.gov/archive/accession/0227133
0 Navigate directly to the URL for a descriptive web page with download links. https://www.ncei.noaa.gov/archive/accession/oas/227133
0 Navigate directly to the URL for data access and direct download. https://www.ncei.noaa.gov/archive/accession/download/227133
0 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). ftp://ftp-oceans.ncei.noaa.gov/nodc/archive/arc0184/0227133/
0 Information for contacts at NCEI. https://www.ncei.noaa.gov/contact
0 Institution web page https://www.aoml.noaa.gov/
0 Institution web page https://www.aoml.noaa.gov/
0 Institution web page https://cimas.earth.miami.edu/
0 Institution web page https://cimas.earth.miami.edu/
0 Institution web page https://www.aoml.noaa.gov/
0 Information for contacts at NCEI. https://www.ncei.noaa.gov/contact
0 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 https://forum.earthdata.nasa.gov/app.php/tag/GCMD%2BKeywords
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0 related journal article https://doi.org/10.3389/fmars.2021.660153
0 Navigate directly to the URL for a descriptive web page with download links. https://www.ncei.noaa.gov/archive/accession/0227133
0 Navigate directly to the URL for a descriptive web page with download links. https://www.ncei.noaa.gov/archive/accession/oas/227133
0 Navigate directly to the URL for data access and direct download. https://www.ncei.noaa.gov/archive/accession/download/227133
0 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). ftp://ftp-oceans.ncei.noaa.gov/nodc/archive/arc0184/0227133/
0 Information for contacts at NCEI. https://www.ncei.noaa.gov/contact
0 Institution web page https://www.aoml.noaa.gov/
0 Institution web page https://www.aoml.noaa.gov/
0 Institution web page https://cimas.earth.miami.edu/
0 Institution web page https://cimas.earth.miami.edu/
0 Institution web page https://www.aoml.noaa.gov/
0 Information for contacts at NCEI. https://www.ncei.noaa.gov/contact
0 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 https://forum.earthdata.nasa.gov/app.php/tag/GCMD%2BKeywords
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0 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 https://forum.earthdata.nasa.gov/app.php/tag/GCMD%2BKeywords
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0 related journal article https://doi.org/10.3389/fmars.2021.660153
0 Navigate directly to the URL for a descriptive web page with download links. https://www.ncei.noaa.gov/archive/accession/0227133
0 Navigate directly to the URL for a descriptive web page with download links. https://www.ncei.noaa.gov/archive/accession/oas/227133
0 Navigate directly to the URL for data access and direct download. https://www.ncei.noaa.gov/archive/accession/download/227133
0 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). ftp://ftp-oceans.ncei.noaa.gov/nodc/archive/arc0184/0227133/
0 Information for contacts at NCEI. https://www.ncei.noaa.gov/contact
0 Institution web page https://www.aoml.noaa.gov/
0 Institution web page https://www.aoml.noaa.gov/
0 Institution web page https://cimas.earth.miami.edu/
0 Institution web page https://cimas.earth.miami.edu/
0 Institution web page https://www.aoml.noaa.gov/
0 Information for contacts at NCEI. https://www.ncei.noaa.gov/contact
0 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 https://forum.earthdata.nasa.gov/app.php/tag/GCMD%2BKeywords
0 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 https://forum.earthdata.nasa.gov/app.php/tag/GCMD%2BKeywords
0 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 https://forum.earthdata.nasa.gov/app.php/tag/GCMD%2BKeywords
0 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 https://forum.earthdata.nasa.gov/app.php/tag/GCMD%2BKeywords
0 related journal article https://doi.org/10.3389/fmars.2021.660153

Tags

  • molecular genetic analysis
  • florida reef tract
  • united states of america
  • reef monitoring and assessment
  • corals
  • liquid chromatography
  • biosphere
  • little conch
  • proteomic analysis
  • monroe county
  • oceans
  • dkgaxf
  • numeric data sets
  • cheeca rocks (24n080w0009)
  • oceanography
  • biology
  • scleractinia (stony corals)
  • the rocks
  • atlantic ocean
  • earth science
  • m/v gbn1
  • upper florida keys
  • marine biology
  • florida
  • ocean basin
  • coral
  • coastal processes
  • conch reef (24n080w0011)
  • zoology
  • coral reefs
  • north atlantic ocean
  • country/territory

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