Towards predicting coral fate with a molecular biotechnology+machine-learning approach (NCEI Accession 0254274)
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abstract: Given the widespread decline of coral reefs across the globe on account of climate change-induced rises in seawater temperature, a series of temperature-focused models have been generated to predict when and where bleaching events may occur (e.g., NOAA’s Coral Reef Watch). Although such algorithms are adept at forecasting the onset of periods of severe bleaching in many parts of the world, they suffer from poor predictive capacity in areas featuring high numbers of corals that have either adapted or acclimatized to life in marginalized environments, such as stress-hardened corals of the Florida Keys. In these areas, it may instead be superior to use physiological data from the corals themselves to make predictions about coral bleaching susceptibility. To that end, both field and laboratory analyses were undertaken with the massive Caribbean reef-builder Orbicella faveolata whereby, after elucidating the cellular pathways underlying both bleaching and high-temperature tolerance in diverse genotypes ex situ, the protein profiles of tagged field colonies were tracked across seasons. Neural networks trained with proteomic data from the laboratory specimens were then tested using proteomic data from bleaching-susceptible and bleaching-resistant field colonies, and the resulting artificial intelligence (AI) was capable of predicting with a high degree of confidence whether a coral colony would bleach. This ‘Omics+AI approach could be of potential use in delineating O. faveolata climate resilience elsewhere in the Florida Keys, and perhaps beyond. This dataset includes raw files from the mass spectrometer, as well as "distilled" mass spectrometry data that can be analyzed and interpreted by those with access to a personal computer and the Microsoft Office suite.
purpose: This dataset is available to the public for a wide variety of uses including scientific research and analysis.
credit: Related Funding Agency: US DOC; National Oceanic and Atmospheric Administration
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title: Mayfield, Anderson (2021). Images of coral colonies sampled at four time points in 2019: July (prior to bleaching), August (during a coral bleaching event), October (during the post-bleaching recovery period), and December (a cool-water period in which corals had fully recovered from bleaching) (NCEI Accession 0243645). NOAA National Centers for Environmental Information. Dataset. https://www.ncei.noaa.gov/archive/accession/0243645.
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Anchor: https://www.ncei.noaa.gov/archive/archive-management-system/OAS/bin/prd/jquery/institution/details/1730 US DOC; NOAA; NESDIS; National Centers for Environmental Information (NCEI)
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topicCategory: (MD_TopicCategoryCode) oceans
topicCategory: (MD_TopicCategoryCode) biota
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westBoundLongitude: -80.61573
eastBoundLongitude: -80.50205
southBoundLatitude: 24.89742
northBoundLatitude: 24.95375
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extent:
TimePeriod:
beginPosition: 2019-07-10
endPosition: 2019-12-04
supplementalInformation: Submission Package ID: 7C8LY6
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distributionInfo: (MD_Distribution)
distributor: (MD_Distributor)
distributorContact: (CI_ResponsibleParty)
organisationName:
Anchor: https://www.ncei.noaa.gov/archive/archive-management-system/OAS/bin/prd/jquery/institution/details/1730 NOAA National Centers for Environmental Information
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voice: +1-301-713-3277
address: (CI_Address)
electronicMailAddress: NCEI.Info@noaa.gov
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distributionOrderProcess: (MD_StandardOrderProcess)
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.
orderingInstructions: Contact NCEI for other distribution options and instructions.
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linkage: https://www.ncei.noaa.gov/archive/accession/0254274
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name: NCEI Dataset Landing Page
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linkage: https://www.ncei.noaa.gov/archive/accession/oas/254274
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linkage: https://www.ncei.noaa.gov/archive/accession/download/254274
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linkage: ftp://ftp-oceans.ncei.noaa.gov/nodc/archive/arc0204/0254274/
protocol: FTP
applicationProfile: Any FTP client
name: FTP
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).
function: (CI_OnLineFunctionCode) download
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dataQualityInfo: (DQ_DataQuality)
scope: (DQ_Scope)
level: (MD_ScopeCode) dataset
lineage: (LI_Lineage)
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description: NCEI Accession 0254274 v1.1 was published.
dateTime:
DateTime: 2022-06-29T22:10:50Z
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title: NCEI Accession 0254274 v1.1
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name: NCEI Accession 0254274 v1.1
description: published 2022-06-29T22:10:50Z
function: (CI_OnLineFunctionCode) download
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dataQualityInfo: (DQ_DataQuality)
scope: (DQ_Scope)
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description: Parameter or Variable: protein concentrations (measured); Units: relative levels (ratios to control); Observation Category: laboratory analysis; Sampling Instrument: mass spectrometer; Sampling and Analyzing Method: Coral proteins were extracted, labeled (iTRAQ), separated by nano-liquid chromatography, and sequenced by mass spectrometry.; Data Quality Method: Protein quantity was determined using BCA assays (against BSA standards), and quality was determined by SDS-PAGE (Phastgel System)..
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metadataMaintenance: (MD_MaintenanceInformation)
maintenanceAndUpdateFrequency: (MD_MaintenanceFrequencyCode) asNeeded
maintenanceNote: Metadata are developed, maintained and distributed by NCEI. Updates are performed as needed to maintain currentness.
contact: (CI_ResponsibleParty)
organisationName: NOAA National Centers for Environmental Information
role: (CI_RoleCode) custodian
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acquisitionInformation: (MI_AcquisitionInformation)
instrument: (MI_Instrument)
identifier: (MD_Identifier)
code: mass spectrometer
type: mass spectrometer
description: Instrument that measure the massess and relative concentrations of atoms and molecules
