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Dataset Overview | National Centers for Environmental Information (NCEI)

Coral Bleaching & Recovery Observations using Structure-from-Motion (SfM) Models from Main Hawaiian Islands Fixed Sites Surveyed from 2019 to 2021 (NCEI Accession 0283598)

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Coral adult demographic data described in this dataset are derived from the GIS analysis of benthic photomosaic imagery collected at established fixed sites to assess bleaching recovery from 2019-2021 in the Main Hawaiian Islands. This data includes coral species identification, bleaching extent and severity, colony diameter, perimeter, and planar size. The source imagery was collected using a Structure from Motion (SfM) approach during in-water surveys conducted by divers and is documented and described separately. The data was collected by the NOAA Pacific Islands Fisheries Science Center (PIFSC) Ecosystem Sciences Division (ESD; formerly the Coral Reef Ecosystem Division) and [on Hawaii Island] in partnership with State of Hawaii Department of Land and Natural Resources (DLNR), Division of Aquatic Resources (DAR) during the 2019 bleaching event in the Main Hawaiian Islands, and in subsequent years (2020, 2021) to assess recovery.

Benthic imagery collected at permanent sites was generated into 3D dense point clouds (DPCs) using Agisoft Metashape software. DPCs from the same site, but different collection dates were converted into 2D orthomosaics and scaled, oriented and aligned together. Orthomosaics were sub-sampled by randomly distributing quadrats throughout the orthomosaic. Quadrat location was conserved across all orthomosaics associated with the same permanent site. Target coral species were identified within each quadrat and their perimeters were annotated until a sufficient sample size of each species was recorded. Six species were assessed: Montipora capitata (MCAP), Montipora patula (MPAT), Porites lichen (PLIC), Porites lobata (PLOB), Porites lutea (PLUT), and Pocillopora meandrina (PMEA). Annotations included coral species identification, maximum diameter measurement, planar area measurement, morphology, and, for sites surveyed in 2019, bleaching extent and bleaching severity. Each coral was annotated at the patch level, and patches composing individual colonies, also known as genets, were assigned a unique genet ID number. The same coral patches were tracked over each time point, unless mortality of a coral patch occurred.
  • Cite as: Ecosystem Sciences Division, Pacific Islands Fisheries Science Center (2023). Coral Bleaching & Recovery Observations using Structure-from-Motion (SfM) Models from Main Hawaiian Islands Fixed Sites Surveyed from 2019 to 2021 (NCEI Accession 0283598). [indicate subset used]. NOAA National Centers for Environmental Information. Dataset. https://www.ncei.noaa.gov/archive/accession/0283598. Accessed [date].
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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 2019-10-08 to 2021-07-20
Spatial Bounding Box Coordinates
West: -158.0667
East: -155.8488
South: 19.42335
North: 21.47959
Spatial Coverage Map
General Documentation
Associated Resources
  • Benthic cover and other related datasets derived from Structure-from-Motion (SfM) imagery of coral reef ecosystems in Pacific Islands Regions
    • NCEI Collection
      Navigate directly to the URL for data access and direct download.
  • Pacific Islands Fisheries Science Center, 2023: Coral Bleaching and Recovery Observations using Structure-from-Motion (SfM) Models from Main Hawaiian Islands Fixed Sites Surveyed from 2019 to 2021
  • Suka, Rhonda; Asbury, Mollie; Gray, Andrew Elisha; Winston, Morgan; Oliver, Thomas; Couch, Courtney S. Processing Photomosaic Imagery of Coral Reefs Using Structure-from-Motion Standard Operating Procedures. NOAA technical memorandum NMFS PIFSC; 93. 2019. https://doi.org/10.25923/h2q8-jv47
  • Rodriguez, Caroline; Amir, Corinne; Gray, Andrew; Asbury, Mollie; Suka, Rhonda; Lamirand, Mia; Couch, Courtney S.; Oliver, Thomas. Extracting Coral Vital Rate Estimates at Fixed Sites Using Structure-from-Motion Standard Operating Procedures; Measuring Coral Vital Rates Using Structure-from-Motion Photogrammetry at Fixed Sites: Standard Operating Procedures and Error Estimates. NOAA technical memorandum NMFS PIFSC; 120. 2021. https://doi.org/10.25923/a9se-k649
    • https://doi.org/10.25923/a9se-k649
      NOAA Technical Memorandum containing the standard operating procedures for measuring coral vital rates using Structure-from-Motion photogrammetry
  • Ecosystem Sciences Division, Pacific Islands Fisheries Science Center (2022). Colony-level annotations using Structure-from-Motion models from sites surveyed across the Main Hawaiian Islands during the 2019 bleaching event (NCEI Accession 0244392). NOAA National Centers for Environmental Information. Dataset. https://www.ncei.noaa.gov/archive/accession/0244392.
    • Parent ID (indicates this dataset is related to other data):
    • gov.noaa.nodc:PIFSC-SfM-DerivedData
Publication Dates
  • publication: 2023-10-13
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
Submission Package ID: KXC5TK
Purpose The Hawaii Coral Bleaching Collaborative (HCBC) planned and executed a field survey response in 2019 that applied a structured, hypothesis-driven approach to document the extent of coral bleaching in the Hawaiian Archipelago, and laid the groundwork for tracking coral response and recovery through time. Fixed sites were revisited in 2020 and 2021 to examine survivorship, recovery, and growth following the 2019 bleaching event. The purpose of the Structure from Motion (SfM) surveys throughout the Main Hawaiian Islands is to efficiently and effectively collect coral demographic data.
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: Ecosystem Sciences Division, Pacific Islands Fisheries Science Center (2023). Coral Bleaching & Recovery Observations using Structure-from-Motion (SfM) Models from Main Hawaiian Islands Fixed Sites Surveyed from 2019 to 2021 (NCEI Accession 0283598). [indicate subset used]. NOAA National Centers for Environmental Information. Dataset. https://www.ncei.noaa.gov/archive/accession/0283598. Accessed [date].
Cited Authors
Collaborators
Contributors
Resource Providers
Points of Contact
Publishers
Acknowledgments
  • Related Funding Agency: US DOC; NOAA; NOS; Coral Reef Conservation Program (Coral Reef Conservation Program - CRCP)
Theme keywords NODC DATA TYPES THESAURUS NODC OBSERVATION TYPES THESAURUS WMO_CategoryCode
  • oceanography
CoRIS Discovery Thesaurus
  • Numeric Data Sets > Benthic
CoRIS Theme Thesaurus
  • EARTH SCIENCE > Biosphere > Aquatic Habitat > Reef Habitat
  • EARTH SCIENCE > Biosphere > Zoology > Corals
  • EARTH SCIENCE > Biosphere > Zoology > Corals > Coral Condition
  • EARTH SCIENCE > Biosphere > Zoology > Corals > Coral Diseases > Bleaching
  • EARTH SCIENCE > Biosphere > Zoology > Corals > Reef Monitoring and Assessment
  • EARTH SCIENCE > Biosphere > Zoology > Corals > Reef Monitoring and Assessment > Damage Assessment > Visual
  • EARTH SCIENCE > Biosphere > Zoology > Corals > Reef Monitoring and Assessment > GIS
  • EARTH SCIENCE > Biosphere > Zoology > Corals > Reef Monitoring and Assessment > In Situ Biological
  • EARTH SCIENCE > Biosphere > Zoology > Corals > Reef Monitoring and Assessment > Photographic 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 > Marine Biology > Coral Communities
Global Change Master Directory (GCMD) Science Keywords Provider Keywords
  • SfM
  • Structure from Motion
Data Center keywords NODC COLLECTING INSTITUTION NAMES THESAURUS NODC SUBMITTING INSTITUTION NAMES THESAURUS Contributing Data Centers
  • CRED
  • CREP
  • Coral Reef Ecosystem Division
  • Coral Reef Ecosystem Program
  • DAR
  • DLNR
  • Division of Aquatic Resources
  • ESD
  • Ecosystem Sciences Division
  • Hawai'i Department of Land and Natural Resources
  • PIFSC
  • Pacific Islands Fisheries Science Center
Global Change Master Directory (GCMD) Data Center Keywords
Platform keywords Provider Platform Names
  • Various Small Vessels
Instrument keywords NODC INSTRUMENT TYPES THESAURUS Global Change Master Directory (GCMD) Instrument Keywords Provider Instruments
  • Agisoft Metashape software
  • ArcGIS
  • Computer
Place keywords NODC SEA AREA NAMES THESAURUS CoRIS Place Thesaurus
  • COUNTRY/TERRITORY > United States of America > Hawaii > Hawaii > Hawaii (21N160W0000)
  • COUNTRY/TERRITORY > United States of America > Hawaii > Hawaii > Hawaii Island (19N155W0003)
  • COUNTRY/TERRITORY > United States of America > Hawaii > Honolulu > Oahu (21N157W0003)
  • COUNTRY/TERRITORY > United States of America > Hawaii > Maui > Lanai Island (20N156W0002)
  • COUNTRY/TERRITORY > United States of America > Hawaiian Islands (21N157W0027)
  • OCEAN BASIN > Pacific Ocean > Central Pacific Ocean > Hawaiian Islands (21N157W0027)
  • OCEAN BASIN > Pacific Ocean > Central Pacific Ocean > Hawaiian Islands > Hawaii > Hawaii (21N160W0000)
  • OCEAN BASIN > Pacific Ocean > Central Pacific Ocean > Hawaiian Islands > Hawaii Island > Hawaii Island (19N155W0003)
  • OCEAN BASIN > Pacific Ocean > Central Pacific Ocean > Hawaiian Islands > Lanai Island > Lanai Island (20N156W0002)
  • OCEAN BASIN > Pacific Ocean > Central Pacific Ocean > Hawaiian Islands > Oahu Island > Oahu (21N157W0003)
Global Change Master Directory (GCMD) Location Keywords
Project keywords NODC PROJECT NAMES THESAURUS CRCP Project
  • 31283
  • 31361
  • Assessing impacts of Hawaii's 2019 coral bleaching event on coral recovery and coral communities
  • Hawai'i coral bleaching assessment and analysis
Keywords NCEI ACCESSION NUMBER
Use Constraints
  • Cite as: Ecosystem Sciences Division, Pacific Islands Fisheries Science Center (2023). Coral Bleaching & Recovery Observations using Structure-from-Motion (SfM) Models from Main Hawaiian Islands Fixed Sites Surveyed from 2019 to 2021 (NCEI Accession 0283598). [indicate subset used]. NOAA National Centers for Environmental Information. Dataset. https://www.ncei.noaa.gov/archive/accession/0283598. Accessed [date].
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
  • 2023-10-13T13:42:44Z - NCEI Accession 0283598 v1.1 was published.
Output Datasets
Lineage information for: dataset
Processing Steps
  • Parameter or Variable: CORAL - COLONY SIZE (measured); Units: square meter; Observation Category: GIS product; Sampling Instrument: photograph; Sampling and Analyzing Method: Structure-from-motion photographs were processed using Agisoft Metashape software to generate orthomosaic images that were analyzed in ArcGIS for adult coral colony demographic metrics. Data was collected for each site within at least 10 randomly generated 0.49m2 quadrats. Each coral was annotated at the patch level, and patches composing individual colonies, or 'genets' were assigned a unique genet ID number. The same coral patches were tracked over each time point, unless mortality of a coral patch occurred.; Data Quality Method: Additional quadrats were analyzed if necessary until the sample sizes per species of interest were met. If a species had very low density at a given site (< 10 patches recorded within the first 10 quadrats), it was dropped from further observations. However, the data for these patches remains in the raw data in order to provide presence/absence data. Therefore, data should be carefully analyzed to ensure accurate species density calculations are done..
  • Parameter or Variable: CORAL - SPECIES IDENTIFICATION (measured); Units: unitless; Observation Category: laboratory analysis; Sampling Instrument: photograph; Sampling and Analyzing Method: Structure-from-motion photographs were processed using Agisoft Metashape software to generate orthomosaic images that were analyzed in ArcGIS for adult coral colony demographic metrics. Data was collected for each site within at least 10 randomly generated 0.49m2 quadrats. Six species were assessed: Montipora capitata (MCAP), Montipora patula (MPAT), Porites lichen (PLIC), Porites lobata (PLOB), Porites lutea (PLUT), and Pocillopora meandrina (PMEA).; Data Quality Method: Additional quadrats were analyzed if necessary until the sample sizes per species of interest were met. If a species had very low density at a given site (< 10 patches recorded within the first 10 quadrats), it was dropped from further observations. However, the data for these patches remains in the raw data in order to provide presence/absence data. Therefore, data should be carefully analyzed to ensure accurate species density calculations are done..
  • Parameter or Variable: CORAL - BLEACHING (measured); Units: percent; Observation Category: laboratory analysis; Sampling Instrument: photograph; Sampling and Analyzing Method: Structure-from-motion photographs were processed using Agisoft Metashape software to generate orthomosaic images that were analyzed in ArcGIS for adult coral colony demographic metrics. Data was collected for each site within at least 10 randomly generated 0.49m2 quadrats. Bleaching extent and severity were analyzed, when applicable.; Data Quality Method: Extent of bleaching as expressed by percent of patch exhibiting paling from 0-100%. Blank values denote no bleaching observations were conducted (survey years 2020 and 2021). The severity of bleaching from 1 (being slightly pale) to 3 (stark white). Blank values signify no bleaching observations were conducted (survey years 2020 and 2021). Values of 0 mean that the bleaching extent was 0%..
Acquisition Information (collection)
Instrument
  • photograph
  • visual observation
Last Modified: 2024-02-21T13:44:27Z
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