National Coral Reef Monitoring Program: Benthic Cover Derived from Analysis of Benthic Images Collected during Stratified Random Surveys (StRS) across the Pacific Remote Island...
Data Set (DS) | Pacific Islands Fisheries Science Center (PIFSC)GUID: gov.noaa.nmfs.inport:36157 | Updated: October 3, 2024 | Published / External
Summary
Short Citation
Pacific Islands Fisheries Science Center, 2024: National Coral Reef Monitoring Program: Benthic Cover Derived from Analysis of Benthic Images Collected during Stratified Random Surveys (StRS) across the Pacific Remote Island Areas since 2014, https://www.fisheries.noaa.gov/inport/item/36157.
Full Citation Examples
DOI: https://doi.org/10.7289/v5154fbh
AbstractThe data described here result from benthic photo-quadrat surveys conducted along transects at stratified random sites across the American Samoa in 2015, 2018, and 2023 as a part of Rapid Ecological Assessment (REA) surveys for corals and fish. Benthic habitat imagery were quantitatively analyzed using the Coral Point Count with Excel extensions (CPCe; Kohler and Gill, 2006) software from 2010-2014 and using the web-based annotation tool CoralNet (Beijbom et al. 2016) from 2015 to present. Images are analyzed to produce three functional group levels of benthic cover: Tier 1 (e.g., coral, soft coral, macroalgae, turf algae, etc.), Tier 2 (e.g., Coral = massive hard coral, branching hard coral, foliose hard coral, encrusting hard coral, etc.; Macroalga = upright macroalgae), and Tier 3 (e.g., Coral = Astreopora sp, Favia sp, Pocillopora, etc.; Macroalgae = Caulerpa sp, Dictyosphaeria sp, Padina sp, etc.). If Tier 3 resolution is not possible, the next finest resolution is used.
A stratified random sampling (StRS) design was employed to survey the coral reef ecosystems across the region. The survey domain encompassed the majority of the mapped area of reef and hard bottom habitats in the 0-30 m depth range. The stratification scheme included island, reef zone, and depth. Sampling effort was allocated based on strata area and sites were randomly located within strata. Sites were surveyed using photo-quadrats along transects to collect benthic imagery to ultimately produce estimates of relative abundance (benthic cover), frequency of occurrence, benthic community taxonomic composition and relative generic richness.
The StRS design effectively reduces estimate variance through stratification using environmental covariates and by sampling more sites rather than sampling more transects at a site. Therefore, site-level estimates and site to site comparisons should be used with caution.
The data from the benthic cover surveys can be accessed online via the NOAA National Centers for Environmental Information (NCEI) Ocean Archive.
Distribution Information
-
PDF - Adobe Portable Document Format
PIFSC Administrative Report, January 2017: Analysis of benthic survey images via CoralNet : a summary of standard operating procedures and guidelines
-
CSV - Comma Separated Values (Text)
Image analysis data derived from photoquadrat benthic images at stratified random sites across Wake Island in 2014 by the NOAA Coral Reef Ecosystem Program (CREP)
-
CSV - Comma Separated Values (Text)
Image analysis data derived from photoquadrat benthic images at stratified random sites across the Pacific Remote Island Areas in 2015 by the NOAA Coral Reef Ecosystem Program (CREP)
-
CSV - Comma Separated Values (Text)
Benthic cover data derived from analysis of photoquadrat benthic images collected from stratified random sites at Jarvis of the Pacific Remote Island Areas in May 2016 by the PIFSC Ecosystem Sciences Division (ESD)
-
CSV - Comma Separated Values (Text)
Benthic cover data derived from analysis of photoquadrat benthic images collected from stratified random sites across the Pacific Remote Island Areas in 2017 by the PIFSC Ecosystem Sciences Division (ESD)
-
CSV - Comma Separated Values (Text)
Benthic cover data derived from analysis of photoquadrat benthic images collected from stratified random sites across the Pacific Remote Island Areas in 2018 by the PIFSC Ecosystem Sciences Division (ESD)
-
CSV - Comma Separated Values (Text)
Image analysis data derived from photoquadrat benthic images at NCRMP Stratified Random Survey sites across the Pacific Remote Island Areas in 2023 by the NOAA Ecosystem Science Division (ESD)
None
Please cite PIFSC Ecosystem Sciences Division (ESD) when using the data.
Example:
Ecosystem Sciences Division; Pacific Islands Fisheries Science Center (2018). National Coral Reef Monitoring Program: Benthic Cover Derived from Analysis of Benthic Images Collected during Stratified Random Surveys (StRS) across the Pacific Remote Island Areas since 2014, NOAA's National Center for Environmental Information, https://www.fisheries.noaa.gov/inport/item/36157
Controlled Theme Keywords
BENTHIC, biota, COMMUNITY DYNAMICS, CORAL REEF, DOC/NOAA/NMFS/PIFSC/ESD
Child Items
Type | Title |
---|---|
Entity | Benthic Image analysis classification scheme |
Entity | NCRMP_BIA_CNET_StRS_DataDictionary_PRIAS_2023 |
Contact Information
Point of Contact
Thomas Oliver
thomas.oliver@noaa.gov
(808)725-5444
Metadata Contact
Lori H Luers
lori.luers@noaa.gov
Extents
166.5937066° W,
166.657759° E,
19.32573345° N,
19.26737797° S
Wake Island, one of the seven PRIA, is routinely surveyed as part of the Mariana Archipelago RAMP (MARAMP) missions.
-176.6267816° W,
-159.9717° E,
16.780927° N,
-0.382607° S
Phoenix (Baker and Howland) and Line Islands (Jarvis, Kingman, and Palmyra), and Johnston Atoll. These six of the seven PRIA are routinely surveyed as part of the American Samoa RAMP (ASRAMP) missions (Johnston, Baker and Howland during the first leg of ASRAMP, and Jarvis, Kingman, and Palmyra during the last leg of ASRAMP).
2014-03-16 - 2014-03-20
Surveys at Wake during MARAMP 2014
2015-01-26 - 2015-04-28
Surveys at the islands in the PRIA during the first and last legs of ASRAMP 2015
2017-04-02 - 2017-04-23
Surveys at Baker, Howland, Jarvis and Wake during MARAMP 2017
2016-05-16 - 2016-05-22
Surveys at Jarvis on the Sette cruise in 2016
2023-03-15 - 2023-05-07
2018-06-10 - 2018-08-11
Surveys at Baker, Howland, Jarvis, Kingman, and Palmyra during ASRAMP 2018
Item Identification
Title: | National Coral Reef Monitoring Program: Benthic Cover Derived from Analysis of Benthic Images Collected during Stratified Random Surveys (StRS) across the Pacific Remote Island Areas since 2014 |
---|---|
Short Name: | NCRMP: Benthic Cover at Stratified Random Sites (Image Analysis) PRIAs |
Status: | In Work |
Revision Date: | 2023-11-02 |
Publication Date: | 2023 |
Abstract: |
The data described here result from benthic photo-quadrat surveys conducted along transects at stratified random sites across the American Samoa in 2015, 2018, and 2023 as a part of Rapid Ecological Assessment (REA) surveys for corals and fish. Benthic habitat imagery were quantitatively analyzed using the Coral Point Count with Excel extensions (CPCe; Kohler and Gill, 2006) software from 2010-2014 and using the web-based annotation tool CoralNet (Beijbom et al. 2016) from 2015 to present. Images are analyzed to produce three functional group levels of benthic cover: Tier 1 (e.g., coral, soft coral, macroalgae, turf algae, etc.), Tier 2 (e.g., Coral = massive hard coral, branching hard coral, foliose hard coral, encrusting hard coral, etc.; Macroalga = upright macroalgae), and Tier 3 (e.g., Coral = Astreopora sp, Favia sp, Pocillopora, etc.; Macroalgae = Caulerpa sp, Dictyosphaeria sp, Padina sp, etc.). If Tier 3 resolution is not possible, the next finest resolution is used. A stratified random sampling (StRS) design was employed to survey the coral reef ecosystems across the region. The survey domain encompassed the majority of the mapped area of reef and hard bottom habitats in the 0-30 m depth range. The stratification scheme included island, reef zone, and depth. Sampling effort was allocated based on strata area and sites were randomly located within strata. Sites were surveyed using photo-quadrats along transects to collect benthic imagery to ultimately produce estimates of relative abundance (benthic cover), frequency of occurrence, benthic community taxonomic composition and relative generic richness. The StRS design effectively reduces estimate variance through stratification using environmental covariates and by sampling more sites rather than sampling more transects at a site. Therefore, site-level estimates and site to site comparisons should be used with caution. The data from the benthic cover surveys can be accessed online via the NOAA National Centers for Environmental Information (NCEI) Ocean Archive. |
Purpose: |
The National Coral Reef Monitoring Program (NCRMP) details a long-term approach to provide an ecosystem perspective via monitoring climate, fish, benthic, and socioeconomic variables in a consistent and integrated manner. The NCRMP is intended to coordinate various Coral Reef Conservation Coral Reef Program (CRCP) biological, physical, and human dimensions activities into a cohesive NOAA-wide effort. Through the implementation of the NCRMP, NOAA will be able to clearly and concisely communicate results of national-scale monitoring to national, state, and territorial policy makers, resource managers, and the public on a periodic basis. |
Supplemental Information: |
The National Coral Reef Monitoring Program (NCRMP) details a long-term approach to provide an ecosystem perspective via monitoring climate, fish, benthic, and socioeconomic variables in a consistent and integrated manner. The NCRMP is intended to coordinate various Coral Reef Conservation Coral Reef Program (CRCP) biological, physical, and human dimensions activities into a cohesive NOAA-wide effort. Through the implementation of the NCRMP, NOAA will be able to clearly and concisely communicate results of national-scale monitoring to national, state, and territorial policy makers, resource managers, and the public on a periodic basis. NCRMP is a framework for conducting sustained observations of biological, climate, and socioeconomic indicators at 10 priority coral reefs across the U.S. and its territories. This integrated approach will consolidate monitoring of coral reefs under a uniform method in the Pacific, Atlantic, Caribbean, and the Gulf of Mexico for the first time. NCRMP is funded by the CRCP and supported by NOAA Fisheries, NOAA National Centers for Coastal Ocean Science (NCCOS), and many other partners. The Ecosystem Sciences Division (ESD) at NOAA Fisheries is leading biological monitoring in the U.S. Pacific Islands Region. The biological component of NCRMP in the Pacific provides a triennial ecological characterization at a broad spatial scale of general reef condition for reef fishes, corals and benthic habitat (i.e., fish species composition/density/size, benthic cover, and coral density/size/condition). Innovative analysis techniques are then used to develop products that give fellow scientists, managers, decision makers and the public a better understanding of a region's resources and how they are changing over time. |
DOI (Digital Object Identifier): | https://doi.org/10.7289/v5154fbh |
DOI Registration Authority: | NOAA |
Keywords
Theme Keywords
Thesaurus | Keyword |
---|---|
Global Change Master Directory (GCMD) Data Center Keywords |
DOC/NOAA/NMFS/PIFSC/ESD > Ecosystem Sciences Division, Pacific Islands Fisheries Science Center, National Marine Fisheries Service, NOAA, U.S. Department of Commerce
|
Global Change Master Directory (GCMD) Science Keywords |
EARTH SCIENCE > BIOSPHERE > ECOLOGICAL DYNAMICS > COMMUNITY DYNAMICS
|
Global Change Master Directory (GCMD) Science Keywords |
EARTH SCIENCE > BIOSPHERE > ECOSYSTEMS > MARINE ECOSYSTEMS > BENTHIC
|
Global Change Master Directory (GCMD) Science Keywords |
EARTH SCIENCE > BIOSPHERE > ECOSYSTEMS > MARINE ECOSYSTEMS > REEF > CORAL REEF
|
ISO 19115 Topic Category |
biota
|
UNCONTROLLED | |
CoRIS Discovery Thesaurus | Numeric Data Sets > Benthic |
CoRIS Theme Thesaurus | EARTH SCIENCE > Biosphere > Aquatic Habitat > Benthic Habitat |
CoRIS Theme Thesaurus | EARTH SCIENCE > Biosphere > Aquatic Habitat > Reef Habitat |
CoRIS Theme Thesaurus | EARTH SCIENCE > Biosphere > Microbiota > Blue-green Algae |
CoRIS Theme Thesaurus | EARTH SCIENCE > Biosphere > Vegetation > Algae > Algal Cover |
CoRIS Theme Thesaurus | EARTH SCIENCE > Biosphere > Vegetation > Algae > Crustose Coralline Algae |
CoRIS Theme Thesaurus | EARTH SCIENCE > Biosphere > Vegetation > Algae > Encrusting Macroalgae |
CoRIS Theme Thesaurus | EARTH SCIENCE > Biosphere > Vegetation > Algae > Turf Algae |
CoRIS Theme Thesaurus | EARTH SCIENCE > Biosphere > Zoology > Corals |
CoRIS Theme Thesaurus | EARTH SCIENCE > Biosphere > Zoology > Corals > Reef Monitoring and Assessment |
CoRIS Theme Thesaurus | EARTH SCIENCE > Biosphere > Zoology > Corals > Reef Monitoring and Assessment > Benthos Analysis |
CoRIS Theme Thesaurus | EARTH SCIENCE > Biosphere > Zoology > Corals > Reef Monitoring and Assessment > Benthos Analysis > Quadrat Monitoring > Photograph Analysis |
CoRIS Theme Thesaurus | EARTH SCIENCE > Biosphere > Zoology > Corals > Reef Monitoring and Assessment > Benthos Analysis > Transect Monitoring |
CoRIS Theme Thesaurus | EARTH SCIENCE > Biosphere > Zoology > Corals > Reef Monitoring and Assessment > Benthos Analysis > Transect Monitoring > Belt Transect |
CoRIS Theme Thesaurus | EARTH SCIENCE > Biosphere > Zoology > Corals > Reef Monitoring and Assessment > Benthos Analysis > Transect Monitoring > Point Counts |
CoRIS Theme Thesaurus | EARTH SCIENCE > Biosphere > Zoology > Corals > Reef Monitoring and Assessment > In Situ Biological |
CoRIS Theme Thesaurus | EARTH SCIENCE > Biosphere > Zoology > Corals > Reef Monitoring and Assessment > Photographic Analysis |
CoRIS Theme Thesaurus | EARTH SCIENCE > Biosphere > Zoology > Corals > Reef Monitoring and Assessment > Rapid Assessment Studies |
CoRIS Theme Thesaurus | EARTH SCIENCE > Biosphere > Zoology > Mollusks > Tridacna |
CoRIS Theme Thesaurus | EARTH SCIENCE > Biosphere > Zoology > Sponges |
CoRIS Theme Thesaurus | EARTH SCIENCE > Oceans > Coastal Processes > Coral Reefs |
CoRIS Theme Thesaurus | EARTH SCIENCE > Oceans > Coastal Processes > Coral Reefs > Coral Reef Ecology |
CoRIS Theme Thesaurus | EARTH SCIENCE > Oceans > Coastal Processes > Coral Reefs > Coral Reef Ecology > Benthic biology |
CoRIS Theme Thesaurus | EARTH SCIENCE > Oceans > Coastal Processes > Coral Reefs > Coral Reef Ecology > Coral Cover |
CoRIS Theme Thesaurus | EARTH SCIENCE > Oceans > Coastal Processes > Coral Reefs > Coral Reef Ecology > Hard Coral Cover |
CoRIS Theme Thesaurus | EARTH SCIENCE > Oceans > Coastal Processes > Coral Reefs > Coral Reef Ecology > Octocoral Cover |
CoRIS Theme Thesaurus | EARTH SCIENCE > Oceans > Marine Biology > Coral |
CoRIS Theme Thesaurus | EARTH SCIENCE > Oceans > Marine Biology > Coral Communities |
CoRIS Theme Thesaurus | EARTH SCIENCE > Oceans > Marine Biology > Marine Invertebrates |
CoRIS Theme Thesaurus | EARTH SCIENCE > Oceans > Marine Biology > Marine Invertebrates > Macroinvertebrates |
CoRIS Theme Thesaurus | EARTH SCIENCE > Oceans > Marine Biology > Marine Plants > Seagrass |
CRCP Project | 743 |
CRCP Project | National Coral Reef Monitoring Program |
NODC DATA TYPES THESAURUS | benthic communities |
NODC DATA TYPES THESAURUS | REEF AND/OR BOTTOM REGIME - PERCENT COVER |
NODC INSTRUMENT TYPES THESAURUS | machine-learning algorithm |
NODC INSTRUMENT TYPES THESAURUS | photograph |
NODC OBSERVATION TYPES THESAURUS | benthic |
NODC OBSERVATION TYPES THESAURUS | derived products |
NODC OBSERVATION TYPES THESAURUS | visual estimate |
NODC PLATFORM NAMES THESAURUS | HI'IALAKAI |
NODC PLATFORM NAMES THESAURUS | OSCAR ELTON SETTE |
NODC PLATFORM NAMES THESAURUS | RAINIER |
NODC PROJECT NAMES THESAURUS | Coral Reef Conservation Program |
NODC PROJECT NAMES THESAURUS | CORAL REEF STUDIES |
NODC PROJECT NAMES THESAURUS | National Coral Reef Monitoring Program |
NODC SUBMITTING INSTITUTION NAMES THESAURUS | US DOC; NOAA; NMFS; Pacific Islands Fisheries Science Center; Ecosystem Sciences Division |
None | Coral Point Count |
None | Coral Reef Ecosystem Division |
None | Coral Reef Ecosystem Program |
None | CoralNet |
None | CRED |
None | CREP |
None | Ecosystem Sciences Division |
None | ESD |
None | Pacific Islands Fisheries Science Center |
None | PIFSC |
None | RAMP |
None | Reef Assessment and Monitoring Program |
None | robot-assisted annotations |
Spatial Keywords
Thesaurus | Keyword |
---|---|
UNCONTROLLED | |
CoRIS Place Thesaurus | COUNTRY/TERRITORY > United States of America > USA Minor Outlying Islands > Baker Island (00N176W0001) |
CoRIS Place Thesaurus | COUNTRY/TERRITORY > United States of America > USA Minor Outlying Islands > Howland Island (00S176W0001) |
CoRIS Place Thesaurus | COUNTRY/TERRITORY > United States of America > USA Minor Outlying Islands > Jarvis Island (00S160W0001) |
CoRIS Place Thesaurus | COUNTRY/TERRITORY > United States of America > USA Minor Outlying Islands > Johnston Atoll (16N169W0001) |
CoRIS Place Thesaurus | COUNTRY/TERRITORY > United States of America > USA Minor Outlying Islands > Kingman Reef (06N162W0001) |
CoRIS Place Thesaurus | COUNTRY/TERRITORY > United States of America > USA Minor Outlying Islands > Palmyra Atoll (05N162W0001) |
CoRIS Place Thesaurus | COUNTRY/TERRITORY > United States of America > USA Minor Outlying Islands > Wake Atoll (19N167E0001) |
CoRIS Place Thesaurus | OCEAN BASIN > Pacific Ocean > Central Pacific Ocean > Baker Island > Baker Island (00N176W0001) |
CoRIS Place Thesaurus | OCEAN BASIN > Pacific Ocean > Central Pacific Ocean > Howland Island > Howland Island (00S176W0001) |
CoRIS Place Thesaurus | OCEAN BASIN > Pacific Ocean > Central Pacific Ocean > Johnston Atoll > Johnston Atoll (16N169W0001) |
CoRIS Place Thesaurus | OCEAN BASIN > Pacific Ocean > Central Pacific Ocean > Line Islands > Jarvis Island (00S160W0001) |
CoRIS Place Thesaurus | OCEAN BASIN > Pacific Ocean > Central Pacific Ocean > Line Islands > Kingman Reef (06N162W0001) |
CoRIS Place Thesaurus | OCEAN BASIN > Pacific Ocean > Central Pacific Ocean > Line Islands > Palmyra Atoll (05N162W0001) |
CoRIS Place Thesaurus | OCEAN BASIN > Pacific Ocean > Central Pacific Ocean > Wake Atoll > Wake Atoll (19N167E0001) |
NODC Sea Area Names Thesaurus | Central Pacific Ocean |
NODC Sea Area Names Thesaurus | Equatorial Pacific Ocean |
NODC Sea Area Names Thesaurus | Pacific Remote Islands Marine National Monument |
None | Pacific Remote Island Areas |
None | PRIA |
None | PRIMNM |
Physical Location
Organization: | Pacific Islands Fisheries Science Center |
---|---|
City: | Honolulu |
State/Province: | HI |
Country: | USA |
Data Set Information
Data Set Scope Code: | Data Set |
---|---|
Data Set Type: | CSV Files |
Maintenance Frequency: | As Needed |
Data Presentation Form: | Table (digital) |
Entity Attribute Overview: |
Raw survey data includes metadata for each survey (where, when, who, area); site characteristics (depth, reef type, habitat); unique image name and individual point observations identified at three functional group levels of benthic cover: Tier 1 (e.g., hard coral, soft coral, macroalgae, turf algae, etc.), Tier 2 (e.g., Hard Coral = massive, branching, foliose, encrusting, etc.; Macroalgae = upright macroalgae, encrusting macroalgae, bluegreen macroalgae, and Halimeda, etc.), and Tier 3 (e.g., Hard Coral = Astreopora sp, Favia sp, Pocillopora, etc.; Macroalgae = Caulerpa sp, Dictyosphaeria sp, Padina sp, etc.). |
Entity Attribute Detail URL: | https://www.fisheries.noaa.gov/inport/item/36163 |
Distribution Liability: |
While every effort has been made to ensure that these data are accurate and reliable within the limits of the current state of the art, NOAA cannot assume liability for any damages caused by errors or omissions in the data, nor as a result of the failure of the data to function on a particular system. NOAA makes no warranty, expressed or implied, nor does the fact of distribution constitute such a warranty. |
Data Set Credit: | PIFSC Ecosystem Sciences Division and funded by the NOAA Coral Reef Conservation Program |
Support Roles
Data Set Credit
Date Effective From: | 2014 |
---|---|
Date Effective To: | |
Contact (Organization): | NOAA Coral Reef Conservation Program (CRCP) |
Address: |
1305 East West Highway 10th Floor Silver Spring, MD 20910-3281 |
Phone: | (301) 713-3155 |
URL: | https://coralreef.noaa.gov |
Data Steward
Date Effective From: | 2023 |
---|---|
Date Effective To: | |
Contact (Person): | Oliver, Thomas |
Address: |
1845 Wasp Blvd. Honolulu, HI 96818 USA |
Email Address: | thomas.oliver@noaa.gov |
Phone: | (808)725-5444 |
Distributor
Date Effective From: | 2016 |
---|---|
Date Effective To: | |
Contact (Organization): | NOAA National Centers for Environmental Information (NCEI) |
Email Address: | ncei.info@noaa.gov |
URL: | NCEI Contact Information |
Metadata Contact
Date Effective From: | 2021 |
---|---|
Date Effective To: | |
Contact (Person): | Luers, Lori H |
Address: |
1845 Wasp Blvd. Honolulu, HI 96818 USA |
Email Address: | lori.luers@noaa.gov |
Originator
Date Effective From: | 2014 |
---|---|
Date Effective To: | |
Contact (Organization): | Pacific Islands Fisheries Science Center (PIFSC) |
Address: |
1845 Wasp Blvd. Honolulu, HI 96818 USA |
Email Address: | pifsc.info@noaa.gov |
Phone: | 808-725-5360 |
URL: | https://www.pifsc.noaa.gov |
Business Hours: | 8:00 a.m. - 4:30 p.m. |
Point of Contact
Date Effective From: | 2023 |
---|---|
Date Effective To: | |
Contact (Person): | Oliver, Thomas |
Address: |
1845 Wasp Blvd. Honolulu, HI 96818 USA |
Email Address: | thomas.oliver@noaa.gov |
Phone: | (808)725-5444 |
Extents
Currentness Reference: | Ground Condition |
---|
Extent Group 1
Extent Description: |
Pacific Remote Island Areas (PRIA) including Baker, Howland, Jarvis, and Wake islands, Kingman Reef, and Johnston and Palmyra atolls. |
---|
Extent Group 1 / Geographic Area 1
W° Bound: | 166.5937066 | |
---|---|---|
E° Bound: | 166.657759 | |
N° Bound: | 19.32573345 | |
S° Bound: | 19.26737797 | |
Description |
Wake Island, one of the seven PRIA, is routinely surveyed as part of the Mariana Archipelago RAMP (MARAMP) missions. |
Extent Group 1 / Geographic Area 2
W° Bound: | -176.6267816 | |
---|---|---|
E° Bound: | -159.9717 | |
N° Bound: | 16.780927 | |
S° Bound: | -0.382607 | |
Description |
Phoenix (Baker and Howland) and Line Islands (Jarvis, Kingman, and Palmyra), and Johnston Atoll. These six of the seven PRIA are routinely surveyed as part of the American Samoa RAMP (ASRAMP) missions (Johnston, Baker and Howland during the first leg of ASRAMP, and Jarvis, Kingman, and Palmyra during the last leg of ASRAMP). |
Extent Group 1 / Time Frame 1
Time Frame Type: | Range |
---|---|
Start: | 2014-03-16 |
End: | 2014-03-20 |
Alternate Start As Of Info: | HA1401 |
Description: |
Surveys at Wake during MARAMP 2014 |
Extent Group 1 / Time Frame 2
Time Frame Type: | Range |
---|---|
Start: | 2015-01-26 |
End: | 2015-04-28 |
Alternate Start As Of Info: | HA1501 |
Description: |
Surveys at the islands in the PRIA during the first and last legs of ASRAMP 2015 |
Extent Group 1 / Time Frame 3
Time Frame Type: | Range |
---|---|
Start: | 2017-04-02 |
End: | 2017-04-23 |
Alternate Start As Of Info: | HA1701 |
Description: |
Surveys at Baker, Howland, Jarvis and Wake during MARAMP 2017 |
Extent Group 1 / Time Frame 4
Time Frame Type: | Range |
---|---|
Start: | 2016-05-16 |
End: | 2016-05-22 |
Alternate Start As Of Info: | SE1602 |
Description: |
Surveys at Jarvis on the Sette cruise in 2016 |
Extent Group 1 / Time Frame 5
Time Frame Type: | Range |
---|---|
Start: | 2023-03-15 |
End: | 2023-05-07 |
Alternate Start As Of Info: | RA2301 |
Extent Group 1 / Time Frame 6
Time Frame Type: | Range |
---|---|
Start: | 2018-06-10 |
End: | 2018-08-11 |
Alternate Start As Of Info: | HA1801 |
Description: |
Surveys at Baker, Howland, Jarvis, Kingman, and Palmyra during ASRAMP 2018 |
Access Information
Security Class: | Unclassified |
---|---|
Security Classification System: |
Not applicable |
Security Handling Description: |
Not applicable |
Data Access Policy: |
NOAA Ecosystem Sciences Division (ESD) Data Sharing Recommendations, version 9.0 updated August 12, 2015: ESD welcomes the opportunity to collaborate on research issues contributing to the scientific basis for better management of marine ecosystems. ESD has a very diverse set of field activities that generates large volumes of data using an array of data collection protocols. The following recommendations are for your consideration as you use this data: 1) Data analyses should take all field exigencies into account. The most effective way to do this would be active collaboration with ESD principal investigators. 2) In all presentations, product releases, or publications using data generated by ESD, proper acknowledgement of both ESD and the individuals responsible for data collection is expected. Citing the DOI (if available) is preferred, a non-DOI example is listed below. 3) If you collect or generate data for the same study areas, ESD requests that you share relevant information on complimentary data collections. 4) Those receiving data are strongly urged to inform the ESD Data Management Team of any errors and discrepancies that are discovered during the course of using these data. They are further urged to bring to the attention of the Team all problems and difficulties encountered in using these data. This information is necessary in order to improve the collections and to facilitate more efficient and economical data processing and retrieval. The users are asked to supply copies of any missing data that may be located, and to provide information as to significant subsets and special aggregations of data that are developed in using the material provided. Example citation: "This publication makes use of data products provided by the Ecosystem Sciences Division (ESD), Pacific Islands Fisheries Science Center (PIFSC), National Marine Fisheries Service (NMFS), National Oceanic and Atmospheric Administration (NOAA), with funding support from the NOAA Coral Reef Conservation Program (CRCP). The analysis and interpretations presented here are solely that of the current authors. |
Data Access Procedure: |
Data can be accessed online via the NOAA National Centers for Environmental Information (NCEI) Ocean Archive. |
Data Access Constraints: |
None |
Data Use Constraints: |
Please cite PIFSC Ecosystem Sciences Division (ESD) when using the data. Example: Ecosystem Sciences Division; Pacific Islands Fisheries Science Center (2018). National Coral Reef Monitoring Program: Benthic Cover Derived from Analysis of Benthic Images Collected during Stratified Random Surveys (StRS) across the Pacific Remote Island Areas since 2014, NOAA's National Center for Environmental Information, https://www.fisheries.noaa.gov/inport/item/36157 |
Metadata Access Constraints: |
None |
Metadata Use Constraints: |
None |
Distribution Information
Distribution 1
Download URL: | https://accession.nodc.noaa.gov/0157633 |
---|---|
Distributor: | NOAA National Centers for Environmental Information (NCEI) (2016 - Present) |
File Name: | PIFSC_H-17-02_2017_SOP_ImageAnalysis_CN.pdf |
Description: |
PIFSC Administrative Report, January 2017: Analysis of benthic survey images via CoralNet : a summary of standard operating procedures and guidelines |
File Date/Time: | 2017-01-31 00:00:00 |
File Type (Deprecated): | |
Distribution Format: | PDF - Adobe Portable Document Format |
Distribution 2
Download URL: | https://accession.nodc.noaa.gov/0159158 |
---|---|
Distributor: | NOAA National Centers for Environmental Information (NCEI) (2016 - Present) |
File Name: | MV_BIA_CNET_ANALYSIS_DATA PRIAs 2014.csv |
Description: |
Image analysis data derived from photoquadrat benthic images at stratified random sites across Wake Island in 2014 by the NOAA Coral Reef Ecosystem Program (CREP) |
File Type (Deprecated): | csv (comma-separated values) |
Distribution Format: | CSV - Comma Separated Values (Text) |
Distribution 3
Download URL: | https://accession.nodc.noaa.gov/0159165 |
---|---|
Distributor: | NOAA National Centers for Environmental Information (NCEI) (2016 - Present) |
File Name: | MV_BIA_CNET_ANALYSIS_DATA PRIAs 2015.csv |
Description: |
Image analysis data derived from photoquadrat benthic images at stratified random sites across the Pacific Remote Island Areas in 2015 by the NOAA Coral Reef Ecosystem Program (CREP) |
File Type (Deprecated): | csv (comma-separated values) |
Distribution Format: | CSV - Comma Separated Values (Text) |
Distribution 4
Download URL: | https://accession.nodc.noaa.gov/0176560 |
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Distributor: | NOAA National Centers for Environmental Information (NCEI) (2016 - Present) |
File Name: | MV_BIA_CNET_ANALYSIS_DATA PRIAs 2016.csv |
Description: |
Benthic cover data derived from analysis of photoquadrat benthic images collected from stratified random sites at Jarvis of the Pacific Remote Island Areas in May 2016 by the PIFSC Ecosystem Sciences Division (ESD) |
File Date/Time: | 2018-09-11 00:00:00 |
File Type (Deprecated): | csv (comma-separated values) |
Distribution Format: | CSV - Comma Separated Values (Text) |
Distribution 5
Download URL: | https://accession.nodc.noaa.gov/0176575 |
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Distributor: | NOAA National Centers for Environmental Information (NCEI) (2016 - Present) |
File Name: | MV_BIA_CNET_ANALYSIS_DATA PRIAs 2017.csv |
Description: |
Benthic cover data derived from analysis of photoquadrat benthic images collected from stratified random sites across the Pacific Remote Island Areas in 2017 by the PIFSC Ecosystem Sciences Division (ESD) |
File Date/Time: | 2018-09-12 00:00:00 |
File Type (Deprecated): | csv (comma-separated values) |
Distribution Format: | CSV - Comma Separated Values (Text) |
Distribution 6
Download URL: | https://accession.nodc.noaa.gov/0239473 |
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Distributor: | NOAA National Centers for Environmental Information (NCEI) (2016 - Present) |
File Name: | BENTHIC_COVER_PRIAs_StRS_2018.csv |
Description: |
Benthic cover data derived from analysis of photoquadrat benthic images collected from stratified random sites across the Pacific Remote Island Areas in 2018 by the PIFSC Ecosystem Sciences Division (ESD) |
File Date/Time: | 2021-07-08 00:00:00 |
File Type (Deprecated): | csv (comma-separated values) |
Distribution Format: | CSV - Comma Separated Values (Text) |
Distribution 7
Start Date: | 2024 |
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End Date: | Present |
Download URL: | http://accession.nodc.noaa.gov/0290543 |
Distributor: | NOAA National Centers for Environmental Information (NCEI) (2016 - Present) |
File Name: | NCRMP_BIA_CNET_STRS_PRIAS_2023 |
Description: |
Image analysis data derived from photoquadrat benthic images at NCRMP Stratified Random Survey sites across the Pacific Remote Island Areas in 2023 by the NOAA Ecosystem Science Division (ESD) |
File Date/Time: | 2024-02-15 00:00:00 |
Distribution Format: | CSV - Comma Separated Values (Text) |
URLs
URL 1
URL: | https://coralnet.ucsd.edu/ |
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URL Type: |
Online Resource
|
File Resource Format: | HTML |
Description: |
CoralNet Home Page |
URL 2
URL: | https://cnso.nova.edu/cpce/ |
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URL Type: |
Online Resource
|
File Resource Format: | HTML |
Description: |
Coral Point Count with Excel Extensions (CPCe) Home Page |
URL 3
URL: | https://www.pifsc.noaa.gov/cred/corals.php |
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URL Type: |
Online Resource
|
File Resource Format: | PHP |
URL 4
URL: | https://www.coris.noaa.gov/monitoring/ |
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URL Type: |
Online Resource
|
File Resource Format: | PHP |
Description: |
NOAA National Coral Reef Monitoring Program (NCRMP) website. |
URL 5
URL: | https://www.fisheries.noaa.gov/region/pacific-islands#science |
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Name: | PIFSC Website |
URL Type: |
Online Resource
|
Description: |
Pacific Islands Fisheries Science Center Website |
Technical Environment
Description: |
PIFSC Oracle database view: MV_BIA_CNET_ANALYSIS_DATA (CoralNet) / MV_BIA_PERC_COVER_PHOTO_STR_RW (CPCe) |
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Data Quality
Accuracy: |
Data sets derived from image analysis are highly reliable within the stipulated taxonomic context. Each time a production run is performed for a region a calibration exercise is conducted by all staff that will participate in that round of image analysis classification. Usually 100-150 photos are selected from the photos being processed as part of the production run series, or other region-relevant photo streams. Then, CPCE or CoralNet assigns 10 random fixed points per photo. Each photo analyst is asked to classify the same set of points in each of the photos used as part of the calibration exercise. The goal of the calibration exercise is to assess inter-observer variability. Inter-observer variability rates are available upon request for each production run. Handheld GPS units were used to locate random sites and mark site locations. |
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Analytical Accuracy: |
Data sets derived from image analysis include 30 benthic photographs per survey site from both the fish and benthic team surveys. The fish team conducts the photoquadrat surveys along one 30 m transect. The benthic team conducts the surveys along 2 independent 18m transects. Therefore, the site level image analysis data contain one rep (A) for fish team surveys and two reps ( A and B) for benthic team surveys. Appropriate site level benthic cover estimates are generated from all 30 images. |
Completeness Report: |
The data set derived from the image analysis is as good as the images themselves; poor images with low contrast, inappropriate white balance, or out of focus may have to be discarded. Therefore, benthic cover estimates for some sites may derive from differing number of points between sites. Although the analysis process is statistically robust to allow for differing n (points) between sites the users should be aware of this limitation.
For REA survey imagery analyzed or collected since 2013, classification is completed to the functional group/genus level (Tier 3). Only shallow water (0 to 30 meter depth range) hard-bottom habitats are surveyed. The survey sites were randomly selected using a systematic process based on available habitat and bathymetric data. Although efforts are made to include broad spatial coverage of surveys at each island, weather conditions and other environmental constraints may have prevented the team from surveying exposed reef areas.
There are several missions in which the benthic images collected by the program are in the process of or have not yet been analyzed. In some cases, the benthic imagery sets are not planned to be analyzed due to funding and resource constraints. Contact ESD at nmfs.pic.credinfo@noaa.gov for more information. |
Conceptual Consistency: |
The same method of image analysis was used at each surveyed site. |
Quality Control Procedures Employed: |
Quality control is enforced by means of point-to-point, inter-observer calibration exercises that are conducted before each image analysis production series. Training modules and standard operating procedures have also been developed and documented to ensure improved performance and consistent imagery analysis results produced by multiple analysts. |
Data Management
Have Resources for Management of these Data Been Identified?: | Yes |
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Approximate Percentage of Budget for these Data Devoted to Data Management: | Unknown |
Do these Data Comply with the Data Access Directive?: | Yes |
Is Access to the Data Limited Based on an Approved Waiver?: | No |
Approximate Delay Between Data Collection and Dissemination: | Unknown |
Actual or Planned Long-Term Data Archive Location: | NCEI-MD |
Approximate Delay Between Data Collection and Archiving: | Unknown |
How Will the Data Be Protected from Accidental or Malicious Modification or Deletion Prior to Receipt by the Archive?: |
NOAA IRC and NOAA Fisheries ITS resources and assets. |
Lineage
Lineage Statement: |
The stratified random sampling (StRS) design and benthic photoquadrat survey methodology, employed by the PIFSC Ecosystem Sciences Division (ESD) since 2013. Benthic imagery is collected at stratified random sites. The imagery is analyzed using Coral Point Count with Excel Extentions (CPCe) or CoralNet to derive benthic cover values. |
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Sources
Lozada-Misa P, Schumacher BD, Vargas-Angel B. 2017. Analysis of benthic survey images via CoralNet : a summary of standard operating procedures and guidelines. Pacific Islands Fisheries Science Center, PIFSC Administrative Report, H-17-02, 169 p. https://doi.org/10.7289/V5/AR-PIFSC-H-17-02.
Contact Type: | Organization |
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Contact Name: | Pacific Islands Fisheries Science Center, PIFSC |
Publish Date: | 2017-01-31 |
Citation URL: | https://repository.library.noaa.gov/view/noaa/14205 |
Citation URL Name: | NOAA Institutional Repository |
Source Contribution: |
The published benthic image analysis SOP using CoralNet. |
Process Steps
Process Step 1
Description: |
A stratified random sampling (StRS) design was employed to survey the coral reef ecosystems through the U.S. Pacific regions. The survey domain encompassed the majority of the mapped area of reef and hard bottom habitats. The stratification scheme included island, reef zone, and depth in all regions, as well as habitat structure type in the Main Hawaiian Islands. The habitat structure types included simple, complex, and coral-rich. Depth categories of shallow (0-6 m), mid (> 6-18m) and deep (>18-30 m) were also incorporated into the stratification scheme. Allocation of sampling effort was proportional to strata area. Sites were randomly selected within each stratum. A geographic information system (GIS) and digital spatial databases of benthic habitats (NOAA National Centers for Coastal Ocean Science NCCOS), reef zones (IKONOS satellite imagery, NDGC 1998) bathymetry (NDGC 1998, CREP benthic mapping data), and marine reserve boundaries (NOAA) were used to facilitate spatial delineation of the sampling survey domain, strata, and sample units. Map resolution was such that the survey domain could be overlain by a grid using a GIS with individual cells of size 50 m by 50 m in area. A two-stage sampling scheme following Cochran (1977) was employed to control for spatial variation in population parameters at scales smaller than the grid cell minimum mapping unit (2,500 m2). Grid cells containing hard-bottom reef habitats were designated as primary sample units (referred to as sites). |
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Process Contact: | Oliver, Thomas |
Phone (Voice): | (808)725-5444 |
Email Address: | thomas.oliver@noaa.gov |
Source: | Lozada-Misa P, Schumacher BD, Vargas-Angel B. 2017. Analysis of benthic survey images via CoralNet : a summary of standard operating procedures and guidelines. Pacific Islands Fisheries Science Center, PIFSC Administrative Report, H-17-02, 169 p. https://doi.org/10.7289/V5/AR-PIFSC-H-17-02. |
Process Step 2
Description: |
Photoquadrat surveys were conducted by both the fish and benthic teams. Still photographs were collected to record the benthic community composition at predetermined points along the transect lines with a high-resolution digital camera mounted on a pole. Overall, 30 photoquadrat images are collected at each site. The fish team conducts these surveys along one 30 meter transect that spans the length of two stationary point count (SPC) cylinders used to assess fish abundance (30 images total, Rep A). Benthic substrate photos are taken at one meter intervals along the right hand side of the 30 m transect line. The benthic team conducts the photoquadrat surveys along two, independent 18 meter transects. Photos of the benthic substrate are taken at one meter intervals starting at meter 1, along the left hand side of each 18 meter transect (15 images/transect; 30 images total; Rep A and B). |
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Process Contact: | Oliver, Thomas |
Phone (Voice): | (808)725-5444 |
Email Address: | thomas.oliver@noaa.gov |
Source: | Lozada-Misa P, Schumacher BD, Vargas-Angel B. 2017. Analysis of benthic survey images via CoralNet : a summary of standard operating procedures and guidelines. Pacific Islands Fisheries Science Center, PIFSC Administrative Report, H-17-02, 169 p. https://doi.org/10.7289/V5/AR-PIFSC-H-17-02. |
Process Step 3
Description: |
The benthic photoquadrat imagery that are collected as part of the Rapid Ecological Assessment (REA) surveys for coral and fish are analyzed by using Coral Point Count with Excel extensions (CPCe; Kohler and Gill 2006) software through 2014 or by using the web-based annotation tool CoralNet (Beijbom et al. 2016) from 2015 to present. CPCe or CoralNet assigns 10 random points per photo and the benthic elements falling directly underneath each point is identified to three functional group levels: Tier 1 (e.g. hard coral, soft coral, macroalgae, turf algae, etc.), Tier 2 (e.g. coral by morphology = massive hard coral, branching hard coral, etc.; Macroalga = upright macroalgae, encrusting macroalgae, bluegreen macroalgae, and Halimeda, etc.), and Tier 3 (e.g. Coral by genus and morphology; Macroalga by genus or grouped genera). The detailed list of each functional group level or tier is included in the benthic image analysis classification scheme. |
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Process Contact: | Oliver, Thomas |
Phone (Voice): | (808)725-5444 |
Email Address: | thomas.oliver@noaa.gov |
Source: | Lozada-Misa P, Schumacher BD, Vargas-Angel B. 2017. Analysis of benthic survey images via CoralNet : a summary of standard operating procedures and guidelines. Pacific Islands Fisheries Science Center, PIFSC Administrative Report, H-17-02, 169 p. https://doi.org/10.7289/V5/AR-PIFSC-H-17-02. |
Process Step 4
Description: |
Raw survey data includes unique image name and individual point observations identified at three functional group levels of benthic cover with the corresponding physical data which reflect the description of the site. The physical data for all records includes the following: region, island, site, date (day, month, year), latitude (dd), longitude (dd), reef zone, habitat type, depth category, minimum depth and maximum depth. |
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Process Contact: | Oliver, Thomas |
Phone (Voice): | (808)725-5444 |
Email Address: | thomas.oliver@noaa.gov |
Source: | Lozada-Misa P, Schumacher BD, Vargas-Angel B. 2017. Analysis of benthic survey images via CoralNet : a summary of standard operating procedures and guidelines. Pacific Islands Fisheries Science Center, PIFSC Administrative Report, H-17-02, 169 p. https://doi.org/10.7289/V5/AR-PIFSC-H-17-02. |
Child Items
Rubric scores updated every 15m
Type | Title | |
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Entity | Benthic Image analysis classification scheme | |
Entity | NCRMP_BIA_CNET_StRS_DataDictionary_PRIAS_2023 |
Related Items
Catalog Details
Catalog Item ID: | 36157 |
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GUID: | gov.noaa.nmfs.inport:36157 |
Metadata Record Created By: | Troy T Kanemura |
Metadata Record Created: | 2016-12-30 17:23+0000 |
Metadata Record Last Modified By: | SysAdmin InPortAdmin |
Metadata Record Last Modified: | 2024-10-03 18:16+0000 |
Metadata Record Published: | 2024-04-02 |
Owner Org: | PIFSC |
Metadata Publication Status: | Published Externally |
Do Not Publish?: | N |
Metadata Last Review Date: | 2024-03-13 |
Metadata Review Frequency: | 3 Years |
Metadata Next Review Date: | 2027-03-13 |