Assessing cryptic reef diversity of colonizing marine invertebrates using autonomous reef monitoring structures (ARMS) deployed at coral reef sites in Timor-Leste from 2012-10-15 to 2014-10-09 (NCEI Accession 0169338)


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            title:  Assessing cryptic reef diversity of colonizing marine invertebrates using autonomous reef monitoring structures (ARMS) deployed at coral reef sites in Timor-Leste from 2012-10-15 to 2014-10-09 (NCEI Accession 0169338)
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        abstract:  The data described here, including photographs, genetic sequences, and specimen information, were collected by the NOAA Coral Reef Ecosystem Program (CREP) from Autonomous Reef Monitoring Structures, or ARMS, moored for two years at fixed climate survey sites located on hard bottom shallow water (< 15 m) habitats in Timor-Leste. Climate sites were established in Timor-Leste in October 2012 to establish ecological baselines for climate change by measuring multiple features of the coral reef environment (in addition to the data described herein) over time. Three ARMS units were typically deployed by SCUBA divers at each survey site. Each ARMS unit, constructed in-house by CREP, consisted of 23 cm x 23 cm gray, type 1 PVC plates stacked in alternating series of 4 open and 4 obstructed layers and attached to a base plate of 35 cm x 45 cm, which was affixed to the reef. Upon recovery, each ARMS unit was encapsulated, brought to the surface, and disassembled and processed. Disassembled plates were photographed to document recruited sessile organisms, scraped clean and preserved in 95% ethanol for DNA processing. Recruited motile organisms were sieved into 3 size fractions: 2 mm, 500 µm, and 100 µm. The 500 µm and 100 µm fractions were bulked and also preserved in 95% ethanol for DNA processing. The 2 mm fraction was sorted into morphospecies, photographed, and identified to the lowest taxanomic identification possible. The plate photographs, sequences generated from the DNA metabarcoding of the scrapings and the 500- and 100-µm fractions, specimen photographs, and specimen identifications are included in the ARMS dataset. ARMS are used by CREP to assess and monitor cryptic reef diversity across the Pacific. Developed in collaboration with the Census of Marine Life (CoML) Census of Coral Reef Ecosystems (CReefs), ARMS are designed to mimic the structural complexity of a reef and attract/collect colonizing marine invertebrates. The key innovation of the ARMS method is biodiversity is sampled over precisely the same surface area in the exact same manner. Thus, the use of ARMS is a systematic, consistent, and comparable method for monitoring the marine cryptobiota community over time.
        purpose:  In 2011, NOAA and the United States Agency for International Development (USAID) Timor-Leste Mission formed a 5-year bi-lateral partnership agreement from 2012 to 2016, in support of the Government of Timor-Leste—particularly the Ministry of Agriculture and Fisheries (MAF)—by addressing significant information gaps in their nearshore marine ecosystems. Specifically, MAF asked NOAA to address the following questions: 1.Where are the nearshore marine resources? 2.What are the nearshore marine resources? 3.How are they changing over time and what threats are potentially causing these changes? 4.What approaches are needed to manage and conserve the nearshore marine resources? With financial support from USAID and in-kind support from the NOAA Coral Reef Conservation Program (CRCP), the NOAA Coral Reef Ecosystem Program (CREP) conducted baseline ecosystem assessment surveys to inform ecosystem-based management planning in Timor-Leste. The primary activities conducted by NOAA to answer these questions included: 1.satellite mapping of nearshore habitats, 2.conducting coral reef ecosystem assessments, 3.establishing ecological baselines for climate change, and 4.building management capacity by developing a spatial data framework The biodiversity data described herein resulted from the third activity to establish ecological baselines for climate change. As the survey methods described and used herein are also implemented as part of the NOAA Pacific Reef Assessment and Monitoring Program (Pacific RAMP)—an ecosystem-scale interdisciplinary coral reef monitoring program—the data from Timor-Leste are directly comparable to and informed by data collected by NOAA-CREP throughout the U.S. Pacific Islands and Territories. Furthermore, the methods used for establishing ecological baselines for climate change in Timor-Leste (Chapter 4) are being adopted and implemented at 21 sites across eight member states of the Intergovernmental Oceanographic Commission within the Western Pacific (WESTPAC) region. These data provide a foundation for comparing the ecological baselines under current and future stresses associated with climate change in the Coral Triangle region.
        credit:  Related Funding Agency: US DOS; United States Agency for International Development
        credit:  Related Funding Agency: US DOC; NOAA; NOS; Coral Reef Conservation Program
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            keyword:  EARTH SCIENCE > BIOLOGICAL CLASSIFICATION > ANIMALS/INVERTEBRATES
            keyword:  EARTH SCIENCE > SPECTRAL/ENGINEERING > VISIBLE WAVELENGTHS > VISIBLE IMAGERY
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            keyword:  ARMS
            keyword:  Autonomous Reef Monitoring Structure
            keyword:  Biodiversity
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            keyword:  Agencourt AMPure beads
            keyword:  Agilent 2100 BioAnalyzer
            keyword:  AutoGenprep 965 (Autogen)
            keyword:  Biotum AccuClear Ultra High Sensitivity Quantification Kit
            keyword:  Kappa Systems Hyper-Prep sample kit
            keyword:  MO-Bio PowerMax Soil Extraction Kit
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            keyword:  COUNTRY/TERRITORY > Democratic Republic of Timor-Leste (East Timor) (09S126E0001)
            keyword:  OCEAN BASIN > Indian Ocean > Timor Sea > Democratic Republic of Timor-Leste (East Timor) (09S126E0001)
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            keyword:  OCEAN > INDIAN OCEAN
            keyword:  OCEAN > PACIFIC OCEAN > WESTERN PACIFIC OCEAN > SOUTH CHINA AND EASTERN ARCHIPELAGIC SEAS
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            keyword:  Atauro
            keyword:  Baucau
            keyword:  Bobonaro
            keyword:  Dili
            keyword:  Lautem
            keyword:  Manatuto
            keyword:  Timor-Leste
            keyword:  Vila MPA
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                title:  Provider Place Names
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            otherConstraints:  Cite as: Coral Reef Ecosystem Program; Pacific Islands Fisheries Science Center (2018). Assessing cryptic reef diversity of colonizing marine invertebrates using autonomous reef monitoring structures (ARMS) deployed at coral reef sites in Timor-Leste from 2012-10-15 to 2014-10-09 (NCEI Accession 0169338). [indicate subset used]. NOAA National Centers for Environmental Information. Dataset. https://accession.nodc.noaa.gov/0169338. Accessed [date].
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                title:  Assessing cryptic reef diversity of colonizing marine invertebrates using Autonomous Reef Monitoring Structures (ARMS) deployed at coral reef sites in Timor-Leste from 2012 to 2014
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                    date:  2017
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                    positionName: (unknown)
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                            linkage: https://inport.nmfs.noaa.gov/inport/item/46159
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                            name:  Assessing cryptic reef diversity of colonizing marine invertebrates using Autonomous Reef Monitoring Structures (ARMS) deployed at coral reef sites in Timor-Leste from 2012 to 2014
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                title:  Interdisciplinary baseline ecosystem assessment surveys to Inform ecosystem-based management planning in Timor-Leste : b final report
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                    date:  2017
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                    code: https://doi.org/10.7289/V5/SP-PIFSC-17-002
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                            linkage: ftp://ftp.library.noaa.gov/noaa_documents.lib/NMFS/PIFSC/PIFSC_special_publication/SP-17-002.pdf
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                    individualName:  Annette Desrochers
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                    role:  (CI_RoleCode) author
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                    individualName:  Kaylyn McCoy
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                    individualName:  Megan Moews-Asher
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                    individualName:  Thomas Oliver
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                    individualName:  Max Sudnovsky
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                    individualName:  Bernardo Vargas-Angel
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                    beginPosition:  2012-10-15
                    endPosition:  2014-10-09
        supplementalInformation:  Submission Package ID: 971D73
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                  Anchor:  https://www.nodc.noaa.gov/cgi-bin/OAS/prd/institution/details/1730 DOC/NOAA/NESDIS/NCEI > National Centers for Environmental Information, NESDIS, NOAA, U.S. Department of Commerce
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                        deliveryPoint:  Federal Building 151 Patton Avenue
                        city:  Asheville
                        administrativeArea:  NC
                        postalCode:  28801-5001
                        country:  USA
                        electronicMailAddress:  NCEI.Info@noaa.gov
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                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://accession.nodc.noaa.gov/0169338
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                    linkage: https://accession.nodc.noaa.gov/oas/169338
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                description:  NCEI Accession 0169338 v1.1 was published.
                dateTime:
                  DateTime:  2018-01-19T04:34:43Z
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                        title:  NCEI Accession 0169338 v1.1
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                                    linkage: https://accession.nodc.noaa.gov/0169338/1.1
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                                    name:  NCEI Accession 0169338 v1.1
                                    description:  NCEI Accession 0169338 v1.1
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    dataQualityInfo:  (DQ_DataQuality)
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                description:  Parameter or Variable: images (measured); Units: unitless; Observation Category: laboratory analysis; Sampling Instrument: camera; Sampling and Analyzing Method: Images of the ARMS plates, specimens from the 2-mm size fraction, and from the field during deployment and recovery of the ARMS units..
            processStep:  (LE_ProcessStep)
                description:  Parameter or Variable: SPECIES IDENTIFICATION - COUNT (measured); Units: count; Observation Category: laboratory analysis; Sampling Instrument: visual observation; Sampling and Analyzing Method: Count of organisms from the 2-mm size fraction.
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                description:  Parameter or Variable: SPECIES IDENTIFICATION (calculated); Units: unitless; Observation Category: laboratory analysis; Sampling Instrument: metabarcoding; Sampling and Analyzing Method: Sequences generated during the DNA metabarcoding of the 500- and 100-µm fractions and scrapings..
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    acquisitionInformation:  (MI_AcquisitionInformation)
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            type:  camera
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                code:  visual observation
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