http://lod.bco-dmo.org/id/dataset/999444 eng; USA utf8 dataset Highest level of data collection, from a common set of sensors or instrumentation, usually within the same research project Biological and Chemical Oceanography Data Management Office (BCO-DMO) Unavailable 508-289-2009 WHOI MS#36 Woods Hole MA 02543 USA info@bco-dmo.org http://www.bco-dmo.org Monday - Friday 8:00am - 5:00pm For questions regarding this resource, please contact BCO-DMO via the email address provided. pointOfContact 2026-05-26 ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data ISO 19115-2:2009(E) Coral structural complexity metrics for Pocillopora spp. colonies from a field manipulation experiment using structure-from-motion photogrammetry in Mo'orea, French Polynesia from 2019 to 2021 2026-05-26 publication 2026-05-26 revision BCO-DMO Linked Data URI 2026-05-26 creation http://lod.bco-dmo.org/id/dataset/999444 Adrian Stier University of California-Santa Barbara principalInvestigator Craig Osenberg University of Georgia principalInvestigator Biological and Chemical Oceanography Data Management Office (BCO-DMO) Unavailable 508-289-2009 WHOI MS#36 Woods Hole MA 02543 USA info@bco-dmo.org http://www.bco-dmo.org Monday - Friday 8:00am - 5:00pm For questions regarding this resource, please contact BCO-DMO via the email address provided. publisher Cite this dataset as: Stier, A., Osenberg, C. (2026) Coral structural complexity metrics for Pocillopora spp. colonies from a field manipulation experiment using structure-from-motion photogrammetry in Mo'orea, French Polynesia from 2019 to 2021. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2026-05-26 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/999444 [access date] Dataset Description: &lt;p&gt;See the &quot;Related Datasets&quot; section for more data from this experiment and data from other experiments and surveys in this study.&amp;nbsp;&lt;/p&gt; &lt;p&gt;In particular, see closely related bco-dmo dataset https://www.bco-dmo.org/dataset/999432 which has CAFI community data and genetic metadata from this same Maatea Size Experiment.&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Study Description (describes this and related datasets):&lt;/strong&gt;&lt;/p&gt; &lt;p&gt;Two field experiments and one observational survey were performed investigating how cryptic invertebrate communities (CAFI - Coral Associated Fauna and Invertebrates) interact with and influence coral reef ecosystems in Mo'orea, French Polynesia (2019-2021). The research addresses how spatial configuration of coral habitat affects CAFI community assembly and the reciprocal effects of CAFI on coral health and growth.&lt;br /&gt; &lt;br /&gt; The Maatea Size Experiment (the focus of this dataset) examined how coral colony size affects CAFI community composition and coral physiology using 60 Pocillopora colonies spanning a natural size gradient. The MRB Amount Experiment tested how coral habitat density affects CAFI colonization and community assembly using 54 Pocillopora colonies deployed in low, medium, and high density treatments on an experimental grid. The Mo'orea Survey characterized natural CAFI communities and their relationship to coral characteristics across 114 Pocillopora colonies at multiple reef sites around the island.&lt;/p&gt; &lt;p&gt;Data include: CAFI taxonomic identification and abundance measurements (17,073 individual organism records representing multiple phyla including Arthropoda, Mollusca, and Annelida), coral three-dimensional photogrammetry measurements (surface area, volume, height), coral physiology measurements (protein content, carbohydrate content, zooxanthellae density), fish community surveys, genetic sample metadata, and experimental treatment information. All measurements span multiple time points including pre-experiment baseline (December 2019) and post-experiment final sampling (May 2021).&lt;/p&gt; &lt;p&gt;Data were collected by SCUBA at backreef sites 2-10 meters depth. CAFI were extracted from coral colonies using anesthetic seawater, identified to the lowest taxonomic level possible, measured for body size, and counted. Coral morphometrics were quantified using underwater photogrammetry and Agisoft Metashape software. Coral tissue samples were analyzed for protein and carbohydrate content using standard biochemical assays, and zooxanthellae density was quantified using hemocytometer counts.&lt;br /&gt; &lt;br /&gt; &lt;strong&gt;Study Experimental Design:&lt;/strong&gt;&lt;br /&gt; Two experiments and an observational survey were conducted: (1) Maatea Size Experiment examining effects of coral colony size on CAFI communities using 60 Pocillopora colonies spanning a natural size gradient, (2) MRB Amount Experiment testing effects of coral habitat density on CAFI colonization using 54 Pocillopora colonies in low, medium, and high density treatments arranged on a 9x6 experimental grid, and (3) Mo'orea Survey characterizing natural CAFI communities across 114 Pocillopora colonies at multiple reef sites.&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Project location description:&lt;/strong&gt;&lt;/p&gt; &lt;p&gt;Mo'orea Island, French Polynesia. Data were collected at three primary study sites on backreef habitats at 2-10 meter depth: (1) Maatea site on the south shore east of Atiha Pass (17.60°S, 149.81°W), (2) MRB (Maharepa Research Base) site on the north shore near Maharepa township (17.48°S, 149.81°W), and (3) multiple survey sites distributed around the island including northern and western shores. All sites were located 30-300 meters from the reef crest in sand and coral rubble habitats dominated by Pocillopora corals. Field work was conducted from the UC Berkeley Richard B. Gump South Pacific Research Station.&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Acronyms:&lt;/strong&gt;&lt;/p&gt; &lt;p&gt;MRB = Maharepa Research Base&lt;br /&gt; CAFI = Coral Associated Fauna and Invertebrates&lt;br /&gt; AFDW = Ash-Free Dry Weight&lt;br /&gt; WoRMS = World Register of Marine Species (marinespecies.org)&lt;br /&gt; AphiaID = Aphia ID (ID for taxonomic names at WoRMS)&lt;/p&gt; Methods and Sampling: &lt;p&gt;&lt;strong&gt;Study Design:&lt;/strong&gt;&lt;/p&gt; &lt;p&gt;A 3 x 2 factorial experiment was conducted at the Maatea reef site on the north shore of Mo'orea, French Polynesia (approximately 17°29'S, 149°50'W). Sixty Pocillopora spp. colonies were selected and categorized into three size classes based on branching morphology (thin, medium, thick). Within each class, colonies were randomly assigned to either a CAFI removal treatment (n=10 per class) or control treatment with CAFI present (n=10 per class).&lt;/p&gt; &lt;p&gt;&lt;strong&gt;CAFI Sampling:&lt;/strong&gt;&lt;/p&gt; &lt;p&gt;Colonies were sampled at two time points: December 2019 (~6 months) and May 2021 (~18 months). Colonies were carefully extracted from the reef and transported in sealed containers to a field laboratory within 2 hours. Colonies were broken open systematically to expose internal branches and crevices. All visible invertebrates and resident fishes were collected, preserved in 95% ethanol, and identified to the finest possible taxonomic resolution using stereomicroscopes (Nikon SMZ745T) and taxonomic keys. Multiple expert taxonomists verified identifications for difficult groups (crustaceans, molluscs, polychaetes).&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Fish Surveys:&lt;/strong&gt;&lt;/p&gt; &lt;p&gt;Prior to colony extraction, visual fish surveys were conducted within a 1-meter radius around each coral colony. All fishes were identified to species, counted, and categorized by size class and residency behavior.&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Physiological Sampling:&lt;/strong&gt;&lt;/p&gt; &lt;p&gt;Tissue samples (~5 cm2) were collected from each colony prior to destructive sampling and frozen at -20°C. Samples were analyzed for protein content (Bradford assay at 595 nm), carbohydrate content (anthrone method at 630 nm), zooxanthellae density (hemocytometer cell counts), and ash-free dry weight (combustion at 450°C for 4 hours). All values normalized to coral surface area determined by the wax-dipping method.&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Genetic Sampling:&lt;/strong&gt;&lt;/p&gt; &lt;p&gt;Tissue samples were collected and preserved in 95% ethanol for genetic analysis. DNA extractions were attempted for Pocillopora haplotype identification.&amp;nbsp; Related dataset&amp;nbsp;https://www.bco-dmo.org/dataset/999432 includes supplemental&amp;nbsp;genetic samples metadata detailing which samples were collected and their intended use, but the sequencing results were not usable and no genetic data were included.&lt;/p&gt; Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1851510 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1851510 Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1851032 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1851032 onGoing Adrian Stier University of California-Santa Barbara 805-893-5467 Ecology, Evolution, and Marine Biology University of California, Santa Barbara Santa Barbara CA 93106-9620 United States astier@ucsb.edu pointOfContact Craig Osenberg University of Georgia 706-713 2051 Odum School of Ecology University of Georgia Athens GA 30602 USA osenberg@uga.edu pointOfContact asNeeded Dataset Version: 1 Unknown calipers GPS unit Hemocytometer (Neubauer chamber) Dissecting microscope with calibrated eyepiece reticle Refrigeration and freezer storage Analytical balance SCUBA diving equipment (regulators, BCDs, tanks) Spectrophotometer Canon EOS camera in underwater housing theme None, User defined calipers Global Positioning System Receiver Hemocytometer Microscope - Optical no_bcodmo_term scale or balance Self-Contained Underwater Breathing Apparatus Spectrophotometer Underwater Camera instrument BCO-DMO Standard Instruments otherRestrictions otherRestrictions Access Constraints: none. Use Constraints: Please follow guidelines at: http://www.bco-dmo.org/terms-use Distribution liability: Under no circumstances shall BCO-DMO be liable for any direct, incidental, special, consequential, indirect, or punitive damages that result from the use of, or the inability to use, the materials in this data submission. If you are dissatisfied with any materials in this data submission your sole and exclusive remedy is to discontinue use. Collaborative Research: Dynamic Marine Landscapes: Feedbacks and spatial patterns of corals and their associated fishes https://osprey.bco-dmo.org/project/817984 Collaborative Research: Dynamic Marine Landscapes: Feedbacks and spatial patterns of corals and their associated fishes <p><em>NSF Award Abstract:</em><br /> Nearshore habitats such as coral reefs, seagrass beds, and oyster reefs perform a number of services including reducing storm protection, nutrient cycling, and water purification. Many of these habitats have experienced widespread loss and fragmentation due to human activities. This loss threatens the services these ecosystems provide to humans as well as the extraordinary biodiversity of fishes and invertebrates that live within them. However, there is still a lot that is unknown about these habitats which makes it difficult to understand the likely impacts of habitat loss or the benefits of habitat restoration. This research focuses on habitat loss and fragmentation in coral reef ecosystems. The focus of the research is to understand how habitat loss and fragmentation affect the biodiversity of fish and crustaceans on coral reefs in the South Pacific. Because many creatures living within the coral offer important benefits to the coral such as defense from coral predators and removal of sediment, this research also seeks to better understand how changes in the biodiversity and abundance of fish and invertebrates associated with corals, affect the capacity of corals to withstand future impacts, such as sedimentation and outbreaks of coral-eating seastars. Understanding whether habitat loss alters the capacity of corals to withstand stress in an increasingly stressful world is critical to devise effective strategies to manage and protect coral reefs and the many services they provide to society. Furthermore, this research facilitates restoration efforts, enhance the scientific workforce through mentorship of a diverse group of undergraduates, graduate students and a postdoctoral fellow, and engage the public in both French Polynesia and the United States in scientific research and knowledge.</p> <p>Many marine systems are characterized by habitat-forming foundation species, which harbor a diversity of occupants, and whose dynamics are thought to drive resilience of entire ecosystems As a result, there is widespread concern over the ongoing loss and fragmentation of biogenic habitats such as seagrass beds, oyster reefs, kelp forests, and coral reefs. Yet, without a more complete understanding of marine landscape ecology, we struggle to predict how the degradation or restoration of habitat alters ecosystem dynamics, function, and resilience. Most research in marine landscape ecology has focused on spatial patterns of occupant abundance and biodiversity; however, the causes and consequences of these patterns are rarely explored. An important but understudied consequence of variation in occupant density is that it may alter how occupants interact with their biogenic habitat. Because occupants can benefit biogenic habitat or harm biogenic habitat, changes in occupant density can affect habitat growth and survival. Consequently, habitat-driven variation in occupant density should feed back to alter habitat dynamics and the spatial patterning of the habitat. In summary, we are limited in our understanding of why patterns in landscape ecology exist, how these patterns alter the population dynamics and spatial patterns of the occupants as well as their habitat, and the implications of habitat degradation or restoration. The central objective of this proposal is to examine the causes and consequences of the nonlinear relationship between occupant abundance and the amount of biogenic habitat. Specifically, the investigators: (i) examine the habitat-based mechanisms that produce spatial variation in occupant density; (ii) quantify how habitat-driven occupant density feeds back to alter habitat growth and survival; and (iii) apply this knowledge to understand how bidirectional habitat-occupant interactions affect the long-term dynamics, create novel spatial patterns, and drive variation in how systems respond to and recover from disturbances.</p> <p>This award reflects NSF's statutory mission and has been deemed worthy of support through evaluation using the Foundation's intellectual merit and broader impacts review criteria.</p> CAFI-Coral feedbacks largerWorkCitation project eng; USA oceans -149.82787 -149.82787 -17.60231 -17.60231 2019-06-01 2021-05-31 Mo’orea, French Polynesia (17° 29.433&#039;S, 149° 49.579&#039;W) 0 BCO-DMO catalogue of parameters from Coral structural complexity metrics for Pocillopora spp. colonies from a field manipulation experiment using structure-from-motion photogrammetry in Mo'orea, French Polynesia from 2019 to 2021 Biological and Chemical Oceanography Data Management Office (BCO-DMO) Unavailable 508-289-2009 WHOI MS#36 Woods Hole MA 02543 USA info@bco-dmo.org http://www.bco-dmo.org Monday - Friday 8:00am - 5:00pm For questions regarding this resource, please contact BCO-DMO via the email address provided. pointOfContact GB/NERC/BODC > British Oceanographic Data Centre, Natural Environment Research Council, United Kingdom Biological and Chemical Oceanography Data Management Office (BCO-DMO) Unavailable 508-289-2009 WHOI MS#36 Woods Hole MA 02543 USA info@bco-dmo.org http://www.bco-dmo.org Monday - Friday 8:00am - 5:00pm For questions regarding this resource, please contact BCO-DMO via the email address provided. pointOfContact https://osprey.bco-dmo.org/dataset/999444/data/download download onLine dataset &lt;p&gt;&lt;strong&gt;Study Design:&lt;/strong&gt;&lt;/p&gt; &lt;p&gt;A 3 x 2 factorial experiment was conducted at the Maatea reef site on the north shore of Mo'orea, French Polynesia (approximately 17°29'S, 149°50'W). Sixty Pocillopora spp. colonies were selected and categorized into three size classes based on branching morphology (thin, medium, thick). Within each class, colonies were randomly assigned to either a CAFI removal treatment (n=10 per class) or control treatment with CAFI present (n=10 per class).&lt;/p&gt; &lt;p&gt;&lt;strong&gt;CAFI Sampling:&lt;/strong&gt;&lt;/p&gt; &lt;p&gt;Colonies were sampled at two time points: December 2019 (~6 months) and May 2021 (~18 months). Colonies were carefully extracted from the reef and transported in sealed containers to a field laboratory within 2 hours. Colonies were broken open systematically to expose internal branches and crevices. All visible invertebrates and resident fishes were collected, preserved in 95% ethanol, and identified to the finest possible taxonomic resolution using stereomicroscopes (Nikon SMZ745T) and taxonomic keys. Multiple expert taxonomists verified identifications for difficult groups (crustaceans, molluscs, polychaetes).&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Fish Surveys:&lt;/strong&gt;&lt;/p&gt; &lt;p&gt;Prior to colony extraction, visual fish surveys were conducted within a 1-meter radius around each coral colony. All fishes were identified to species, counted, and categorized by size class and residency behavior.&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Physiological Sampling:&lt;/strong&gt;&lt;/p&gt; &lt;p&gt;Tissue samples (~5 cm2) were collected from each colony prior to destructive sampling and frozen at -20°C. Samples were analyzed for protein content (Bradford assay at 595 nm), carbohydrate content (anthrone method at 630 nm), zooxanthellae density (hemocytometer cell counts), and ash-free dry weight (combustion at 450°C for 4 hours). All values normalized to coral surface area determined by the wax-dipping method.&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Genetic Sampling:&lt;/strong&gt;&lt;/p&gt; &lt;p&gt;Tissue samples were collected and preserved in 95% ethanol for genetic analysis. DNA extractions were attempted for Pocillopora haplotype identification.&amp;nbsp; Related dataset&amp;nbsp;https://www.bco-dmo.org/dataset/999432 includes supplemental&amp;nbsp;genetic samples metadata detailing which samples were collected and their intended use, but the sequencing results were not usable and no genetic data were included.&lt;/p&gt; Specified by the Principal Investigator(s) &lt;p&gt;DATA CLEANING AND STANDARDIZATION:&lt;br /&gt; Raw field data were transcribed from underwater data sheets and entered into digital spreadsheets. Taxonomic names were standardized using the World Register of Marine Species (WoRMS) database (accessed 2021-2023). WoRMS Aphia IDs were added for all taxa to ensure consistency and facilitate data integration. Size measurements recorded as text categories (&quot;&amp;lt;5&quot;, &quot;&amp;lt;1&quot;, &quot;L&quot;, &quot;M&quot;, &quot;S&quot;) were retained in original field data columns, with separate numeric-only columns created for quantitative analyses (recorded as NA when non-numeric).&lt;/p&gt; &lt;p&gt;PHOTOGRAMMETRY PROCESSING:&lt;br /&gt; Photogrammetry data were processed using Agisoft Metashape Professional (versions 1.6-1.7). Processing workflow: (1) photo alignment with high accuracy settings, (2) dense point cloud generation, (3) mesh construction at 200,000 face count for standardization, (4) texture mapping, (5) measurement extraction using polygon selection tools and volume measurement functions. Models were quality-checked for reconstruction artifacts, and problematic models were flagged in metadata. Scale bar measurements were used to verify spatial accuracy of reconstructions.&lt;/p&gt; &lt;p&gt;PHYSIOLOGICAL DATA PROCESSING:&lt;br /&gt; Protein and carbohydrate concentrations were calculated from spectrophotometer absorbance values using standard curves generated from bovine serum albumin (protein) and glucose (carbohydrates) standards. Zooxanthellae densities were calculated from hemocytometer counts accounting for dilution factors and homogenate volumes. All measurements were normalized to coral surface area (determined from photogrammetry) and expressed per square centimeter.&lt;/p&gt; &lt;p&gt;STATISTICAL PROCESSING:&lt;br /&gt; Data processing and quality control conducted in R (version 4.0+). Processing scripts documented data cleaning steps, outlier detection, and creation of derived variables. Missing data coded consistently as NA. Data files exported as CSV format with UTF-8 encoding.&lt;/p&gt; &lt;p&gt;VERSIONING:&lt;br /&gt; &lt;em&gt;* Note: The version number described here refers to the research group's internal versioning system used during data processing and quality control. It is independent of BCO-DMO's versioning system, which starts at version 1 and increments each time an updated version of this dataset is published at BCO-DMO.&lt;/em&gt;&lt;br /&gt; &lt;br /&gt; Dataset version 2.2 reflects final quality control and BCO-DMO submission preparation. All processing steps were documented in repository README files. Original raw data files were preserved alongside processed versions.&amp;nbsp; Raw data are not provided as part of this dataset but were used for internal verification, and provenance tracking&amp;nbsp;&amp;nbsp;(see Github repository https://github.com/stier-lab/moorea-cafi-data).&lt;/p&gt; Specified by the Principal Investigator(s) Missing Data Identifiers: * The original data used NA as the encoding for no data (missing data identifier). * In the BCO-DMO data system missing data identifiers are displayed according to the format of data you access. For example, in csv files it will be blank (null) values. In Matlab .mat files it will be NaN values. When viewing data online at BCO-DMO, the missing value will be shown as blank (null) values. Data processing and import: - Loaded CSV file &quot;maatea_size_photogrammetry_summary_dec_2019_v1.csv&quot; as table &quot;dec_2019_summary&quot;; applied metadata (descriptions, units, standard name IDs) to columns Chunk, Model, area_cm2, extent_volume_cm3, height_range_cm, max_height_cm, min_height_cm, model_type, surface_area_cm2, volume_cm3; set types for all columns (string or number as appropriate) - Loaded Excel file &quot;maatea_size_photogrammetry_summer_2019_v1.xlsx&quot; (Sheet1) as table &quot;summer_2019_setup&quot;; applied metadata to 22 columns including coral_id, row, column, photogrammetry measurements, surface areas, volumes, scalebar errors, camera, and notes; set types (string, number) for all columns; columns row, column, total_photos, and photos_not_aligned were initially set as number due to Excel float storage, then rounded and converted to integer format to match original Excel display - Loaded CSV file &quot;metadata_for_genetic_samples.csv&quot; as table &quot;metadata_for_genetic_samples&quot;; this table contains information about coral colony collection and field measurements - Loaded CSV file &quot;maatea_size_photogrammetry_2019_2021_v1.csv&quot; as table &quot;999444_v1_maatea-size-exp_photogrammetry&quot;; applied metadata to columns including Chunk, Model, area_cm2, extent_volume_cm3, height_range_cm, max_height_cm, min_height_cm, model_type, surface_area_cm2, volume_cm3, and visit_date; set types (string, number, date) for all columns with visit_date parsed as &quot;%Y-%m-%d&quot; - Extracted coral_id from Chunk column in &quot;999444_v1_maatea-size-exp_photogrammetry&quot; for consistency since related data have the coral_id as intependent column. Used a find/replace operation to extract the coral_id (e.g., extracting &quot;FE-POC40&quot; from &quot;1-1 (FE-POC40)&quot;). - Cleaned one outlier coral_id value that was due to inconsistent format in the Chunk column: removed unintended prefix &quot;2-13_&quot; from &quot;2-13_FE-POC40&quot;, resulting in &quot;FE-POC40&quot;. Other chunk values used parentheses except this one. - Joined lat, long, and site columns from &quot;metadata_for_genetic_samples&quot; into &quot;999444_v1_maatea-size-exp_photogrammetry&quot; using coral_id as the key (half-outer join, first-value aggregation). Genetic sample metadata including coral colony information is in related bco-dmo dataset https://www.bco-dmo.org/dataset/999432 along with additional data and metadata from this experiment. - Output four final tables: dec_2019_summary.csv, summer_2019_setup.csv, metadata_for_genetic_samples.csv, and 999444_v1_maatea-size-exp_photogrammetry.csv Specified by BCO-DMO Data Managers asNeeded 7.x-1.1 Biological and Chemical Oceanography Data Management Office (BCO-DMO) Unavailable 508-289-2009 WHOI MS#36 Woods Hole MA 02543 USA info@bco-dmo.org http://www.bco-dmo.org Monday - Friday 8:00am - 5:00pm For questions regarding this resource, please contact BCO-DMO via the email address provided. pointOfContact calipers calipers PI Supplied Instrument Name: calipers PI Supplied Instrument Description:Used as part of ORGANISM MEASUREMENT: - Digital calipers (precision ±0.01mm) for CAFI body size measurements - Dissecting microscope with calibrated eyepiece reticle for small organisms (less than 5mm) - Macro photography setup with scale bars for organism documentation Instrument Name: calipers Instrument Short Name: Instrument Description: A caliper (or "pair of calipers") is a device used to measure the distance between two opposite sides of an object. Many types of calipers permit reading out a measurement on a ruled scale, a dial, or a digital display. GPS unit GPS unit PI Supplied Instrument Name: GPS unit PI Supplied Instrument Description:Used as part of FIELD EQUIPMENT: - SCUBA diving equipment (regulators, BCDs, tanks) - Underwater data sheets and pencils - Plastic collection bags and containers - Clove oil anesthetic for CAFI extraction - Cement bases and epoxy for coral attachment - GPS unit for site coordinate recording - PVC pipe and markers for experimental grid construction Instrument Name: Global Positioning System Receiver Instrument Short Name:GPS Instrument Description: The Global Positioning System (GPS) is a U.S. space-based radionavigation system that provides reliable positioning, navigation, and timing services to civilian users on a continuous worldwide basis. The U.S. Air Force develops, maintains, and operates the space and control segments of the NAVSTAR GPS transmitter system. Ships use a variety of receivers (e.g. Trimble and Ashtech) to interpret the GPS signal and determine accurate latitude and longitude. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/POS03/ Hemocytometer (Neubauer chamber) Hemocytometer (Neubauer chamber) PI Supplied Instrument Name: Hemocytometer (Neubauer chamber) PI Supplied Instrument Description:Used as part of PHYSIOLOGICAL ANALYSES: - 10mL syringes for tissue sample collection - Tissue homogenizer for sample preparation - Spectrophotometer for protein and carbohydrate assays - Hemocytometer (Neubauer chamber) for zooxanthellae cell counts - Compound microscope for cell counting - Analytical balance (precision ±0.001g) for sample mass measurements Instrument Name: Hemocytometer Instrument Short Name:Hemocytometer Instrument Description: A hemocytometer is a small glass chamber, resembling a thick microscope slide, used for determining the number of cells per unit volume of a suspension. Originally used for performing blood cell counts, a hemocytometer can be used to count a variety of cell types in the laboratory. Also spelled as "haemocytometer". Description from: http://hlsweb.dmu.ac.uk/ahs/elearning/RITA/Haem1/Haem1.html. Dissecting microscope with calibrated eyepiece reticle Dissecting microscope with calibrated eyepiece reticle PI Supplied Instrument Name: Dissecting microscope with calibrated eyepiece reticle PI Supplied Instrument Description:Used as part of ORGANISM MEASUREMENT: - Digital calipers (precision ±0.01mm) for CAFI body size measurements - Dissecting microscope with calibrated eyepiece reticle for small organisms (less than 5mm) - Macro photography setup with scale bars for organism documentation Instrument Name: Microscope - Optical Instrument Short Name: Instrument Description: Instruments that generate enlarged images of samples using the phenomena of reflection and absorption of visible light. Includes conventional and inverted instruments. Also called a "light microscope". Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB05/ Refrigeration and freezer storage Refrigeration and freezer storage PI Supplied Instrument Name: Refrigeration and freezer storage PI Supplied Instrument Description:Used as part of LABORATORY EQUIPMENT: - Standard biochemical assay equipment (pipettes, cuvettes, reagents) - Refrigeration and freezer storage (-20°C, -80°C) for sample preservation - Fume hood for chemical work Instrument Name: no_bcodmo_term Instrument Short Name: Instrument Description: No relevant match in BCO-DMO instrument vocabulary. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/999/ Analytical balance Analytical balance PI Supplied Instrument Name: Analytical balance PI Supplied Instrument Description:Used as part of PHYSIOLOGICAL ANALYSES: - 10mL syringes for tissue sample collection - Tissue homogenizer for sample preparation - Spectrophotometer for protein and carbohydrate assays - Hemocytometer (Neubauer chamber) for zooxanthellae cell counts - Compound microscope for cell counting - Analytical balance (precision ±0.001g) for sample mass measurements Instrument Name: scale or balance Instrument Short Name: Instrument Description: Devices that determine the mass or weight of a sample. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB13/ SCUBA diving equipment (regulators, BCDs, tanks) SCUBA diving equipment (regulators, BCDs, tanks) PI Supplied Instrument Name: SCUBA diving equipment (regulators, BCDs, tanks) PI Supplied Instrument Description:Used as part of FIELD EQUIPMENT: - SCUBA diving equipment (regulators, BCDs, tanks) - Underwater data sheets and pencils - Plastic collection bags and containers - Clove oil anesthetic for CAFI extraction - Cement bases and epoxy for coral attachment - GPS unit for site coordinate recording - PVC pipe and markers for experimental grid construction Instrument Name: Self-Contained Underwater Breathing Apparatus Instrument Short Name:SCUBA Instrument Description: The self-contained underwater breathing apparatus or scuba diving system is the result of technological developments and innovations that began almost 300 years ago. Scuba diving is the most extensively used system for breathing underwater by recreational divers throughout the world and in various forms is also widely used to perform underwater work for military, scientific, and commercial purposes. Reference: https://oceanexplorer.noaa.gov/technology/technical/technical.html Spectrophotometer Spectrophotometer PI Supplied Instrument Name: Spectrophotometer PI Supplied Instrument Description:Used as part of PHYSIOLOGICAL ANALYSES: - 10mL syringes for tissue sample collection - Tissue homogenizer for sample preparation - Spectrophotometer for protein and carbohydrate assays - Hemocytometer (Neubauer chamber) for zooxanthellae cell counts - Compound microscope for cell counting - Analytical balance (precision ±0.001g) for sample mass measurements Instrument Name: Spectrophotometer Instrument Short Name:Spectrophotometer Instrument Description: An instrument used to measure the relative absorption of electromagnetic radiation of different wavelengths in the near infra-red, visible and ultraviolet wavebands by samples. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB20/ Canon EOS camera in underwater housing Canon EOS camera in underwater housing PI Supplied Instrument Name: Canon EOS camera in underwater housing PI Supplied Instrument Description:Used as part of PHOTOGRAMMETRY EQUIPMENT: - Canon EOS camera (model not specified) in underwater housing - Two LED dive lights for consistent illumination - 15cm PVC ruler scale bars for spatial calibration - Agisoft Metashape Professional software (versions 1.6-1.7) for 3D reconstruction Instrument Name: Underwater Camera Instrument Short Name: Instrument Description: All types of photographic equipment that may be deployed underwater including stills, video, film and digital systems. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/180/