http://lod.bco-dmo.org/id/dataset/995172
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
2026-03-18
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Coral physiological and biological data collected during acute exposures in static incubation chambers in Hawaii from June 2023 to January 2025
2026-03-30
publication
2026-03-30
revision
Woods Hole Oceanographic Institution (WHOI BCO-DMO)
2026-03-31
publication
https://doi.org/10.26008/1912/bco-dmo.995172.1
Keisha D. Bahr
Texas A&M, Corpus Christi
principalInvestigator
Conall McNicholl
Hawaii Institute of Marine Biology
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: Bahr, K. D., Bretzing-Tungate, R., Armstrong, D. A., McNicholl, C. (2026) Coral physiological and biological data collected during acute exposures in static incubation chambers in Hawaii from June 2023 to January 2025. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2026-03-30 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.995172.1 [access date]
Methods and Sampling: <p><strong>Coral Collection and Pre-Experiment Holding</strong></p>
<p>Coral colonies of Montipora capitata and Pocillopora acuta were collected by hand while snorkeling from shallow (1 m) fringing reef habitat surrounding HIMB in Kāne‘ohe Bay, Hawai‘i. Colonies were transported immediately to the mesocosm facility and held for one week in flow-through tanks that were identical in design to the experimental mesocosms.</p>
<p><strong>Incubation Design</strong></p>
<p>Incubations were conducted in a temperature-controlled water bath, under full-spectrum lighting (Wattshine 400w LEDs) set to ~800 PAR µmol m<sup>-2</sup> s<sup>-1</sup>. Incubation chambers were closed-cell, with stirbars spinning via a belt-controlled magnet dial that was submerged entirely. &nbsp;Corals were placed in a plug holder in the middle of each chamber, and chambers were numbered and haphazardly placed on the submerged racks. Corals were acclimated for 1 hr to treatment conditions before incubation, then closed in each chamber for either 1, 2, or 4 hr intervals based on preliminary assessments of calcification rates.&nbsp;&nbsp;Seawater after this period was collected in borosilicate bottles for total alkalinity analysis, and separately in beakers for physical and chemical analysis with a YSI.&nbsp;</p>
<p><strong>Treatment Conditions and Carbonate Chemistry Manipulation</strong></p>
<p>Four carbonate chemistry conditions were generated across consecutive 30-day exposures by altering total alkalinity (TA), dissolved inorganic carbon (DIC), and pH. Target conditions included:</p>
<p>1. Ambient control</p>
<p>2. Low pH (ΔpH ~ -0.3 from ambient)</p>
<p>3. High or low TA (±100 µmol kg-1 from ambient)</p>
<p>4. Combined low pH and TA alteration</p>
<p>5. High pH &nbsp;(ΔpH ~ 0.3 from ambient)</p>
<p>6. Combined high pH and TA alteration</p>
<p>TA adjustments were made using a peristaltic pump delivering either 1.0 M HCl (for low TA) at ~3 mL min-1 or 1.0 M Na2CO3 (for high TA) at ~2 mL min-1 directly into each row’s mixing tank.<br />
pH reductions were achieved by bubbling pure CO2 or a CO2-air mixture directly into designated mesocosms using a Maxi-Jet 1600 pump-driven venturi injector.</p>
<p><strong>Seawater Sampling and Measurements</strong></p>
<p><strong>Daily Parameters</strong></p>
<p>Temperature, salinity, dissolved oxygen, and pHNBS were measured daily at mid-day in all mesocosms and header tanks using a YSI multimeter (YSI ProDSS or YSI 556 MPS).</p>
<p>pH electrodes were calibrated daily using NIST-traceable pH 4, 7, and 10 buffers and corrected to the total scale using Tris buffer from A. Dickson (Scripps Institution of Oceanography). Dissolved oxygen calibrations followed manufacturer water-saturated air calibration protocols.</p>
<p><strong>Total Alkalinity Sampling and Storage</strong></p>
<p>Discrete seawater samples (100 mL) for total alkalinity (TA) were collected twice weekly.</p>
<p>Sampling procedures followed best practices described in Dickson et al. (2007):</p>
<p>Rinsed sample bottles three times with sample water.</p>
<p>Collected seawater in acid-cleaned 100 mL borosilicate bottles.</p>
<p>No headspace was left to prevent gas exchange.</p>
<p>Samples were analyzed within 12 hours of collection and stored at ambient temperature in the dark until analysis.</p>
<p><strong>TA Determination</strong></p>
<p>TA was determined using open-cell potentiometric titration on a Metrohm 877 Titrino Plus equipped with a Metrohm 9101 Herisau glass pH electrode.</p>
<p>All titrations were standardized using certified reference materials (CRM, batch number provided by Dickson Laboratory). Electrode slope, offset, and drift were checked daily.</p>
<p>Carbonate system variables (DIC, pCO2, HCO3-, CO32-, and Omega aragonite) were calculated using the R package seacarb.</p>
<p><strong>Calcification Measurements</strong></p>
<p>Calcification rates were quantified using buoyant weighing following Jokiel et al. (1978). Colonies were weighed on day 0 and day 30. Calcification rate (G) was calculated as:</p>
<p>G (g CaCO3 d-1) = 1.54 × (Wf – Wi) / d</p>
<p>where 1.54 g cm-3 is the density of aragonite, Wf and Wi are final and initial buoyant weights, and d is the exposure duration in days.</p>
<p>Three colonies per species per mesocosm were randomly selected for further biometric analysis. Three branch tips per colony were sampled immediately before and after the exposure period. Collected fragments were frozen at -20 C until post-processing.</p>
<p>Mortality was low and did not differ across treatments; dead colonies were excluded from analysis. All corals were returned to the reef at the conclusion of the experiments.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-2049406 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=2049406
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-2049407 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=2049407
completed
Keisha D. Bahr
Texas A&M, Corpus Christi
361-825-3707
6300 Ocean Drive, Unit 5800
Corpus Christi
TX
78412-5844
USA
Keisha.Bahr@tamucc.edu
pointOfContact
Conall McNicholl
Hawaii Institute of Marine Biology
cmcnic@hawaii.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
date
species
treatment
condition
genotype
time
temp
do_mg_l
sal
ph_nbs
ph_mv
bwt
sw_mass
beaker_mass
TA_1
TA_2
titrator
crm_205
tris_41
Closed-cell incubation chambers
LEDs (Wattshine), 400w full spectrum
CO2 Gas Delivery
Metrohm 877 Titrino Plus with 9101 Herisau glass pH electrode
YSI Multiparameter Water Quality Meters (YSI ProDSS, YSI 556 MPS)
theme
None, User defined
date
taxon_code
treatment
sample description
sample type
time_elapsed
temperature of sample or a generic measurement (not in-situ water temp)
dissolved Oxygen
salinity
pH
weight
total alkalinity (TA)
featureType
BCO-DMO Standard Parameters
Diving Mask and Snorkel
Incubator
LED light
no_bcodmo_term
pH Sensor
Water Quality Multiprobe
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: Reevaluating calcification response to changes in seawater chemistry by testing the Proton Flux Hypothesis and the Coral Metabolism Model
https://osprey.bco-dmo.org/project/868178
Collaborative Research: Reevaluating calcification response to changes in seawater chemistry by testing the Proton Flux Hypothesis and the Coral Metabolism Model
<p><em>NSF Award Abstract:</em><br />
Corals build calcium carbonate skeletons to maintain the three-dimensional structure of a coral reef, which provides habitat for many organisms and protects shorelines from bioerosion and storm damage. However, changes in ocean chemistry threaten the ability of corals to build and sustain these ecological important structures. To further the understanding of how climate change impacts coral reefs, this project investigates how changes in ocean carbonate chemistry directly influence coral calcification. The researchers are conducting a series of experiments on corals grown in seawater tanks to study corals responses to seawater chemistry in a changing ocean. Broader impacts of the project include student research opportunities, science-inquiry labs, and virtual learning. This project supports the training of several early career researchers, Ph.D. students, undergraduates, and high school students in the disciplines of chemistry, engineering, and marine ecology. Researchers partner with the Texas State Aquarium to communicate with the general public through a virtual research expedition series that will focus on coral reef health. This series includes interviews, behind the scene tours, and virtual dives on coral reefs in Hawaii.</p>
<p>This project examines the fundamental connections between seawater chemistry and coral physiology by investigating the modulation of seawater chemistry in the microenvironment surrounding corals. Specifically, this project 1) examines the response of corals to differing carbonate chemistry and 2) characterizes the proton gradient across the corals' boundary layers under differing ocean acidification conditions. Results of this work isolate whether carbonate ions or hydrogen ions have a stronger influence on calcification rates. This work utilizes a state-of-the-art experimental mesocosm facility that combines an automated systems to simultaneously and independently control both total alkalinity and carbon dioxide in the tanks to examine coral response under different carbon chemistry scenarios. Small-scale gradients in carbon chemistry surrounding the corals are being characterized using an innovative solid-state, reagentless sensor capable of making simultaneous measurements of two critical carbon system parameters. Coral biological response variables are quantified during short-term incubations and long-term mesocosm manipulations to understand physiological implications across multiple scales (i.e., individual and community scales) and across boundary layers.</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>
Proton Flux Hypothesis
largerWorkCitation
project
eng; USA
oceans
-157.7877
-157.7877
21.4327
21.4327
2023-06-27
2025-01-22
Kaneohe, Hawaii
0
BCO-DMO catalogue of parameters from Coral physiological and biological data collected during acute exposures in static incubation chambers in Hawaii from June 2023 to January 2025
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
http://lod.bco-dmo.org/id/dataset-parameter/995581.rdf
Name: date
Units: unitless
Description: <p>date of incubation</p>
http://lod.bco-dmo.org/id/dataset-parameter/995582.rdf
Name: species
Units: unitless
Description: <p>species of coral; Pocillopora acuta (pa) [urn:lsid:marinespecies.org:taxname:759099] or Montipora capitata (mc) [urn:lsid:marinespecies.org:taxname:287697]</p>
http://lod.bco-dmo.org/id/dataset-parameter/995583.rdf
Name: treatment
Units: unitless
Description: <p>treatment of exposure; amb = ambient; l_ta = low total alkalinity; h_ta = high alkalinity; h_ph = high pH; l_ph = low pH; l_ph_l_ta = low pH and low total alkalinity; l_ph_h_ta = low pH and high total alkalinity; h_ph_l_ta = high pH and low total alkalinity; h_ph_h_ta = high pH and high total alkalinity</p>
http://lod.bco-dmo.org/id/dataset-parameter/995584.rdf
Name: condition
Units: unitless
Description: <p>day or night</p>
http://lod.bco-dmo.org/id/dataset-parameter/995585.rdf
Name: genotype
Units: unitless
Description: <p>genotype of coral or initial water chemistry</p>
http://lod.bco-dmo.org/id/dataset-parameter/995586.rdf
Name: time
Units: hours
Description: <p>incubation duration (elapsed hours).</p>
http://lod.bco-dmo.org/id/dataset-parameter/995587.rdf
Name: temp
Units: degrees Celsius (degC)
Description: <p>temperature of water</p>
http://lod.bco-dmo.org/id/dataset-parameter/995588.rdf
Name: do_mg_l
Units: milligrams per liter (mg/L)
Description: <p>dissolved oxygen of water</p>
http://lod.bco-dmo.org/id/dataset-parameter/995589.rdf
Name: sal
Units: parts per thousand (ppt)
Description: <p>salinity of water</p>
http://lod.bco-dmo.org/id/dataset-parameter/995590.rdf
Name: ph_nbs
Units: NBS scale
Description: <p>pH of water</p>
http://lod.bco-dmo.org/id/dataset-parameter/995591.rdf
Name: ph_mv
Units: millivolts (mV)
Description: <p>pH of water</p>
http://lod.bco-dmo.org/id/dataset-parameter/995592.rdf
Name: bwt
Units: grams (g)
Description: <p>buoyant weight of corals</p>
http://lod.bco-dmo.org/id/dataset-parameter/995593.rdf
Name: sw_mass
Units: grams (g)
Description: <p>mass of seawater</p>
http://lod.bco-dmo.org/id/dataset-parameter/995594.rdf
Name: beaker_mass
Units: grams (g)
Description: <p>mass of beaker</p>
http://lod.bco-dmo.org/id/dataset-parameter/995595.rdf
Name: TA_1
Units: micromoles per kilogram (umol kg-1)
Description: <p>initial total alkalinity</p>
http://lod.bco-dmo.org/id/dataset-parameter/995596.rdf
Name: TA_2
Units: micromoles per kilogram (umol kg-1)
Description: <p>final total alkalinity</p>
http://lod.bco-dmo.org/id/dataset-parameter/995597.rdf
Name: titrator
Units: unitless
Description: <p>which titrator was used</p>
http://lod.bco-dmo.org/id/dataset-parameter/995598.rdf
Name: crm_205
Units: unitless
Description: <p>certified reference material batch number</p>
http://lod.bco-dmo.org/id/dataset-parameter/995599.rdf
Name: tris_41
Units: unitless
Description: <p>certified reference tris buffer batch number</p>
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://doi.org/10.26008/1912/bco-dmo.995172.1
download
onLine
dataset
<p><strong>Coral Collection and Pre-Experiment Holding</strong></p>
<p>Coral colonies of Montipora capitata and Pocillopora acuta were collected by hand while snorkeling from shallow (1 m) fringing reef habitat surrounding HIMB in Kāne‘ohe Bay, Hawai‘i. Colonies were transported immediately to the mesocosm facility and held for one week in flow-through tanks that were identical in design to the experimental mesocosms.</p>
<p><strong>Incubation Design</strong></p>
<p>Incubations were conducted in a temperature-controlled water bath, under full-spectrum lighting (Wattshine 400w LEDs) set to ~800 PAR µmol m<sup>-2</sup> s<sup>-1</sup>. Incubation chambers were closed-cell, with stirbars spinning via a belt-controlled magnet dial that was submerged entirely. &nbsp;Corals were placed in a plug holder in the middle of each chamber, and chambers were numbered and haphazardly placed on the submerged racks. Corals were acclimated for 1 hr to treatment conditions before incubation, then closed in each chamber for either 1, 2, or 4 hr intervals based on preliminary assessments of calcification rates.&nbsp;&nbsp;Seawater after this period was collected in borosilicate bottles for total alkalinity analysis, and separately in beakers for physical and chemical analysis with a YSI.&nbsp;</p>
<p><strong>Treatment Conditions and Carbonate Chemistry Manipulation</strong></p>
<p>Four carbonate chemistry conditions were generated across consecutive 30-day exposures by altering total alkalinity (TA), dissolved inorganic carbon (DIC), and pH. Target conditions included:</p>
<p>1. Ambient control</p>
<p>2. Low pH (ΔpH ~ -0.3 from ambient)</p>
<p>3. High or low TA (±100 µmol kg-1 from ambient)</p>
<p>4. Combined low pH and TA alteration</p>
<p>5. High pH &nbsp;(ΔpH ~ 0.3 from ambient)</p>
<p>6. Combined high pH and TA alteration</p>
<p>TA adjustments were made using a peristaltic pump delivering either 1.0 M HCl (for low TA) at ~3 mL min-1 or 1.0 M Na2CO3 (for high TA) at ~2 mL min-1 directly into each row’s mixing tank.<br />
pH reductions were achieved by bubbling pure CO2 or a CO2-air mixture directly into designated mesocosms using a Maxi-Jet 1600 pump-driven venturi injector.</p>
<p><strong>Seawater Sampling and Measurements</strong></p>
<p><strong>Daily Parameters</strong></p>
<p>Temperature, salinity, dissolved oxygen, and pHNBS were measured daily at mid-day in all mesocosms and header tanks using a YSI multimeter (YSI ProDSS or YSI 556 MPS).</p>
<p>pH electrodes were calibrated daily using NIST-traceable pH 4, 7, and 10 buffers and corrected to the total scale using Tris buffer from A. Dickson (Scripps Institution of Oceanography). Dissolved oxygen calibrations followed manufacturer water-saturated air calibration protocols.</p>
<p><strong>Total Alkalinity Sampling and Storage</strong></p>
<p>Discrete seawater samples (100 mL) for total alkalinity (TA) were collected twice weekly.</p>
<p>Sampling procedures followed best practices described in Dickson et al. (2007):</p>
<p>Rinsed sample bottles three times with sample water.</p>
<p>Collected seawater in acid-cleaned 100 mL borosilicate bottles.</p>
<p>No headspace was left to prevent gas exchange.</p>
<p>Samples were analyzed within 12 hours of collection and stored at ambient temperature in the dark until analysis.</p>
<p><strong>TA Determination</strong></p>
<p>TA was determined using open-cell potentiometric titration on a Metrohm 877 Titrino Plus equipped with a Metrohm 9101 Herisau glass pH electrode.</p>
<p>All titrations were standardized using certified reference materials (CRM, batch number provided by Dickson Laboratory). Electrode slope, offset, and drift were checked daily.</p>
<p>Carbonate system variables (DIC, pCO2, HCO3-, CO32-, and Omega aragonite) were calculated using the R package seacarb.</p>
<p><strong>Calcification Measurements</strong></p>
<p>Calcification rates were quantified using buoyant weighing following Jokiel et al. (1978). Colonies were weighed on day 0 and day 30. Calcification rate (G) was calculated as:</p>
<p>G (g CaCO3 d-1) = 1.54 × (Wf – Wi) / d</p>
<p>where 1.54 g cm-3 is the density of aragonite, Wf and Wi are final and initial buoyant weights, and d is the exposure duration in days.</p>
<p>Three colonies per species per mesocosm were randomly selected for further biometric analysis. Three branch tips per colony were sampled immediately before and after the exposure period. Collected fragments were frozen at -20 C until post-processing.</p>
<p>Mortality was low and did not differ across treatments; dead colonies were excluded from analysis. All corals were returned to the reef at the conclusion of the experiments.</p>
Specified by the Principal Investigator(s)
<p><strong>Overview</strong></p>
<p>Data processing included organization of raw seawater chemistry measurements, conversion of pH values to the total scale, calculation of carbonate system parameters, buoyant-weight based calcification calculations, and post-hoc biochemical and skeletal data extraction. All steps described below represent the procedures used to generate the submitted dataset. No statistical analysis, modeling, or graphing is included here.</p>
<p><strong>Seawater Chemistry Data Processing</strong></p>
<p><strong>pH Conversion</strong></p>
<p>Daily pHNBS measurements from the YSI multiparameter meter were converted to total scale (pHT) using Tris buffer reference standards prepared and certified by the Dickson Laboratory. Temperature-dependent conversion equations followed Dickson et al. (2007).<br />
All pH values were standardized across seasons using:</p>
<p>pHT = pHNBS + (Δbuffer offset)</p>
<p>where Δbuffer offset was determined daily from Tris-buffer calibration measurements.</p>
<p><strong>Total Alkalinity (TA)</strong></p>
<p>Raw potentiometric titration files from the Metrohm 877 Titrino Plus were exported using Metrohm tiamo software (version 2.5).<br />
Processing included:</p>
<p>Drift correction and electrode slope verification.</p>
<p>CRM standardization using certified values for TA (Dickson Laboratory, batch number provided in metadata).</p>
<p>Extraction of equivalence point and TA value using open-cell titration algorithms embedded in tiamo.</p>
<p>TA values were reported in µmol kg-1.<br />
If sample density was required, seawater density was calculated using temperature and salinity data following Fofonoff and Millard (1983).</p>
<p><strong>Carbonate System Calculations</strong></p>
<p>Carbonate chemistry parameters (DIC, pCO2, HCO3-, CO32-, and Omega aragonite) were calculated using the R package seacarb (version 3.3.1).<br />
Inputs included:</p>
<p>pHT (corrected)</p>
<p>Total alkalinity</p>
<p>Temperature</p>
<p>Salinity</p>
<p>Default seacarb constants (k1k2 = "l", kf = "pf", ks = "d") were applied unless otherwise noted.</p>
<p>Outputs were merged into the final seawater chemistry dataset with unique sample IDs matching mesocosm, date, and header source.</p>
<p><strong>Coral Calcification and Productivity Data Processing</strong></p>
<p><strong>Alkalinity Anomaly Technique</strong><br />
Calcification rate (G) was calculated utilizing the change in total alkalinity.</p>
<p>Gnet (umol CaCO3 g-1 h-1) = –0.5 × (ΔTA in µmol kg⁻¹) × (water mass in kg) ÷ (dry mass in g × time in hours)</p>
<p>Pnet (mol g⁻¹ h⁻¹) = (ΔDO in mg L⁻¹ × volume in L × 1×10⁻³ ÷ molecular weight of O₂ in g mol⁻¹) ÷ (dry mass in g × time in hours)</p>
<p><strong>Data Organization and Quality Control</strong></p>
<p>Data Entry and Validation</p>
<p>All raw files (TA titrator outputs, YSI logs, spectrophotometer outputs, and 3D scanner files) were manually inspected before integration.<br />
Data validation steps included:</p>
<p>Removal of erroneous YSI readings (known sensor failure events, &gt;3 SD outliers).</p>
<p>Titration rejection if CRM recovery was outside ±1 percent.</p>
<p>Elimination of samples with visible air bubbles during buoyant weighing.</p>
<p>Duplicate measurements averaged when replicates differed by &lt;5 percent; otherwise re-measured.</p>
<p><strong>Software Used</strong></p>
<p>R version 4.2.0</p>
<p>seacarb version 3.3.1</p>
<p>Metrohm tiamo version 2.5</p>
<p>Microsoft Excel 365 (data organization and file formatting only)</p>
Specified by the Principal Investigator(s)
Dataset Version 1 (2026-03-30)
Data File:
- Loaded "all_inc_final.csv" as resource "995172_v1_incubation-data" in CSV format with row 1 as headers; missing values coded as empty string, "nd", or "NA"
- Converted field "date" from format "%m/%d/%Y" to ISO date format "%Y-%m-%d", output as date type
- Set field types: "date" as date (%Y-%m-%d), "time" and "genotype" (as string and integer respectively — "time" as integer, "genotype" as string), numeric fields "TA_1", "TA_2", "beaker_mass", "bwt", "crm_205", "do_mg_l", "ph_mv", "ph_nbs", "sal", "sw_mass", "temp", "tris_41" as number, and string fields "condition", "genotype", "species", "titrator", "treatment"
- table sorted chronologically using column sort order '{date}{species}{treatment}{condition}{genotype}{time}'
- Output written to "995172_v1_incubation-data.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
PI Supplied Instrument Name: PI Supplied Instrument Description:Snorkel-based Coral Collection Gear
Use: Hand-collection of coral colonies at 1 m depth surrounding HIMB.
Notes: Standard snorkeling gear (mask, snorkel, fins) and hand tools (bone cutters, chisels) were used; no specialized electronic instrumentation. Instrument Name: Diving Mask and Snorkel Instrument Short Name: Instrument Description: A diving mask (also half mask, dive mask or scuba mask) is an item of diving equipment that allows underwater divers, including, scuba divers, free-divers, and snorkelers to see clearly underwater.
Snorkel: A breathing apparatus for swimmers and surface divers that allows swimming or continuous use of a face mask without lifting the head to breathe, consisting of a tube that curves out of the mouth and extends above the surface of the water.
Closed-cell incubation chambers
Closed-cell incubation chambers
PI Supplied Instrument Name: Closed-cell incubation chambers PI Supplied Instrument Description:Closed-cell Incubation Chambers
Manufacturer: Australian Institute of Marine Science Instrument Name: Incubator Instrument Short Name:incubator (general) Instrument Description: A device in which environmental conditions (light, photoperiod, temperature, humidity, etc.) can be controlled.
Note: we have more specific terms for shipboard incubators (https://www.bco-dmo.org/instrument/629001) and in-situ incubators (https://www.bco-dmo.org/instrument/494).
LEDs (Wattshine), 400w full spectrum
LEDs (Wattshine), 400w full spectrum
PI Supplied Instrument Name: LEDs (Wattshine), 400w full spectrum PI Supplied Instrument Description:LEDs
Manufacturer: Wattshine
Model: 400w full spectrum Instrument Name: LED light Instrument Short Name: Instrument Description: A light-emitting diode (LED) is a semiconductor light source that emits light when current flows through it. Electrons in the semiconductor recombine with electron holes, releasing energy in the form of photons.
CO2 Gas Delivery
CO2 Gas Delivery
PI Supplied Instrument Name: CO2 Gas Delivery PI Supplied Instrument Description:CO2 Gas Delivery
Components: CO2 cylinder, regulator, and gas injection line.
Use: Manipulation of pH by bubbling pure CO2 or CO2-air mixtures directly into treatment bottles. 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/
Metrohm 877 Titrino Plus with 9101 Herisau glass pH electrode
Metrohm 877 Titrino Plus with 9101 Herisau glass pH electrode
PI Supplied Instrument Name: Metrohm 877 Titrino Plus with 9101 Herisau glass pH electrode PI Supplied Instrument Description:Open-cell Potentiometric Titrator for Total Alkalinity
Manufacturer: Metrohm
Model: 877 Titrino Plus with 9101 Herisau glass pH electrode
Use: Measurement of TA from discrete 100 mL seawater samples twice weekly.
Calibration:
Daily electrode slope and offset verification.
Weekly CRM calibration using certified reference materials from A. Dickson (batch number supplied by user).
Notes: All titrations performed at constant temperature. Instrument Name: pH Sensor Instrument Short Name:pH Sensor Instrument Description: An instrument that measures the hydrogen ion activity in solutions.
The overall concentration of hydrogen ions is inversely related to its pH. The pH scale ranges from 0 to 14 and indicates whether acidic (more H+) or basic (less H+).
YSI Multiparameter Water Quality Meters (YSI ProDSS, YSI 556 MPS)
YSI Multiparameter Water Quality Meters (YSI ProDSS, YSI 556 MPS)
PI Supplied Instrument Name: YSI Multiparameter Water Quality Meters (YSI ProDSS, YSI 556 MPS) PI Supplied Instrument Description:YSI Multiparameter Water Quality Meters
YSI ProDSS
YSI 556 MPS
Manufacturer: YSI Inc.
Parameters Measured: Temperature, salinity, dissolved oxygen, and pHNBS.
Calibration:
DO probe calibrated daily using water-saturated air.
pH electrode calibrated daily using pH 4, 7, and 10 NIST buffers; corrected to total scale using Tris buffer from Dickson Laboratory.
Conductivity and temperature routinely checked using certified standards. Instrument Name: Water Quality Multiprobe Instrument Short Name:Water Quality Multiprobe Instrument Description: An instrument which measures multiple water quality parameters based on the sensor configuration.