http://lod.bco-dmo.org/id/dataset/935480 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 2024-08-12 ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data ISO 19115-2:2009(E) Lab incubations of mussels (Mytilus californianus) examining the influence of simulated abrasion of periostracum on external shell dissolution at Marshall Gulch Beach, CA from August 2021 to March 2022 2024-12-28 publication 2024-12-28 revision Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA) 2024-12-29 publication https://doi.org/10.26008/1912/bco-dmo.935480.1 Brian Gaylord University of California - Davis: Bodega Marine Laboratory 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: Saley, A., Gaylord, B. (2024) Lab incubations of mussels (Mytilus californianus) examining the influence of simulated abrasion of periostracum on external shell dissolution at Marshall Gulch Beach, CA from August 2021 to March 2022. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2024-12-28 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.935480.1 [access date] Methods and Sampling: &lt;p&gt;&lt;strong&gt;Overview: &lt;/strong&gt;We performed dissolution assays to explore the consequences of two levels of abrasion, used to remove the periostracum, on shell dissolution rates using dead shells of sacrificed adult&amp;nbsp;&lt;em&gt;Mytilus californianus&lt;/em&gt;&amp;nbsp;mussels. For the current study, adult mussels (42 - 64 mm in length) were collected from Marshall Gulch, California (38.369738 °N, -123.073921 °W) between August 2021 and March 2022 and transported immediately to the University of California Davis’ Bodega Marine Laboratory (&amp;lt; 30 min distance), in Bodega Bay, California. Mussels were held in filtered, flow-through seawater and fed ad libitum until used in experiments. Because we were interested in the effects of the periostracum in protecting the exterior surface of the shell, we sealed the inner, nacre layer of the shell with silicone (Loctite marine silicone sealant) to prevent its contact with seawater.&lt;/p&gt; &lt;p&gt;&amp;nbsp;&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Mussel valve preparation:&lt;/strong&gt; To prepare mussel valves for the incubation, shell periostracum was abraded using sanding sponges (Gator brand) of two levels of grit coarseness (P50-60: coarse (n = 11), and P120-150: fine (n = 12)). We included control mussel valves (15% of daily sample size), collected with no periostracum cover, to compare dissolution rates between abraded and periostracum that was removed naturally in the field.&lt;/p&gt; &lt;p&gt;&amp;nbsp;&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Dissolution Incubations and Analysis:&lt;/strong&gt; We incubated each mussel valve in a sealed 250 mL Nalgene bottle filled with modified seawater for 48 hours in a temperature-controlled room, recording seawater properties in each bottle before and at the end of each incubation, including temperature, salinity, and pH (Yellow Springs Instruments Professional Plus Sonde). YSI sonde pH values were calibrated to the total scale based on pH spectrophotometric measurements of m-cresol dye absorbance at the incubation temperature. Incubation bottles were agitated gently once every 8 hours over the course of the incubations to reduce the establishment of strong chemical gradients of their fluid contents. We took discrete seawater samples at the onset and end of each incubation for determination of total alkalinity concentration (TA); these “before-after” measurements of TA enabled quantification of the increase in alkalinity within each bottle over the duration of the incubation, and thereby the rate of dissolution of calcium carbonate (CaCO3) shell material for individual valves of known periostracum cover. Shell dissolution rates were quantified using standard alkalinity anomaly techniques (analyzing seawater samples in triplicate and selecting median TA for dissolution quantification), which relate calcium carbonate shell loss to an increase in the total alkalinity (TA) of surrounding seawater, per unit time. Across the dissolution trials, control incubations (15% of daily sample size) of modified seawater were conducted to verify minimal background changes in TA.&lt;/p&gt; &lt;p&gt;&amp;nbsp;&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Seawater manipulation:&lt;/strong&gt; We used direct chemical modification to the seawater carbonate system in order to create seawater treatments (pH = 7.4). To modify, equimolar additions of 1 M sodium bicarbonate (NaHCO3) and 1 M hydrochloric acid (HCl) were added to filtered seawater, capped, and were well mixed. This method results in an increase of dissolved inorganic carbon (DIC) and reduction of seawater pH without changing total alkalinity (TA).&lt;/p&gt; Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-2129942 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=2129942 completed Brian Gaylord University of California - Davis: Bodega Marine Laboratory 707-875-1940 Bodega Marine Laboratory & Department of Evolution and Ecology 2099 Westshore Road, P.O. Box 247 Bodega Bay CA 94923 USA bpgaylord@ucdavis.edu pointOfContact asNeeded Dataset Version: 1 Unknown INDEX species lat lon date_in time_in time_in_UTC date_out time_out time_out_UTC sanding ph_spec_0 temp_0 sal_0 peri_percent shell_A shell_L shell_W incub_day incub_hr incub_min alk_t0 alk_t1 alk_t0_t1 alk_t0_t1_norm diss diss_diff Shimadzu spectrophotometer Yellow Springs Instruments Professional Plus Sonde theme None, User defined sample identification species scientific name (binomial) latitude longitude date ISO_DateTime_Local ISO_DateTime_UTC treatment pH temperature of sample or a generic measurement (not in-situ water temp) salinity No BCO-DMO term area_measured length width incubation time or duration total alkalinity (TA) featureType BCO-DMO Standard Parameters UV Spectrophotometer-Shimadzu YSI Professional Plus Multi-Parameter Probe 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. Invertebrate calcification and behavior in seawater of decoupled carbonate chemistry https://osprey.bco-dmo.org/project/886711 Invertebrate calcification and behavior in seawater of decoupled carbonate chemistry <p><em>NSF Award Abstract:</em><br /> This research is exploring the capacity of coastal organisms to cope with alterations in seawater chemistry driven by both freshwater inputs and absorption of carbon dioxide into the world's oceans (ocean acidification). The project focuses on calcification responses and behavioral impairments of shoreline animals under altered seawater chemistry, and forefronts a common mussel species (the California mussel), and a common snail (the black turban snail), each abundant on rocky shores along the west coast of North America. The target species operate as exemplar organisms for characterizing the responses of marine invertebrates more generally. Methods involve experimental decoupling of multiple components of the carbonate system of seawater to isolate drivers that are difficult to separate otherwise. Broader impacts include transfer of scientific information to policy-makers, including legislators, as well as training and skill-set development of future generations of scientists and citizens. One Ph.D. student is supported, as are UC Davis undergraduates conducting mentored research. The project also provides research internships for undergraduates from a local community college (Santa Rosa Junior College), many of whom are from underrepresented groups. The latter project component substantially bolsters an ongoing program at Bodega Marine Laboratory that includes efforts in diversity, equity, and inclusion. Data and interpretations from the project are feeding into an existing educational program that links to local K-12 schools and reaches ~10,000 members of the public each year.</p> <p>Overall, the research of the project is dissecting drivers of calcification and behavioral disruption in key shoreline invertebrates, across present-day and future carbonate system conditions appropriate to coastal marine environments. Efforts are exploring the extent to which calcification depends on one versus multiple parameters of the seawater carbonate system. In particular, existing conceptual models emphasize the importance of calcium carbonate saturation state (Ω) and/or the ratio of bicarbonate to hydrogen ion concentrations ([HCO3-]/[H+]), and the project is examining these mechanisms as well as the possibility that more than one driver acts simultaneously. It is doing so both in bivalves and in gastropods to test for generality across mollusks. The project is additionally examining whether pH is the only carbonate system factor contributing to known patterns of behavioral impairment in marine invertebrates. Leading explanations for debilitating behaviors induced by ocean acidification involve altered ion channel function, but discussion in the literature continues, and studies that explicitly decouple the carbonate system are necessary.</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> OA decoupling largerWorkCitation project eng; USA biota -123.073921 -123.073921 38.369738 38.369738 2022-08-21 2022-08-24 California coast, USA 0 BCO-DMO catalogue of parameters from Lab incubations of mussels (Mytilus californianus) examining the influence of simulated abrasion of periostracum on external shell dissolution at Marshall Gulch Beach, CA from August 2021 to March 2022 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/947312.rdf Name: INDEX Units: unitless Description: <p>Shell ID: identification number of individual mussel valve</p> http://lod.bco-dmo.org/id/dataset-parameter/947313.rdf Name: species Units: unitless Description: <p>Mussel species</p> http://lod.bco-dmo.org/id/dataset-parameter/947314.rdf Name: lat Units: deicmal degrees Description: <p>latitude, South is negative</p> http://lod.bco-dmo.org/id/dataset-parameter/947315.rdf Name: lon Units: decimal degrees Description: <p>longitude, West is negative</p> http://lod.bco-dmo.org/id/dataset-parameter/947316.rdf Name: date_in Units: unitless Description: <p>Date of incubation start</p> http://lod.bco-dmo.org/id/dataset-parameter/947317.rdf Name: time_in Units: unitless Description: <p>Date and time of incubation start. Local time zone, Pacific Daylight Time</p> http://lod.bco-dmo.org/id/dataset-parameter/947318.rdf Name: time_in_UTC Units: unitless Description: <p>Date and time of incubation start in UTC</p> http://lod.bco-dmo.org/id/dataset-parameter/947319.rdf Name: date_out Units: unitless Description: <p>Date of incubation end</p> http://lod.bco-dmo.org/id/dataset-parameter/947320.rdf Name: time_out Units: unitless Description: <p>Date and time of incubation end. Local time zone, Pacific Daylight Time</p> http://lod.bco-dmo.org/id/dataset-parameter/947321.rdf Name: time_out_UTC Units: unitless Description: <p>Date and time of incubation end in UTC</p> http://lod.bco-dmo.org/id/dataset-parameter/947322.rdf Name: sanding Units: unitless Description: <p>Sanding treatment: Sand grit coarseness applied to shell to abrade periostracum (X). Coarse or Fine</p> http://lod.bco-dmo.org/id/dataset-parameter/947323.rdf Name: ph_spec_0 Units: unitless Description: <p>Initial pH of seawater (total scale) measured by spectrophotometer using m-cresol dye calibration</p> http://lod.bco-dmo.org/id/dataset-parameter/947324.rdf Name: temp_0 Units: Degrees Celsius (°C) Description: <p>Initial seawater temperature</p> http://lod.bco-dmo.org/id/dataset-parameter/947325.rdf Name: sal_0 Units: unitless Description: <p>Initial seawater salinity</p> http://lod.bco-dmo.org/id/dataset-parameter/947326.rdf Name: peri_percent Units: percentage (%) Description: <p>Periostracum cover: percent cover of intact periostracum over mussel valve</p> http://lod.bco-dmo.org/id/dataset-parameter/947327.rdf Name: shell_A Units: milimeters squared (mm^2) Description: <p>Mussel valve area measurement (ImageJ)</p> http://lod.bco-dmo.org/id/dataset-parameter/947328.rdf Name: shell_L Units: milimeter (mm) Description: <p>Longest measured length of valve (ImageJ)</p> http://lod.bco-dmo.org/id/dataset-parameter/947329.rdf Name: shell_W Units: milimeter (mm) Description: <p>Widest measured width of mussel valve (ImageJ)</p> http://lod.bco-dmo.org/id/dataset-parameter/947330.rdf Name: incub_day Units: day Description: <p>Length of incubation in days</p> http://lod.bco-dmo.org/id/dataset-parameter/947331.rdf Name: incub_hr Units: hour Description: <p>Length of incubation in hours</p> http://lod.bco-dmo.org/id/dataset-parameter/947332.rdf Name: incub_min Units: minute Description: <p>Length of incubation in minutes</p> http://lod.bco-dmo.org/id/dataset-parameter/947333.rdf Name: alk_t0 Units: micromole per kg (umol/kg) Description: <p>Initial alkalinity: measured alkalinity of seawater prior to incubation</p> http://lod.bco-dmo.org/id/dataset-parameter/947334.rdf Name: alk_t1 Units: micromole per kg (umol/kg) Description: <p>Final alkalinity: measured alkalinity of seawater after completion of incubation</p> http://lod.bco-dmo.org/id/dataset-parameter/947335.rdf Name: alk_t0_t1 Units: micromole per kg (umol/kg) Description: <p>Alkalinity change: change in alkalinity from initial measurement to final measurement (negative value indicates an increase in alkalinity)</p> http://lod.bco-dmo.org/id/dataset-parameter/947336.rdf Name: alk_t0_t1_norm Units: micromole per kg per hour (umol kg-1 hr-1) Description: <p>Alkalinity change per hour: measured change in alkalinity normalized per hour of incubation</p> http://lod.bco-dmo.org/id/dataset-parameter/947337.rdf Name: diss Units: micromole per kg per hour (umol kg-1 hr-1) Description: <p>Dissoluton rate: inverse of alkalinity change measurement</p> http://lod.bco-dmo.org/id/dataset-parameter/947338.rdf Name: diss_diff Units: micromole per kg per hr per milimeter squared (umol kg-1 hr-1 mm-2) Description: <p>Normalized difference in Dissolution rate: dissolution rate normalized to individual shell area measurements and subtracted from control valve dissolution rates</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 6937 https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/5953ca4a-eafb-4ae1-94d7-160ab23b6eef/content download https://doi.org/10.26008/1912/bco-dmo.935480.1 download onLine dataset &lt;p&gt;&lt;strong&gt;Overview: &lt;/strong&gt;We performed dissolution assays to explore the consequences of two levels of abrasion, used to remove the periostracum, on shell dissolution rates using dead shells of sacrificed adult&amp;nbsp;&lt;em&gt;Mytilus californianus&lt;/em&gt;&amp;nbsp;mussels. For the current study, adult mussels (42 - 64 mm in length) were collected from Marshall Gulch, California (38.369738 °N, -123.073921 °W) between August 2021 and March 2022 and transported immediately to the University of California Davis’ Bodega Marine Laboratory (&amp;lt; 30 min distance), in Bodega Bay, California. Mussels were held in filtered, flow-through seawater and fed ad libitum until used in experiments. Because we were interested in the effects of the periostracum in protecting the exterior surface of the shell, we sealed the inner, nacre layer of the shell with silicone (Loctite marine silicone sealant) to prevent its contact with seawater.&lt;/p&gt; &lt;p&gt;&amp;nbsp;&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Mussel valve preparation:&lt;/strong&gt; To prepare mussel valves for the incubation, shell periostracum was abraded using sanding sponges (Gator brand) of two levels of grit coarseness (P50-60: coarse (n = 11), and P120-150: fine (n = 12)). We included control mussel valves (15% of daily sample size), collected with no periostracum cover, to compare dissolution rates between abraded and periostracum that was removed naturally in the field.&lt;/p&gt; &lt;p&gt;&amp;nbsp;&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Dissolution Incubations and Analysis:&lt;/strong&gt; We incubated each mussel valve in a sealed 250 mL Nalgene bottle filled with modified seawater for 48 hours in a temperature-controlled room, recording seawater properties in each bottle before and at the end of each incubation, including temperature, salinity, and pH (Yellow Springs Instruments Professional Plus Sonde). YSI sonde pH values were calibrated to the total scale based on pH spectrophotometric measurements of m-cresol dye absorbance at the incubation temperature. Incubation bottles were agitated gently once every 8 hours over the course of the incubations to reduce the establishment of strong chemical gradients of their fluid contents. We took discrete seawater samples at the onset and end of each incubation for determination of total alkalinity concentration (TA); these “before-after” measurements of TA enabled quantification of the increase in alkalinity within each bottle over the duration of the incubation, and thereby the rate of dissolution of calcium carbonate (CaCO3) shell material for individual valves of known periostracum cover. Shell dissolution rates were quantified using standard alkalinity anomaly techniques (analyzing seawater samples in triplicate and selecting median TA for dissolution quantification), which relate calcium carbonate shell loss to an increase in the total alkalinity (TA) of surrounding seawater, per unit time. Across the dissolution trials, control incubations (15% of daily sample size) of modified seawater were conducted to verify minimal background changes in TA.&lt;/p&gt; &lt;p&gt;&amp;nbsp;&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Seawater manipulation:&lt;/strong&gt; We used direct chemical modification to the seawater carbonate system in order to create seawater treatments (pH = 7.4). To modify, equimolar additions of 1 M sodium bicarbonate (NaHCO3) and 1 M hydrochloric acid (HCl) were added to filtered seawater, capped, and were well mixed. This method results in an increase of dissolved inorganic carbon (DIC) and reduction of seawater pH without changing total alkalinity (TA).&lt;/p&gt; Specified by the Principal Investigator(s) &lt;p&gt;&lt;strong&gt;Data analysis:&lt;/strong&gt; We performed computations with R statistical software, RStudio version 2023.06.2. We performed carbonate system calculations using the package seacarb. To understand whether abrasion from sand of differing coarseness might influence dissolution, we computed the difference between dissolution rates of mussel valves in abrasion treatments, and those of unsanded control (collected with &amp;lt; 5% periostracum cover) valves exposed to similar low-pH conditions. We then used a Welch’s independent sample t-test to determine whether differences in average dissolution existed between the sanding treatments. Assumptions of normality and homogeneity of variances were assessed visually using QQ-plots.&lt;/p&gt; Specified by the Principal Investigator(s) 1) Processed the submitted file named sanddat_PUB.csv with the BCO-DMO tool Laminar. BCO-DMO parameter naming convention is for names to only include alphanumeric characters and underscores. Periods in the parameter names have been replaced with underscores. Renamed parameters according to BCO-DMO naming convention and to clarify what the parameter represents. ph.t.0 renamed to temp_0 to make it clear this is a temperature value and an initial one shell.L renamed to shell_L following BCO-DMO naming convention shell.Wrenamed to shell_W following BCO-DMO naming convention shell.a.mm2renamed to shell_A following BCO-DMO convention of removing units from parameter names if possible. Rename it using a capitalized A to match the capitalization of the parameters shell_L and shell_W. peri.sa renamed to peri_percent to clarify it represents a percent. incub.hr renamed ti incub_hr following BCO-DMO naming convention incub.min renamed incub_min following BCO-DMO naming convention delta.time.days renamed incub_day to match the naming format of incub_hr and incub_min since they are all incubation durations alk.t0 renamed to alk_t0 following BCO-DMO naming convention alk.t1 renamed to alk_t1BCO-DMO following BCO-DMO naming convention alk.t0.t1 renamed to alk_t0_t1BCO-DMO following BCO-DMO naming convention umol.per.hour renamed to alk_t0_t1_norm to resemble the naming of the change in alkalinity parameter alk_t0_t1 and adding the suffix _norm to indicate it is normalized. diss.diff renamed to diss_diff following BCO-DMO naming convention Created new parameters time_in_UTC and time_out_UTC by converting local timezone (Pacific Daylight time) parameters time_in and time_out to UTC Saved dataset to primary data file named 935480_v1_mussel_lab_incubations_simulated_periostracum_abrasion.csv 2) Checked species taxonomy of mussel collected, Mytilus californianus, and created a taxonomy file using information from the World Register of Marine Species (WoRMS: marinespecies.org) with columns: ScientificName, AphiaID, LSID, Authority, Kingdom, Phylum, Class, Order, Family, Genus, Species 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 Shimadzu spectrophotometer Shimadzu spectrophotometer PI Supplied Instrument Name: Shimadzu spectrophotometer Instrument Name: UV Spectrophotometer-Shimadzu Instrument Short Name:UV Spectrophotometer-Shimadzu Instrument Description: The Shimadzu UV Spectrophotometer is manufactured by Shimadzu Scientific Instruments (ssi.shimadzu.com). Shimadzu manufacturers several models of spectrophotometer; refer to dataset for make/model information. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB20/ Yellow Springs Instruments Professional Plus Sonde Yellow Springs Instruments Professional Plus Sonde PI Supplied Instrument Name: Yellow Springs Instruments Professional Plus Sonde Instrument Name: YSI Professional Plus Multi-Parameter Probe Instrument Short Name:YSI ProPlus Instrument Description: The YSI Professional Plus handheld multiparameter meter provides for the measurement of a variety of combinations for dissolved oxygen, conductivity, specific conductance, salinity, resistivity, total dissolved solids (TDS), pH, ORP, pH/ORP combination, ammonium (ammonia), nitrate, chloride and temperature. More information from the manufacturer.