http://lod.bco-dmo.org/id/dataset/940735 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 2024-10-21 ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data ISO 19115-2:2009(E) Processed dissolved oxygen and infauna of experimental chambers and ambient sensors acquired in the shallow subtidal shore-accessible site in Bon Secour Bay, Mobile Bay, Alabama, USA between August 7-12, 2021 2025-04-21 publication 2025-04-21 revision Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA) 2025-04-21 publication https://doi.org/10.26008/1912/bco-dmo.940735.1 Kelly Dorgan Dauphin Island Sea Lab 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: Gadeken, K. (2025) Processed dissolved oxygen and infauna of experimental chambers and ambient sensors acquired in the shallow subtidal shore-accessible site in Bon Secour Bay, Mobile Bay, Alabama, USA between August 7-12, 2021. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2025-04-21 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.940735.1 [access date] Processed in situ sediment oxygen data (SOD) Dataset Description: &lt;p&gt;Five matlab script files (.m) are added as supplemental files to this dataset. They are for the data analysis and results/figures of the results paper. Some of these are run step-wise. Note that because Chamber 1 malfunctioned in all three deployments, the scripts regularly exclude that chamber in data processing and analyses. Users replicating these methods who have better luck with their chamber 1 will want to add in code modified from analysis of the other chambers to analyze those data.&lt;/p&gt; Methods and Sampling: &lt;p&gt;In brief, a custom field deployable benthic chamber system was used to collect sediment oxygen demand (SOD) data in situ from small replicate patches of sediment throughout a diel oxygen cycle. Chambers were &quot;batch&quot; style incubation chambers that periodically flushed the overlying water with water from the external environment to start another incubation, and SOD could be calculated from the slopes of each incubation. Upon completion of the 24 hour deployment, the chambers were extracted, oxygen data offloaded from the chamber loggers, and the faunal community in each chamber identified and counted (1mm sieve).&lt;/p&gt; Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1844910 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1844910 completed Kelly Dorgan Dauphin Island Sea Lab 251-861-2141 x7553 101 Bienville Blvd Dauphin Island AL 36528-4603 USA kdorgan@disl.org pointOfContact asNeeded Dataset Version: 1 Unknown Latitude Longitude StartTime dayfrac Chamber SOD InitialDO biomass deployment sample Onset HOBO DO loggers (U26-001) theme None, User defined latitude longitude time begin sample description dissolved Oxygen weight_g deployment number featureType BCO-DMO Standard Parameters benthic incubation chamber Onset HOBO U26-001 Dissolved Oxygen Data Logger 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. CAREER: Mechanisms of bioturbation and ecosystem engineering by benthic infauna https://osprey.bco-dmo.org/project/811716 CAREER: Mechanisms of bioturbation and ecosystem engineering by benthic infauna <p><em>NSF Award Abstract:</em><br /> Marine sediments are important habitats for abundant and diverse communities of organisms that are important as food sources for higher trophic levels, including commercially important species. Through burrowing, constructing tubes, and feeding on sediments, these animals modify their physical and chemical environments to such an extent that they are considered ecosystem engineers. Bioturbation, the mixing of sediments by animals, is important in regenerating nutrients and transporting pollutants and carbon bound to mineral grains. Despite its importance, our ability to predict bioturbation rates and patterns from the community structure is poor, largely due to a lack of understanding of the mechanisms by which animals mix sediments. This project builds on earlier work showing that animals extend burrows through muddy sediments by fracture to test the hypothesis that the mechanical properties of sediments that affect burrowing mechanics also affect sediment mixing. More broadly, this project examines the relative contributions of (i) the functional roles of the organisms in the community, (ii) the mechanical properties of sediments, and (iii) factors that might increase or decrease animal activity such as temperature and food availability to bioturbation rates. Burrowing animals modify the physical properties of sediments, and this project quantifies these changes and tests the hypothesis that these changes are ecologically important and affect community succession following a disturbance. In addition to this scientific broader impact, this project involves development of instrumentation to measure sediment properties and includes a substantial education plan to introduce graduate, undergraduate, and middle school students to the important role that technology plays in marine science.</p> <p>Through burrowing and feeding activities, benthic infauna mix sediments and modify their physical environments. Bioturbation gates the burial of organic matter, enhances nutrient regeneration, and smears the paleontological and stratigraphic record. However, current understanding of the mechanisms by which infaunal activities mix sediments is insufficient to predict the impacts of changes in infaunal community structure on important sediment ecosystem functions driven by bioturbation. This project tests specific hypotheses relating infaunal communities, bioturbation, and geotechnical properties with the ultimate goal of understanding the dynamic changes and potential feedbacks between infauna and their physical environments. This project integrates field and lab experiments to assess the relative importance of infaunal community structure and activities to bioturbation rates. Additionally, this project builds on recent work showing that muddy sediments are elastic gels through which worms extend burrows by fracture to propose that geotechnical properties of sediments mediate bioturbation by governing the release of particles from the sediment matrix during burrow extension. Finite element modeling determines how the release of particles by fracture during burrowing depends on the fracture toughness (cohesion) and stiffness (compaction) of sediments and complements laboratory experiments characterizing the impact of geotechnical properties on burrowing behaviors. The proposed research also aims to determine whether impacts of infauna on geotechnical properties are ecologically important. Changes in infaunal communities and geotechnical properties following an experimental physical disturbance address the hypothesis that ecosystem engineering of bulk sediment properties facilitates succession.</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> Bioturbation and Ecosystem Engineering largerWorkCitation project eng; USA oceans -87.894094 -87.894094 30.239478 30.239478 2021-08-07 2021-08-12 Dauphin Island Sea Lab, Dauphin Island, AL 0 BCO-DMO catalogue of parameters from Processed dissolved oxygen and infauna of experimental chambers and ambient sensors acquired in the shallow subtidal shore-accessible site in Bon Secour Bay, Mobile Bay, Alabama, USA between August 7-12, 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 http://lod.bco-dmo.org/id/dataset-parameter/941261.rdf Name: Latitude Units: decimal degrees Description: <p>Latitude of approximate sampling location, south is negative</p> http://lod.bco-dmo.org/id/dataset-parameter/941262.rdf Name: Longitude Units: decimal degrees Description: <p>Longitude of approximate sampling location, west is negative</p> http://lod.bco-dmo.org/id/dataset-parameter/941263.rdf Name: StartTime Units: unitless Description: <p>StartTime of incubation in Central Standard Time (CST)</p> http://lod.bco-dmo.org/id/dataset-parameter/941264.rdf Name: dayfrac Units: unitless Description: <p>Proportion of a day after start of deployment at which that data point was collected. Start was 11AM for all three deployments.</p> http://lod.bco-dmo.org/id/dataset-parameter/941265.rdf Name: Chamber Units: unitless Description: <p>Number of chamber in the deployment, out of 5 replicate chambers</p> http://lod.bco-dmo.org/id/dataset-parameter/941266.rdf Name: SOD Units: millimoles per square meter per day (mmol m-2 d-1) Description: <p>Sediment Oxygen Demand, the rate of oxygen flux across the sediment-water interface</p> http://lod.bco-dmo.org/id/dataset-parameter/941267.rdf Name: InitialDO Units: milligrams per liter (mg L-1) Description: <p>Dissolved oxygen concentration at the beginning of the incubation</p> http://lod.bco-dmo.org/id/dataset-parameter/941268.rdf Name: biomass Units: grams (g) Description: <p>Biomass for the chamber area of 0.17 per square meters (not yet standardized to m-2)</p> http://lod.bco-dmo.org/id/dataset-parameter/941269.rdf Name: deployment Units: unitless Description: <p>Deployment number (1-3)</p> http://lod.bco-dmo.org/id/dataset-parameter/941270.rdf Name: sample Units: unitless Description: <p>Replicate sample out of all chambers in all deployments, numbered in ascending deployment and chamber order</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 51265 https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/eb8c0792-60d4-477a-84f9-70cdfeea566f/content download https://doi.org/10.26008/1912/bco-dmo.940735.1 download onLine dataset &lt;p&gt;In brief, a custom field deployable benthic chamber system was used to collect sediment oxygen demand (SOD) data in situ from small replicate patches of sediment throughout a diel oxygen cycle. Chambers were &quot;batch&quot; style incubation chambers that periodically flushed the overlying water with water from the external environment to start another incubation, and SOD could be calculated from the slopes of each incubation. Upon completion of the 24 hour deployment, the chambers were extracted, oxygen data offloaded from the chamber loggers, and the faunal community in each chamber identified and counted (1mm sieve).&lt;/p&gt; Specified by the Principal Investigator(s) &lt;p&gt;The data file s the compiled data for every high-quality chamber incubation among all three deployments, the product of data processing, filtration, and consolidation done in MATLAB scripts 2, 3 and 4. This sheet is used in MATLAB script 5 for data analysis. It contains the start date and time of the incubation, the elapsed time since the start of the deployment (dayfrac), the chamber number out of 5 replicate chambers, the SOD (sediment oxygen demand) in mmol m-2 d-1, the Initial DO (dissolved oxygen) of that incubation in mg L-1, the total biomass of fauna within the chamber in grams, the deployment number, and the overall study sample number.&lt;/p&gt; &lt;p&gt;DO data processing involved manual selection of oxygen slopes from raw oxygen data for each deployment to generate a data set of sediment oxygen demand (SOD) values. Data were compiled into a master data sheet which was then used to compare SOD with the dissolved oxygen levels at the time of the slope and the faunal community in the particular chamber.&lt;/p&gt; Specified by the Principal Investigator(s) * Added Matlab script files as supplemental files 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:This project used a custom built field deployable benthic chamber system. Construction and functioning of the system are outlined in Gadeken et al 2023 L&O:Methods. Instrument Name: benthic incubation chamber Instrument Short Name: Instrument Description: A device that isolates a portion of seabed plus overlying water from its surroundings. Either returns the entire system to the surface or incorporates sampling devices and/or in-situ sensors. Onset HOBO DO loggers (U26-001) Onset HOBO DO loggers (U26-001) PI Supplied Instrument Name: Onset HOBO DO loggers (U26-001) Instrument Name: Onset HOBO U26-001 Dissolved Oxygen Data Logger Instrument Short Name:HOBO DO logger (U26-001) Instrument Description: A dissolved oxygen sensor, temperature sensor, and integrated data logger. The HOBO U26-001 can be used in freshwater and saltwater conditions, and outputs dissolved oxygen (mg/L) and temperature (degC) measurements.