http://lod.bco-dmo.org/id/dataset/968956
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
2025-07-16
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Polysaccharide hydrolase activities from water samples collected at various sites under varying hydrostatic pressures in the Western North Atlantic aboard R/V Atlantic Explorer cruise AE2413 in May 2024
2025-07-23
publication
2025-07-23
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2025-07-23
publication
https://doi.org/10.26008/1912/bco-dmo.968956.1
Carol Arnosti
University of North Carolina at Chapel Hill
principalInvestigator
Chad Lloyd
University of North Carolina at Chapel Hill
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: Lloyd, C., Hennessey, E., Arnosti, C., Ghobrial, S. (2025) Polysaccharide hydrolase activities from water samples collected at various sites under varying hydrostatic pressures in the Western North Atlantic aboard R/V Atlantic Explorer cruise AE2413 in May 2024. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2025-07-23 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.968956.1 [access date]
Polysaccharide hydrolase activities from water samples collected at various sites under varying hydrostatic pressures in the Western North Atlantic Dataset Description: Methods and Sampling: <p>Water was collected via Niskin bottles mounted on a rosette, equipped with a CTD in the Western North Atlantic aboard R/V Atlantic Explorer, cruise AE2413 in May 2024. Sampling was done at the following locations:</p>
<ul>
<li>stn24:&nbsp;34.99333,&nbsp;-73.03333</li>
<li>stn25:&nbsp;34.99685,&nbsp;-68.24842</li>
<li>stn26:&nbsp;42.17828,&nbsp;-60.0479</li>
</ul>
<p>At each station, seawater was transferred to 20 L carboys that were rinsed three times with water from the sampling depth and then filled with seawater from a single Niskin bottle, using silicone tubing that had been acid washed then rinsed with distilled water prior to use. From each carboy, water was dispensed into smaller glass containers that were cleaned and pre-rinsed three times with water from the carboy prior to dispensing. This water was used to measure cell counts, &nbsp;and the activities of polysaccharide hydrolases &nbsp;under varying hydrostatic pressures (0.1, 20, and 40 MPa). &nbsp;A separate glass Duran bottle was filled with seawater from the carboy and sterilized in an autoclave for over 30 minutes to serve as a killed control for various measurements.</p>
<p>For each substrate and time point, three 3 mL Exetainer vials were filled with seawater and one 3 mL Exetainer vial was filled with autoclaved seawater to serve as a killed control. Substrate was added at 3.5 μM monomer-equivalent concentrations, except for fucoidan, which was added at 5 μM concentrations (a higher concentration was necessary for sufficient fluorescence signal). Two 3 mL Exetainer vials – one with seawater and one with autoclaved seawater – with no added substrate served as blank controls. Vials for each substrate were pressurized to either 0.1, 20, or 40 MPa in individual pressure vessels for each time point and stored in the dark at 4ºC for 0, 5, 12, or 22 days.</p>
<p>At each time point, three pressure vessels were depressurized (one at 0.1, 20, and 40 MPa), vials were removed and using a sterile syringe, incubations were filtered through a 0.2 μm pore size syringe filter, and stored frozen until analysis.</p>
<p>Hydrolysis rates were calculated from the change in molecular weight distribution of the substrate over time, as described in detail in Arnosti (2003).&nbsp;</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-2241720 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=2241720
completed
Carol Arnosti
University of North Carolina at Chapel Hill
919-962-5754
Dept. of Marine Sciences 3117A Venable/Murray Hall
Chapel Hill
NC
27599-3300
USA
arnosti@email.unc.edu
pointOfContact
Chad Lloyd
University of North Carolina at Chapel Hill
cclloyd@unc.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
deployment
station
latitude
longitude
date
time_local_est
ISO_DateTime_UTC
cast_number
depth
depth_actual
in_situ_temp
sample_type
incubation_pressure
incubation_Temp
unamended_amended
substrate
timepoint_no
timepoint_days
ratex_nM_hr
rate1_nM_hr
rate2_nM_hr
rate3_nM_hr
mean_rate_nM_hr
sd_rate_nM_hr
kcratex_nM_hr
kcrate1_nM_hr
kcrate2_nM_hr
kcrate3_nM_hr
mean_kcrate_nM_hr
sd_kcrate_nM_hr
CTD
High-Performance Liquid Chromatograph
Niskin bottle
Pressure vessels
theme
None, User defined
Cruise identfier
station
latitude
longitude
date
time_local
ISO_DateTime_UTC
cast
site description
depth
water temperature at measurement depth
sample type
water pressure
incubation temperature
treatment
time_point
time_elapsed
hydrolase activity
standard deviation
featureType
BCO-DMO Standard Parameters
CTD Sea-Bird SBE 911plus
High-Performance Liquid Chromatograph
Niskin bottle
Pressure Vessel
instrument
BCO-DMO Standard Instruments
AE2413
service
Deployment Activity
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: Pressure effects on microbially-catalyzed organic matter degradation in the deep ocean
https://osprey.bco-dmo.org/project/896812
Collaborative Research: Pressure effects on microbially-catalyzed organic matter degradation in the deep ocean
<p><em>NSF Award Abstract:</em><br />
Microbes are important players in the carbon cycle in the ocean. These organisms consume organic carbon and produce carbon dioxide in marine systems. Because the average depth of the ocean is 4000 m, microbes must work at high pressures typical of the deep ocean (>1000 m). Although high pressure is known to affect marine microbes, their carbon cycling activities have mostly been measured at surface ocean pressures. As a result, it remains unknown how closely these measurements reflect the activities of deep-sea microbes at high pressures. As a result of collaborations with scientists in Denmark and Germany, this project will be able to use special equipment to investigate the effects of high pressures on marine microbes and their carbon cycling activities. This work is necessary to quantify rates of carbon cycling and identify the microbes involved, especially in deep waters. The project will provide training for diverse undergraduate and graduate students, and a postdoc who will conduct novel research in the U.S., Denmark, and Germany, both at sea and in the lab. The scientists will also teach middle school students about the role of microbes in the carbon cycle and pressure effects on life in the ocean. The project will provide internships for high school students, focusing on first-generation students who would like to go to college. This work may aid in future efforts to identify enzymes that function well under high pressure.</p>
<p>Heterotrophic microbes (e.g., bacteria and archaea) are found throughout the ocean. Their biogeochemical functions help determine the rates and locations at which carbon and nutrients are regenerated, as well as the extent to which organic matter is preserved. Although research has shown that pressure profoundly affects the activities of marine microbes, most investigations of microbial communities of the deep sea are conducted at atmospheric pressure, due to the limited availability of specialized equipment. In collaboration with the Danish Center for Hadal Research at the University of Southern Denmark, this study will identify the effects of pressure on microbial communities and their extracellular enzymes of pressures characteristic of bathy- and abyssopelagic depths. At sea and in the lab, the scientific team will compare the effects of depressurization on the activities of enzymes produced by microbial communities of the deep ocean, as well as the effects of high pressure on surface-water derived enzymes and communities. Fieldwork will take place in Danish coastal waters, well as in the open North Atlantic and Pacific Oceans. Using pressurization systems and in situ incubations, this study will measure hydrolysis rates of peptides and polysaccharides, two of the major classes of marine organic matter. Project activities will also focus on developing the means to measure enzyme activities in situ in the deep ocean. In collaboration with colleagues from the Max Planck Institute for Marine Microbiology in Germany, this proect will additionally investigate whether pressure affects the selfish uptake of polysaccharides. These studies will provide new insight into understudied but key factors that help determine the fate of organic matter in the deep ocean.</p>
<p>This project is funded by the Biological and Chemical Oceanography Programs.</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>
Pressure effects on microbes
largerWorkCitation
project
eng; USA
biota
oceans
-73.03333
-60.0479
34.99333
42.17828
2024-05-10
2024-05-19
Western North Atlantic, hadal depths of the Pacific
0
BCO-DMO catalogue of parameters from Polysaccharide hydrolase activities from water samples collected at various sites under varying hydrostatic pressures in the Western North Atlantic aboard R/V Atlantic Explorer cruise AE2413 in May 2024
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/969011.rdf
Name: deployment
Units: unitless
Description: <p>Cruise ID</p>
http://lod.bco-dmo.org/id/dataset-parameter/969012.rdf
Name: station
Units: unitless
Description: <p>Station number 24, 25, or 26</p>
http://lod.bco-dmo.org/id/dataset-parameter/969013.rdf
Name: latitude
Units: decimal degrees
Description: <p>Latitude of sampling site, south is negative</p>
http://lod.bco-dmo.org/id/dataset-parameter/969014.rdf
Name: longitude
Units: decimal degrees
Description: <p>Longitude of sampling site, west is negative</p>
http://lod.bco-dmo.org/id/dataset-parameter/969015.rdf
Name: date
Units: unitless
Description: <p>Date of sample collection</p>
http://lod.bco-dmo.org/id/dataset-parameter/969016.rdf
Name: time_local_est
Units: unitless
Description: <p>Time of sample collection (local time), US Eastern Time (UTC-05:00)</p>
http://lod.bco-dmo.org/id/dataset-parameter/969017.rdf
Name: ISO_DateTime_UTC
Units: unitless
Description: <p>Datetime of sample collection in ISO 8601 format, UTC</p>
http://lod.bco-dmo.org/id/dataset-parameter/969018.rdf
Name: cast_number
Units: unitless
Description: <p>Cast number (refers to cast of CTD/Niskin bottles on cruise)</p>
http://lod.bco-dmo.org/id/dataset-parameter/969019.rdf
Name: depth
Units: unitless
Description: <p>Water column feature or oceanic zone sampled (DCM, OMZ, Bathy, or Deep (bottom or near bottom). Station 26 DCM was not measured due to sampling error</p>
http://lod.bco-dmo.org/id/dataset-parameter/969020.rdf
Name: depth_actual
Units: m
Description: <p>Actual depth at which water was collected</p>
http://lod.bco-dmo.org/id/dataset-parameter/969021.rdf
Name: in_situ_temp
Units: °C
Description: <p>Temperature of the samples in-situ</p>
http://lod.bco-dmo.org/id/dataset-parameter/969022.rdf
Name: sample_type
Units: unitless
Description: <p>The type of sample, whether it was incubated using water from the bulk water column, sediments, or amended</p>
http://lod.bco-dmo.org/id/dataset-parameter/969023.rdf
Name: incubation_pressure
Units: MPa
Description: <p>Amount of pressure applied during incubation</p>
http://lod.bco-dmo.org/id/dataset-parameter/969024.rdf
Name: incubation_Temp
Units: °C
Description: <p>Temperature of incubation</p>
http://lod.bco-dmo.org/id/dataset-parameter/969025.rdf
Name: unamended_amended
Units: unitless
Description: <p>Whether the sample was amended (A) or unamended (U)</p>
http://lod.bco-dmo.org/id/dataset-parameter/969026.rdf
Name: substrate
Units: unitless
Description: <p>Polysaccharide used for incubation: ara = arabinogalactan, chn = chondroitin sulfate, fuc = fucoidan, lam = laminarin, man = mannan, pul = pullulan, xyl = xylan</p>
http://lod.bco-dmo.org/id/dataset-parameter/969027.rdf
Name: timepoint_no
Units: unitless
Description: <p>The timepoint number sampled for each incubation</p>
http://lod.bco-dmo.org/id/dataset-parameter/969028.rdf
Name: timepoint_days
Units: days
Description: <p>The amount of time that has elapsed at each timepoint</p>
http://lod.bco-dmo.org/id/dataset-parameter/969029.rdf
Name: ratex_nM_hr
Units: nmol L-1 hr-1
Description: <p>The hydrolysis rate for the kill-control</p>
http://lod.bco-dmo.org/id/dataset-parameter/969030.rdf
Name: rate1_nM_hr
Units: nmol L-1 hr-1
Description: <p>The hydrolysis rate for the first replicate</p>
http://lod.bco-dmo.org/id/dataset-parameter/969031.rdf
Name: rate2_nM_hr
Units: nmol L-1 hr-1
Description: <p>The hydrolysis rate for the second replicate</p>
http://lod.bco-dmo.org/id/dataset-parameter/969032.rdf
Name: rate3_nM_hr
Units: nmol L-1 hr-1
Description: <p>The hydrolysis rate for the third replicate</p>
http://lod.bco-dmo.org/id/dataset-parameter/969033.rdf
Name: mean_rate_nM_hr
Units: nmol L-1 hr-1
Description: <p>The average hydrolysis rate for all replicates</p>
http://lod.bco-dmo.org/id/dataset-parameter/969034.rdf
Name: sd_rate_nM_hr
Units: nmol L-1 hr-1
Description: <p>The standard deviation of the hydrolysis rates for all replicates</p>
http://lod.bco-dmo.org/id/dataset-parameter/969035.rdf
Name: kcratex_nM_hr
Units: nmol L-1 hr-1
Description: <p>The kill-corrected hydrolysis rate for the kill-control</p>
http://lod.bco-dmo.org/id/dataset-parameter/969036.rdf
Name: kcrate1_nM_hr
Units: nmol L-1 hr-1
Description: <p>The kill-corrected hydrolysis rate for the first</p>
http://lod.bco-dmo.org/id/dataset-parameter/969037.rdf
Name: kcrate2_nM_hr
Units: nmol L-1 hr-1
Description: <p>The kill-corrected hydrolysis rate for the second</p>
http://lod.bco-dmo.org/id/dataset-parameter/969038.rdf
Name: kcrate3_nM_hr
Units: nmol L-1 hr-1
Description: <p>The kill-corrected hydrolysis rate for the third replicate</p>
http://lod.bco-dmo.org/id/dataset-parameter/969039.rdf
Name: mean_kcrate_nM_hr
Units: nmol L-1 hr-1
Description: <p>The average kill-corrected hydrolysis rate for all replicates</p>
http://lod.bco-dmo.org/id/dataset-parameter/969040.rdf
Name: sd_kcrate_nM_hr
Units: nmol L-1 hr-1
Description: <p>The standard deviation of the kill-corrected hydrolysis rates for all replicates</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
109469
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/a19d41c6-3223-4d9f-a83e-a62aaba68ca8/content
download
https://doi.org/10.26008/1912/bco-dmo.968956.1
download
onLine
dataset
<p>Water was collected via Niskin bottles mounted on a rosette, equipped with a CTD in the Western North Atlantic aboard R/V Atlantic Explorer, cruise AE2413 in May 2024. Sampling was done at the following locations:</p>
<ul>
<li>stn24:&nbsp;34.99333,&nbsp;-73.03333</li>
<li>stn25:&nbsp;34.99685,&nbsp;-68.24842</li>
<li>stn26:&nbsp;42.17828,&nbsp;-60.0479</li>
</ul>
<p>At each station, seawater was transferred to 20 L carboys that were rinsed three times with water from the sampling depth and then filled with seawater from a single Niskin bottle, using silicone tubing that had been acid washed then rinsed with distilled water prior to use. From each carboy, water was dispensed into smaller glass containers that were cleaned and pre-rinsed three times with water from the carboy prior to dispensing. This water was used to measure cell counts, &nbsp;and the activities of polysaccharide hydrolases &nbsp;under varying hydrostatic pressures (0.1, 20, and 40 MPa). &nbsp;A separate glass Duran bottle was filled with seawater from the carboy and sterilized in an autoclave for over 30 minutes to serve as a killed control for various measurements.</p>
<p>For each substrate and time point, three 3 mL Exetainer vials were filled with seawater and one 3 mL Exetainer vial was filled with autoclaved seawater to serve as a killed control. Substrate was added at 3.5 μM monomer-equivalent concentrations, except for fucoidan, which was added at 5 μM concentrations (a higher concentration was necessary for sufficient fluorescence signal). Two 3 mL Exetainer vials – one with seawater and one with autoclaved seawater – with no added substrate served as blank controls. Vials for each substrate were pressurized to either 0.1, 20, or 40 MPa in individual pressure vessels for each time point and stored in the dark at 4ºC for 0, 5, 12, or 22 days.</p>
<p>At each time point, three pressure vessels were depressurized (one at 0.1, 20, and 40 MPa), vials were removed and using a sterile syringe, incubations were filtered through a 0.2 μm pore size syringe filter, and stored frozen until analysis.</p>
<p>Hydrolysis rates were calculated from the change in molecular weight distribution of the substrate over time, as described in detail in Arnosti (2003).&nbsp;</p>
Specified by the Principal Investigator(s)
<p><!--StartFragment-->Hydrolysis rates were calculated from the change in molecular weight distribution of the substrate over time, as described in detail in Arnosti (2003). Scripts to calculate hydrolysis rates are available in the associated Github repository (Hoarfrost, 2017).<!--EndFragment--></p>
Specified by the Principal Investigator(s)
- Imported "20250505_BCODMO_AE2413_FlaPS-bulk.csv" into BCO-DMO system
-Convert date to ISO YYYY-MM-DD date format
-Create ISO datetime, using "date" and "time"
-Renamed fields to remove spaces and special characters in keeping with BCO-DMO system and style guidelines
-Exported file as "968956_v1_ae2413_flaps_bulk.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
CTD
CTD
PI Supplied Instrument Name: CTD PI Supplied Instrument Description:Water was collected via Niskin bottles mounted on a rosette, equipped with a CTD. Instrument Name: CTD Sea-Bird SBE 911plus Instrument Short Name:CTD SBE 911plus Instrument Description: The Sea-Bird SBE 911 plus is a type of CTD instrument package for continuous measurement of conductivity, temperature and pressure. The SBE 911 plus includes the SBE 9plus Underwater Unit and the SBE 11plus Deck Unit (for real-time readout using conductive wire) for deployment from a vessel. The combination of the SBE 9 plus and SBE 11 plus is called a SBE 911 plus. The SBE 9 plus uses Sea-Bird's standard modular temperature and conductivity sensors (SBE 3 plus and SBE 4). The SBE 9 plus CTD can be configured with up to eight auxiliary sensors to measure other parameters including dissolved oxygen, pH, turbidity, fluorescence, light (PAR), light transmission, etc.). more information from Sea-Bird Electronics Community Standard Description: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0058/
High-Performance Liquid Chromatograph
High-Performance Liquid Chromatograph
PI Supplied Instrument Name: High-Performance Liquid Chromatograph PI Supplied Instrument Description:HPLC system with Hitachi fluorescence detectors (L-7485, L-2485, Chromaster - 5440) Instrument Name: High-Performance Liquid Chromatograph Instrument Short Name:HPLC Instrument Description: A High-performance liquid chromatograph (HPLC) is a type of liquid chromatography used to separate compounds that are dissolved in solution. HPLC instruments consist of a reservoir of the mobile phase, a pump, an injector, a separation column, and a detector. Compounds are separated by high pressure pumping of the sample mixture onto a column packed with microspheres coated with the stationary phase. The different components in the mixture pass through the column at different rates due to differences in their partitioning behavior between the mobile liquid phase and the stationary phase. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB11/
Niskin bottle
Niskin bottle
PI Supplied Instrument Name: Niskin bottle PI Supplied Instrument Description:Water was collected via Niskin bottles mounted on a rosette, equipped with a CTD. Instrument Name: Niskin bottle Instrument Short Name:Niskin bottle Instrument Description: A Niskin bottle (a next generation water sampler based on the Nansen bottle) is a cylindrical, non-metallic water collection device with stoppers at both ends. The bottles can be attached individually on a hydrowire or deployed in 12, 24, or 36 bottle Rosette systems mounted on a frame and combined with a CTD. Niskin bottles are used to collect discrete water samples for a range of measurements including pigments, nutrients, plankton, etc. Community Standard Description: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0412/
Pressure vessels
Pressure vessels
PI Supplied Instrument Name: Pressure vessels PI Supplied Instrument Description:Vials for each substrate were pressurized to either 0.1, 20, or 40 MPa in individual pressure vessels for each time point and stored in the dark at 4ºC for 0, 5, 12, or 22 days. Instrument Name: Pressure Vessel Instrument Short Name:pressurized container Instrument Description: A pressure vessel is a container designed to hold gases or liquids at a pressure substantially different from the ambient pressure. Construction methods and materials may be chosen to suit the pressure application, and will depend on the size of the vessel, the contents, working pressure, mass constraints, and the number of items required. Examples include glassware, autoclaves, compressed gas cylinders, compressors (including refrigeration), vacuum chambers and custom designed laboratory vessels.
Cruise: AE2413
AE2413
R/V Atlantic Explorer
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantic Explorer
vessel
AE2413
John Paul Balmonte
University of Southern Denmark
R/V Atlantic Explorer
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantic Explorer
vessel