http://lod.bco-dmo.org/id/dataset/986681
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
2025-10-13
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Polysaccharide hydrolysis rates from bulk water and 3 µm retained fraction (particle-associated) incubations in the Northwest Atlantic aboard the R/V Endeavor cruise EN584 from Jun to Jul 2016
2025-11-26
publication
2025-11-26
revision
BCO-DMO Linked Data URI
2025-11-26
creation
http://lod.bco-dmo.org/id/dataset/986681
Carol Arnosti
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., Balmonte, J. Paul, Brown, S. A., Arnosti, C., Ghobrial, S. (2025) Polysaccharide hydrolysis rates from bulk water and 3 µm retained fraction (particle-associated) incubations in the Northwest Atlantic aboard the R/V Endeavor cruise EN584 from Jun to Jul 2016. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2025-11-26 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/986681 [access date]
EN584 Bulk PA FlaPS Rates Dataset Description: Methods and Sampling: <p>Water samples were&nbsp;collected via Niskin bottles mounted on a rosette, equipped with a CTD aboard&nbsp;R/V Endeavor cruise EN584 from Jun to Jul 2016 in the Northwest Atlantic.&nbsp;</p>
<p>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, bacterial productivity, and the activities of polysaccharide hydrolases, peptidases, and glucosidases. A separate glass Duran bottle was filled with seawater from the carboy and sterilized in an autoclave for 20-30 minutes to serve as a killed control for various measurements.</p>
<p>For each substrate, three 15 mL falcon tubes were filled with bulk seawater and one 15 mL falcon tube was filled with autoclaved seawater to serve as a killed control. Experiments on (operationally defined) particles were carried out by gravity-filtering water through 3 µm pore size filters.&nbsp; 1/12th sections of the 3 µm pore-size filters were submerged in 15 mL artificial seawater. &nbsp;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 15 mL falcon tubes – one with seawater and one with autoclaved seawater – with no added substrate served as blank controls. Incubations were stored in the dark at as close to in situ temperature as possible.</p>
<p>Subsamples of the incubations were collected at time zero, and at a sequence of subsequent time points. At each time point, 2 mL of seawater was collected from the 15 mL falcon tube using a sterile syringe, filtered through a 0.2 μm pore size syringe filter, and stored frozen until analysis.</p>
<p>Molecular weight distributions were determined by sequential size-exclusion chromatography using a Bio-Rad Econo-Column packed with ~20 cm of Sephadex G-50 resin followed by ~18 cm of Sephadex G-75 resin, and quantified on Shimadzu 10ADvp HPLC systems equipped with Hitachi fluorescence detectors controlled by EZStart software. Hydrolysis rates were calculated based on the change in molecular weight distribution from higher molecular weight initially to lower molecular weight of the substrate over the course of the incubation time, as described in detail in Arnosti (2003).&nbsp;</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1332881 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1332881
onGoing
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
asNeeded
Dataset Version: 1
Unknown
Deployment
stn
latitude
longitude
ISO_DateTime_Local
ISO_DateTime_UTC
cast_number
depth_sequence
depth_actual
sample_type
amended_unamended
substrate
timepoint
time_elapsed_hr
rep1_rate
rep2_rate
rep3_rate
average
std_dev
CTD
Shimadzu 10ADvp HPLC system
Niskin bottles
theme
None, User defined
Cruise identfier
station
latitude
longitude
ISO_DateTime_Local
ISO_DateTime_UTC
cast
depth_comment
depth
sample type
treatment
time_point
time_elapsed
hydrolase activity
mean
standard deviation
featureType
BCO-DMO Standard Parameters
CTD Sea-Bird SBE 911plus
High-Performance Liquid Chromatograph
Niskin bottle
instrument
BCO-DMO Standard Instruments
EN584
service
Deployment Activity
NW Atlantic: Atlantic Ocean, nearshore waters close to Cape Hatteras/Cape Lookout, and a transect along ca 36 N out to ca 58 W.
place
Locations
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.
Latitudinal and depth-related contrasts in enzymatic capabilities of pelagic microbial communities: Predictable patterns in the ocean?
https://osprey.bco-dmo.org/project/712359
Latitudinal and depth-related contrasts in enzymatic capabilities of pelagic microbial communities: Predictable patterns in the ocean?
<p><em>NSF Award Abstract:</em><br />
Heterotrophic microbial communities are key players in the marine carbon cycle, transforming and respiring organic carbon, regenerating nutrients, and acting as the final filter in sediments through which organic matter passes before long-term burial. Microbially-driven carbon cycling in the ocean profoundly affects the global carbon cycle, but key factors determining rates and locations of organic matter remineralization are unclear. In this study, researchers from the University of North Carolina at Chapel Hill will investigate the ability of pelagic microbial communities to initiate the remineralization of polysaccharides and proteins, which together constitute a major pool of organic matter in the ocean. Results from this study will be predictive on a large scale regarding the nature of the microbial response to organic matter input, and will provide a mechanistic framework for interpreting organic matter reactivity in the ocean.</p>
<p>Broader Impacts: This study will provide scientific training for undergraduate and graduate students from underrepresented groups. The project will also involve German colleagues, thus strengthening international scientific collaboration.</p>
Patterns of activities
largerWorkCitation
project
eng; USA
biota
oceans
NW Atlantic: Atlantic Ocean, nearshore waters close to Cape Hatteras/Cape Lookout, and a transect along ca 36 N out to ca 58 W.
-76.60145
-58.043667
33.923667
36.015167
2016-06-29
2016-07-11
Atlantic Ocean, Arctic Ocean, Pacific Ocean, Greenland
0
BCO-DMO catalogue of parameters from Polysaccharide hydrolysis rates from bulk water and 3 µm retained fraction (particle-associated) incubations in the Northwest Atlantic aboard the R/V Endeavor cruise EN584 from Jun to Jul 2016
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/990393.rdf
Name: Deployment
Units: unitless
Description: <p>Cruise ID</p>
http://lod.bco-dmo.org/id/dataset-parameter/990394.rdf
Name: stn
Units: unitless
Description: <p>Station number for cruise (9-16, and 12r, r = repeat).</p>
http://lod.bco-dmo.org/id/dataset-parameter/990395.rdf
Name: latitude
Units: decimal degrees
Description: <p>Latitude, North is positive</p>
http://lod.bco-dmo.org/id/dataset-parameter/990397.rdf
Name: longitude
Units: decimal degrees
Description: <p>Longitude, West is negative</p>
http://lod.bco-dmo.org/id/dataset-parameter/990399.rdf
Name: ISO_DateTime_Local
Units: unitless
Description: <p>Time of sample collection, EST/EDT</p>
http://lod.bco-dmo.org/id/dataset-parameter/990400.rdf
Name: ISO_DateTime_UTC
Units: unitless
Description: <p>Time of sample collection, UTC</p>
http://lod.bco-dmo.org/id/dataset-parameter/990402.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/990403.rdf
Name: depth_sequence
Units: unitless
Description: <p>Sequence of depths sampled (1 is surface; higher numbers at greater depths)</p>
http://lod.bco-dmo.org/id/dataset-parameter/990404.rdf
Name: depth_actual
Units: meters
Description: <p>Actual depth at which water was collected</p>
http://lod.bco-dmo.org/id/dataset-parameter/990406.rdf
Name: sample_type
Units: unitless
Description: <p>Sample from bulk water (Bulk) or Particle Associated (PA) incubation</p>
http://lod.bco-dmo.org/id/dataset-parameter/990407.rdf
Name: amended_unamended
Units: unitless
Description: <p>Refers to whether high molecular weight thalassiosira weissflogii extract was added or not. In this dataset all incubations were unamended</p>
http://lod.bco-dmo.org/id/dataset-parameter/990408.rdf
Name: substrate
Units: unitless
Description: <p>Polysaccharide used for incubation: arabinogalactan, chondroitin sulfate, fucoidan, laminarin, pullulan, or xylan.</p>
http://lod.bco-dmo.org/id/dataset-parameter/990409.rdf
Name: timepoint
Units: unitless
Description: <p>Timepoint_Number of sample collection</p>
http://lod.bco-dmo.org/id/dataset-parameter/990410.rdf
Name: time_elapsed_hr
Units: hours
Description: <p>Incubation time elapsed at sample collection in hours</p>
http://lod.bco-dmo.org/id/dataset-parameter/990411.rdf
Name: rep1_rate
Units: nM*hr-1
Description: <p>Hydrolysis rate of incubation replicate #1 at subsampled timepoint above killed control</p>
http://lod.bco-dmo.org/id/dataset-parameter/990412.rdf
Name: rep2_rate
Units: nM*hr-1
Description: <p>Hydrolysis rate of incubation replicate #2 at subsampled timepoint above killed control</p>
http://lod.bco-dmo.org/id/dataset-parameter/990413.rdf
Name: rep3_rate
Units: nM*hr-1
Description: <p>Hydrolysis rate of incubation replicate #3 at subsampled timepoint above killed control; Blank = There is no replicate #3 for PA</p>
http://lod.bco-dmo.org/id/dataset-parameter/990414.rdf
Name: average
Units: nM*hr-1
Description: <p>Mean hydrolysis rate of incubation replicates at subsampled timepoint above killed control</p>
http://lod.bco-dmo.org/id/dataset-parameter/990415.rdf
Name: std_dev
Units: nM*hr-1
Description: <p>Standard deviation of mean hydrolysis rates at subsampled timepoint above killed control; Blank = There is no standard deviation for PA</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://osprey.bco-dmo.org/dataset/986681/data/download
download
onLine
dataset
<p>Water samples were&nbsp;collected via Niskin bottles mounted on a rosette, equipped with a CTD aboard&nbsp;R/V Endeavor cruise EN584 from Jun to Jul 2016 in the Northwest Atlantic.&nbsp;</p>
<p>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, bacterial productivity, and the activities of polysaccharide hydrolases, peptidases, and glucosidases. A separate glass Duran bottle was filled with seawater from the carboy and sterilized in an autoclave for 20-30 minutes to serve as a killed control for various measurements.</p>
<p>For each substrate, three 15 mL falcon tubes were filled with bulk seawater and one 15 mL falcon tube was filled with autoclaved seawater to serve as a killed control. Experiments on (operationally defined) particles were carried out by gravity-filtering water through 3 µm pore size filters.&nbsp; 1/12th sections of the 3 µm pore-size filters were submerged in 15 mL artificial seawater. &nbsp;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 15 mL falcon tubes – one with seawater and one with autoclaved seawater – with no added substrate served as blank controls. Incubations were stored in the dark at as close to in situ temperature as possible.</p>
<p>Subsamples of the incubations were collected at time zero, and at a sequence of subsequent time points. At each time point, 2 mL of seawater was collected from the 15 mL falcon tube using a sterile syringe, filtered through a 0.2 μm pore size syringe filter, and stored frozen until analysis.</p>
<p>Molecular weight distributions were determined by sequential size-exclusion chromatography using a Bio-Rad Econo-Column packed with ~20 cm of Sephadex G-50 resin followed by ~18 cm of Sephadex G-75 resin, and quantified on Shimadzu 10ADvp HPLC systems equipped with Hitachi fluorescence detectors controlled by EZStart software. Hydrolysis rates were calculated based on the change in molecular weight distribution from higher molecular weight initially to lower molecular weight of the substrate over the course of the incubation time, as described in detail in Arnosti (2003).&nbsp;</p>
Specified by the Principal Investigator(s)
<p>Data was processed using R software. Scripts to calculate hydrolysis rates are available in the associated Github repository (Hoarfrost, 2017).</p>
Specified by the Principal Investigator(s)
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:A 12 bottle Rosette system using 30 liter Niskin bottles mounted on a frame with a CTD was used for sample collection. 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/
Shimadzu 10ADvp HPLC system
Shimadzu 10ADvp HPLC system
PI Supplied Instrument Name: Shimadzu 10ADvp HPLC system PI Supplied Instrument Description:Shimadzu 10ADvp HPLC systems coupled with Hitachi fluorescence detectors (L-7485, L-2485, Chromaster - 5440) and controlled by Shimadzu EZstart sofware were used for analysis.
A Bio-Rad Econo-Column packed with ~20cm of Sephadex G-50 resin followed by a second ~18cm column packed with Sephadex G-75 resin was used for sequential size exclusion chromatography separation. 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 bottles
Niskin bottles
PI Supplied Instrument Name: Niskin bottles PI Supplied Instrument Description:A 12 bottle Rosette system using 30 liter Niskin bottles mounted on a frame with a CTD was used for sample collection. 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/
Cruise: EN584
EN584
R/V Endeavor
Community Standard Description
International Council for the Exploration of the Sea
R/V Endeavor
vessel
EN584
Carol Arnosti
University of North Carolina at Chapel Hill
R/V Endeavor
Community Standard Description
International Council for the Exploration of the Sea
R/V Endeavor
vessel