http://lod.bco-dmo.org/id/dataset/719712
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
2017-11-20
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Hydrolysis rates from bulk water sample incubations from R/V Endeavor cruise EN556 in 2015
2023-03-14
publication
2023-03-14
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2020-05-13
publication
https://doi.org/10.26008/1912/bco-dmo.719712.1
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: Arnosti, C. (2023) Hydrolysis rates from bulk water sample incubations from R/V Endeavor cruise EN556 in 2015. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 2) Version Date 2023-03-14 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.719712.2 [access date]
EN556 bulk water polysaccharide hydrolysis rates Dataset Description: <p>This dataset includes polysaccharide hydrolysis rates to measure microbial enzyme activities and bacterial productivity.</p>
<p>See Niskin Bottle and Cast List EN556 to link specific casts and bottles to each experiment: <a href="https://www.bco-dmo.org/dataset/717427" target="_blank">https://www.bco-dmo.org/dataset/717427</a>.</p> Methods and Sampling: <p>Seawater was transferred to 20 liter (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 and 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 microbial activity measurements.</p>
<p>The potential of the seawater microbial community to hydrolyze six high-molecular-weight polysaccharides (arabinogalactan, chondroitin sulfate, fucoidan, laminarin, pullulan, and xylan) was investigated in surface and bottom water. For each substrate, three 50 milliliter (mL) falcon tubes were filled with seawater and one 50 mL falcon tube was filled with autoclaved seawater to serve as a killed control. Substrate was added at 3.5 micromolar (μM) monomer-equivalent concentrations, except for fucoidan, which was added at 5 μM concentrations (a higher concentration was necessary for sufficient fluorescence signal). Two 50 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 <em>in situ</em> temperature as possible. 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 50 mL falcon tube using a sterile syringe, filtered through a 0.2 micrometer (μm) pore size syringe filter, and stored frozen until processing.</p>
<p>The hydrolysis of high molecular weight substrate to lower molecular weight hydrolysis products was measured using gel permeation chromatography with fluorescence detection, after the method of Arnosti [1996, 2003]. In short, the subsample was injected onto a series of columns consisting of a 21-centimeter (cm) column of G50 and a 19-cm column of G75 Sephadex gel. The fluorescence of the column effluent was measured at excitation and emission wavelengths of 490 and 530 nanometers (nm), respectively. Hydrolysis rates were calculated from the change in molecular weight distribution of the substrate over time, as described in detail in Arnosti (2003).</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
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
asNeeded
Dataset Version: 2
Unknown
cruise_id
station
cast
date
lat
lon
depth_no
depth_m
substrate
timepoint
time_elapsed_hr
rep1_rate
rep2_rate
rep3_rate
average
std_dev
30 liter Niskin bottles
theme
None, User defined
Cruise identfier
station
cast
date
latitude
longitude
depth_comment
depth
treatment
time_point
time_elapsed
No BCO-DMO term
standard deviation
featureType
BCO-DMO Standard Parameters
Fluorometer
Gel Permeation Chromatograph
Niskin bottle
instrument
BCO-DMO Standard Instruments
EN556
service
Deployment Activity
North Atlantic, shelf waters off Rhode Island, then a transect along Line W (farthest stn: ca 37 N, 68W, approximately at ID #9020)
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
North Atlantic, shelf waters off Rhode Island, then a transect along Line W (farthest stn: ca 37 N, 68W, approximately at ID #9020)
-71.028
-68.4005
37.6018
40.7072
2015-04-27
2015-05-01
Atlantic Ocean, Arctic Ocean, Pacific Ocean, Greenland
0
BCO-DMO catalogue of parameters from Hydrolysis rates from bulk water sample incubations from R/V Endeavor cruise EN556 in 2015
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/891896.rdf
Name: cruise_id
Units: unitless
Description: <p>cruise identifier</p>
http://lod.bco-dmo.org/id/dataset-parameter/891897.rdf
Name: station
Units: unitless
Description: <p>station number</p>
http://lod.bco-dmo.org/id/dataset-parameter/891898.rdf
Name: cast
Units: unitless
Description: <p>cast number</p>
http://lod.bco-dmo.org/id/dataset-parameter/891899.rdf
Name: date
Units: unitless
Description: <p>date of cast</p>
http://lod.bco-dmo.org/id/dataset-parameter/891900.rdf
Name: lat
Units: decimal degrees North
Description: <p>latitude of cast</p>
http://lod.bco-dmo.org/id/dataset-parameter/891901.rdf
Name: lon
Units: decimal degrees East
Description: <p>longitude of cast</p>
http://lod.bco-dmo.org/id/dataset-parameter/891902.rdf
Name: depth_no
Units: unitless
Description: <p>depth description: sequence of depths sampled with 1 is surface and higher numbers at greater depths</p>
http://lod.bco-dmo.org/id/dataset-parameter/891903.rdf
Name: depth_m
Units: meters (m)
Description: <p>actual depth at which water collected</p>
http://lod.bco-dmo.org/id/dataset-parameter/891904.rdf
Name: substrate
Units: unitless
Description: <p>substrates for measurement of enzymatic activities: a-glu = alpha glucosidase: 4-methylumbelliferyl-a-D-glucopyranoside; b-glu = beta glucosidase: 4-methylumbelliferyl-beta-D-glucopyranoside; L = leucine aminopeptidase (L-leucine-7-amido-4 MCA); AAF = chymotrypsin activity: ala-ala-phe-MCA; AAPF = chymotrypsin activity: N-succinyl-ala-ala-pro-phe-MCA; QAR = trypsin activity: Boc-gln-ala-arg-MCA; FSR = trypsin activity: N-t-boc-phe-ser-arg-MCA</p>
http://lod.bco-dmo.org/id/dataset-parameter/891905.rdf
Name: timepoint
Units: unitless
Description: <p>sampling time point (0; 1; 2; etc.) post-incubation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891906.rdf
Name: time_elapsed_hr
Units: hours
Description: <p>hours elapsed to reach a specific timepoint</p>
http://lod.bco-dmo.org/id/dataset-parameter/891907.rdf
Name: rep1_rate
Units: nanomoles monosaccharide/liter/hour
Description: <p>replicate 1 of enzymatic hydrolysis rate</p>
http://lod.bco-dmo.org/id/dataset-parameter/891908.rdf
Name: rep2_rate
Units: nanomoles monosaccharide/liter/hour
Description: <p>replicate 2 of enzymatic hydrolysis rate</p>
http://lod.bco-dmo.org/id/dataset-parameter/891909.rdf
Name: rep3_rate
Units: nanomoles monosaccharide/liter/hour
Description: <p>replicate 3 of enzymatic hydrolysis rate</p>
http://lod.bco-dmo.org/id/dataset-parameter/891910.rdf
Name: average
Units: nanomoles monosaccharide/liter/hour
Description: <p>average of the 3 hydrolysis rates</p>
http://lod.bco-dmo.org/id/dataset-parameter/891911.rdf
Name: std_dev
Units: nanomoles monosaccharide/liter/hour
Description: <p>standard deviation of the 3 hydrolysis 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
98510
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/6c7554d1-c372-448d-b1de-f1f0bc52dace/content
download
16656
https://darchive.mblwhoilibrary.org/bitstream/1912/25763/1/dataset-719712_en556-bulk-water-polysaccharide-hydrolysis-rates__v1.tsv
download
https://doi.org/10.26008/1912/bco-dmo.719712.1
download
onLine
dataset
<p>Seawater was transferred to 20 liter (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 and 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 microbial activity measurements.</p>
<p>The potential of the seawater microbial community to hydrolyze six high-molecular-weight polysaccharides (arabinogalactan, chondroitin sulfate, fucoidan, laminarin, pullulan, and xylan) was investigated in surface and bottom water. For each substrate, three 50 milliliter (mL) falcon tubes were filled with seawater and one 50 mL falcon tube was filled with autoclaved seawater to serve as a killed control. Substrate was added at 3.5 micromolar (μM) monomer-equivalent concentrations, except for fucoidan, which was added at 5 μM concentrations (a higher concentration was necessary for sufficient fluorescence signal). Two 50 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 <em>in situ</em> temperature as possible. 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 50 mL falcon tube using a sterile syringe, filtered through a 0.2 micrometer (μm) pore size syringe filter, and stored frozen until processing.</p>
<p>The hydrolysis of high molecular weight substrate to lower molecular weight hydrolysis products was measured using gel permeation chromatography with fluorescence detection, after the method of Arnosti [1996, 2003]. In short, the subsample was injected onto a series of columns consisting of a 21-centimeter (cm) column of G50 and a 19-cm column of G75 Sephadex gel. The fluorescence of the column effluent was measured at excitation and emission wavelengths of 490 and 530 nanometers (nm), respectively. Hydrolysis rates were calculated from the change in molecular weight distribution of the substrate over time, as described in detail in Arnosti (2003).</p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO Processing:</strong><br />
<strong>version 1:</strong> (version date 2017-11-01)<br />
- added conventional header with dataset name, PI name, version date;<br />
- modified parameter names to conform with BCO-DMO naming conventions;<br />
- removed 'cast00' and 'stn0' from data records for the cast and station columns.<br />
<strong>version 2:</strong> (version date 2023-03-14)<br />
- replaced previous dataset with new version received on 2023-02-03; this version contains data from additional stations that were omitted from version 1;<br />
- added date, latitude, and longitude from the related Niskin bottle dataset (717427).</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
PI Supplied Instrument Name: Instrument Name: Fluorometer Instrument Short Name:Fluorometer Instrument Description: A fluorometer or fluorimeter is a device used to measure parameters of fluorescence: its intensity and wavelength distribution of emission spectrum after excitation by a certain spectrum of light. The instrument is designed to measure the amount of stimulated electromagnetic radiation produced by pulses of electromagnetic radiation emitted into a water sample or in situ. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/113/
PI Supplied Instrument Name: Instrument Name: Gel Permeation Chromatograph Instrument Short Name:GPC Instrument Description: Instruments that separate components in aqueous or organic solution based on molecular size generally for molecular weight determination. Gel permeation chromatography (GPC) is a type of size exclusion chromatography (SEC), that separates analytes on the basis of size.
30 liter Niskin bottles
30 liter Niskin bottles
PI Supplied Instrument Name: 30 liter Niskin bottles PI Supplied Instrument Description:Used to collect water for large volume mesocosm experiments 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: EN556
EN556
R/V Endeavor
Community Standard Description
International Council for the Exploration of the Sea
R/V Endeavor
vessel
EN556
Carol Arnosti
R/V Endeavor
Community Standard Description
International Council for the Exploration of the Sea
R/V Endeavor
vessel