http://lod.bco-dmo.org/id/dataset/717495
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
2017-10-24
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Measurements of polysaccharide hydrolase activities in large volume mesocosm incubations RV/Endeavor EN584, July 2016 (Patterns of activities project)
2017-10-20
publication
2017-10-20
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2020-05-13
publication
https://doi.org/10.26008/1912/bco-dmo.717495.1
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. (2020) Measurements of polysaccharide hydrolase activities in large volume mesocosm incubations RV/Endeavor EN584, July 2016 (Patterns of activities project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2017-10-20 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.717495.1 [access date]
Mesocosm hydrolysis rates with and without Thalassiosira, EN584 Dataset Description: <p>See Niskin Bottle and Cast List EN584 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>For mesocosm (large volume) incubation experiments (referred to as “LV” incubations), a 30L Niskin bottle rosette was used to collect the water. Separate casts were used to collect surface water, bottom water, and water from the depth at which oxygen showed a minimum, according to the CTD. From each depth, 20L seawater from single Niskin bottles was dispensed using cleaned silicon tubing into a single carboy. Prior to filling, carboys were rinsed 3x with water from the same Niskin bottle used to fill the carboy. Four carboys were filled at each depth. Triplicate 20L carboys were amended with ca. 500 mg (exact mass was recorded for each addition) of HMW Thalassiosira; unamended single carboys were used for controls. All mesocosms were incubated in the dark at near in-situ temperatures. Mesocosms were sub-sampled at the start of incubation (0 days), and then after 2 d, 7d, and 16d for the following assays: bacterial production using 3H-Leucine, dissolved organic carbon (DOC), nutrients, bacterial cell counts,&nbsp;peptidase and glucosidase activity measurements. At the 16d subsampling timepoint, polysaccharide hydrolase activity measurements were initiated, using fluorescently labeled polysaccharides (Arnosti 2003). These polysaccharide incubations were sampled at time points of 0, 2, 5, 10, 17, and 30 days (with the zero-time sample being at the 16-day timepoint of the mesocosm experiment).</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 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 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: 1
Unknown
cruise_id
cast
station
depth_id
depth_m
treatment
meso_no
substrate
timepoint
time_elapsed_hr
rep1_rate
rep2_rate
rep3_rate
average
std_dev
30 liter Niskin bottles
theme
None, User defined
Cruise identfier
cast
station
depth_comment
depth
treatment
sample identification
No BCO-DMO term
time_point
time_elapsed
featureType
BCO-DMO Standard Parameters
Fluorometer
Gel Permeation 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
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.
-76.75
-58
33.75
36
2016-06-29
2016-07-13
Atlantic Ocean, Arctic Ocean, Pacific Ocean, Greenland
0
BCO-DMO catalogue of parameters from Measurements of polysaccharide hydrolase activities in large volume mesocosm incubations RV/Endeavor EN584, July 2016 (Patterns of activities 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
http://lod.bco-dmo.org/id/dataset-parameter/718087.rdf
Name: cruise_id
Units: unitless
Description: <p>cruise identifier</p>
http://lod.bco-dmo.org/id/dataset-parameter/718088.rdf
Name: cast
Units: unitless
Description: <p>cast number</p>
http://lod.bco-dmo.org/id/dataset-parameter/718089.rdf
Name: station
Units: unitless
Description: <p>station number</p>
http://lod.bco-dmo.org/id/dataset-parameter/718090.rdf
Name: depth_id
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/718091.rdf
Name: depth_m
Units: meters
Description: <p>actual depth at which water collected</p>
http://lod.bco-dmo.org/id/dataset-parameter/718092.rdf
Name: treatment
Units: unitless
Description: <p>LV experiments treatments: amended or not with Thalassiosira</p>
http://lod.bco-dmo.org/id/dataset-parameter/718093.rdf
Name: meso_no
Units: unitless
Description: <p>Large volume experiment mesocosm number</p>
http://lod.bco-dmo.org/id/dataset-parameter/718094.rdf
Name: substrate
Units: unitless
Description: <p>substrates for measurement of enzymatic activities: ara = arabinogalactan; chn = chondroitin sulfate; fuc = fucoidan; lam = laminarin; pul = pullulan; xyl = xylan</p>
http://lod.bco-dmo.org/id/dataset-parameter/718095.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/718096.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/718097.rdf
Name: rep1_rate
Units: nanomol monosaccharide/liter/hour
Description: <p>replicate 1 hydrolysis rate</p>
http://lod.bco-dmo.org/id/dataset-parameter/718098.rdf
Name: rep2_rate
Units: nanomol monosaccharide/liter/hour
Description: <p>replicate 2 hydrolysis rate</p>
http://lod.bco-dmo.org/id/dataset-parameter/718099.rdf
Name: rep3_rate
Units: nanomol monosaccharide/liter/hour
Description: <p>replicate 3 hydrolysis rate</p>
http://lod.bco-dmo.org/id/dataset-parameter/718100.rdf
Name: average
Units: nanomol monosaccharide/liter/hour
Description: <p>average of the 3 hydrolysis rates</p>
http://lod.bco-dmo.org/id/dataset-parameter/718101.rdf
Name: std_dev
Units: nanomol 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
58609
https://darchive.mblwhoilibrary.org/bitstream/1912/25769/1/dataset-717495_en584-lv-polysaccharide-hydrolysis-rates__v1.tsv
download
https://doi.org/10.26008/1912/bco-dmo.717495.1
download
onLine
dataset
<p>For mesocosm (large volume) incubation experiments (referred to as “LV” incubations), a 30L Niskin bottle rosette was used to collect the water. Separate casts were used to collect surface water, bottom water, and water from the depth at which oxygen showed a minimum, according to the CTD. From each depth, 20L seawater from single Niskin bottles was dispensed using cleaned silicon tubing into a single carboy. Prior to filling, carboys were rinsed 3x with water from the same Niskin bottle used to fill the carboy. Four carboys were filled at each depth. Triplicate 20L carboys were amended with ca. 500 mg (exact mass was recorded for each addition) of HMW Thalassiosira; unamended single carboys were used for controls. All mesocosms were incubated in the dark at near in-situ temperatures. Mesocosms were sub-sampled at the start of incubation (0 days), and then after 2 d, 7d, and 16d for the following assays: bacterial production using 3H-Leucine, dissolved organic carbon (DOC), nutrients, bacterial cell counts,&nbsp;peptidase and glucosidase activity measurements. At the 16d subsampling timepoint, polysaccharide hydrolase activity measurements were initiated, using fluorescently labeled polysaccharides (Arnosti 2003). These polysaccharide incubations were sampled at time points of 0, 2, 5, 10, 17, and 30 days (with the zero-time sample being at the 16-day timepoint of the mesocosm experiment).</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 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 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 Notes:</strong><br />
- added conventional header with dataset name, PI name, version date<br />
- removed 'cast00' and 'stn0' from data records for the cast and station columns</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: 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