http://lod.bco-dmo.org/id/dataset/956085
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
2025-03-13
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Peptidase and glucosidase activities from mesocosm and bulk water incubations from waters taken aboard the R/V Endeavor in the Western North Atlantic during the research cruise EN683 in May and June, 2022.
2025-03-17
publication
2025-03-17
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2025-07-08
publication
https://doi.org/10.26008/1912/bco-dmo.956085.1
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: Lloyd, C., Ghobrial, S., Arnosti, C. (2025) Peptidase and glucosidase activities from mesocosm and bulk water incubations from waters taken aboard the R/V Endeavor in the Western North Atlantic during the research cruise EN683 in May and June, 2022. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2025-03-17 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.956085.1 [access date]
Peptidase and glucosidase activities Dataset Description: Methods and Sampling: <p>Mesocosm incubations:</p>
<p>For mesocosm (large volume) incubation experiments (referred to as “LV” incubations), 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. Four carboys were filled from bottom water and deep chlorophyll maximum (DCM) water each, according to the CTD. Triplicate 20L carboys (a total of 9 carboys) were amended with high molecular weight material isolated from the diatom Thalassiosira, or the polysaccharide fucodian, or the polysaccharide arabinogalactan; unamended single carboys were used for controls. 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 the activities of peptidases, and glucosidases. A separate glass Duran bottle was filled with seawater from the carboy and sterilized in an autoclave to serve as a killed control for microbial activity measurements. All mesocosms were incubated in the dark at near in-situ temperatures. Mesocosms were sub-sampled for peptidase and glucosidase activity measurements at the start of incubation (0 days), and then after at approximately 5d, 10d, 15d, and 25d. To measure gluosidase and peptidase activities at each timepoint, water was collected from the mesocosms as described above.</p>
<p>For these measurements, seven glucosidase and peptidase substrates were set up in a 96-well plate. The substrates used included alpha-glucose and beta-glucose linked to a 4-methylumbelliferyl (MUF) fluorophore to measure&nbsp; exo-acting glucosidase activities. Five substrates linked to a 7-amido-4-methyl coumarin (MCA) fluorophore, including one amino acid – leucine – and four oligopeptides – the chymotrypsin substrates alanine-alanine-phenylalanine (AAF) and alanine-alanine-proline-phenylalanine (AAPF), and the trypsin substrates glutamine-alanine-arginine (QAR) and phenylalanine-serine-arginine (FSR) – were used to measure exo- and endo-acting peptidase activities, respectively. For each substrate, triplicate wells were filled with a total volume of 200 uL seawater for experimental incubations; triplicate wells were filled with 200 uL autoclaved seawater for killed control incubations. Substrate was added at saturating concentrations.&nbsp;A saturation curve was determined with surface water from each station to <u>identify &nbsp;</u>saturating concentrations of substrate.&nbsp;The saturating concentration was identified as the lowest tested concentration of substrate at which additional substrate did not yield higher rates of hydrolysis. Fluorescence was measured over 24-48 hours incubation time with a plate reader (TECAN infiniteF200; 360 nm excitation, 460 emission), with timepoints taken every 4-6 hours. Bottom water measurements were made in a cold van/cold room at 4 C; water from the deep chlorophyll maximum was incubated at room temperature.</p>
<p>&nbsp;</p>
<p>Bulk water incubations:</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 the activities of 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.Two substrates, alpha-glucose and beta-glucose linked to a 4-methylumbelliferyl (MUF) fluorophore, were used to measure glucosidase activities. Five substrates linked to a 7-amido-4-methyl coumarin (MCA) fluorophore, one amino acid – leucine – and four oligopeptides – the chymotrypsin substrates alanine-alanine-phenylalanine (AAF) and alanine-alanine-proline-phenylalanine (AAPF), and the trypsin substrates glutamine-alanine-arginine (QAR) and phenylalanine-serine-arginine (FSR) – were used to measure exo- and endo-acting peptidase activities, respectively. Incubations with the seven low molecular weight substrates were set up in a 96-well plate. For each substrate, triplicate wells were filled with a total volume of 200 uL seawater for experimental incubations; triplicate wells were filled with 200 uL autoclaved seawater for killed control incubations. Substrate was added at saturating concentrations.&nbsp;A saturation curve was determined with surface water from each station to identify&nbsp;saturating concentrations of substrate.The saturating concentration was identified as the lowest tested concentration of substrate at which additional substrate did not yield higher rates of hydrolysis. Fluorescence was measured over 0-72 hours incubation time with a plate reader (TECAN infiniteF200; 360 nm excitation, 460 emission), with timepoints taken every 4-6 hours.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-2022952 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=2022952
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
Incubation
deployment
Station
longitude
latitude
date
time
ISO_DateTime_UTC
cast_number
depth_actual
sample_type
Incubation_Temp
unamended_amended
Sub_sample_day
substrate
rate_6hr
sd_6hr
rate_12hr
sd_12hr
rate_18hr
sd_18hr
rate_24hr
sd_24hr
rate_36hr
sd_36hr
rate_48hr
sd_48hr
rate_72hr
sd_72hr
TECAN infiniteF200; 360 nm excitation, 460 emission
theme
None, User defined
sample description
cruise name
station
longitude
latitude
date
time of day
ISO_DateTime_UTC
cast
depth
sample type
water temperature at measurement depth
sample time
featureType
BCO-DMO Standard Parameters
plate reader
instrument
BCO-DMO Standard Instruments
EN683
service
Deployment Activity
Northern Atlantic
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.
Substrate structural complexity and abundance control distinct mechanisms of microbially-driven carbon cycling in the ocean
https://osprey.bco-dmo.org/project/896822
Substrate structural complexity and abundance control distinct mechanisms of microbially-driven carbon cycling in the ocean
<p>Substrate Structural Complexity and Abundance Control Distinct Mechanisms of Microbially-Driven Carbon Cycling in the Ocean</p>
<p>Almost half of the organic carbon produced in the ocean is processed by bacteria. Bacteria use extracellular (outside the cell) enzymes to break down large organic molecules to small sizes that can be transported into their cells. It has recently been discovered that bacteria use extracellular enzymes in two ways: ‘selfish uptake’ and ‘external hydrolysis’. External hydrolysis releases low molecular weight products to the environment where they can be used by other organisms. ‘Selfish uptake’ releases little or no products. This research will determine the extent and location of ‘selfish uptake’ in ocean waters. This process affects the distribution of organic carbon in the ocean, the flow of small organic molecules to feed a wider range of bacteria, and the composition and dynamics of the bacterial community. Recent results show that ‘selfish’ bacteria are active in deep ocean waters, where they take up complex polysaccharides (sugars) that are not hydrolyzed externally. These results inspired a new model that links ‘selfish uptake’ and external hydrolysis to the amount and complexity of the organic matter that is used by bacteria. This project will test the model by describing the polysaccharide fraction of marine organic matter, and studying the relationships between organic matter abundance, structural complexity, and extracellular enzyme use. Graduate and undergraduate students will participate in the project as members of the research team in the field and in the laboratory.</p>
<p>This research will test the hypothesis that the mechanism of polysaccharide processing is related to the cost to a cell of producing the enzymes required for its hydrolysis, and the probability that a cell will receive sufficient return on investment for producing the enzymes. The conceptual model that will be tested suggests that external hydrolysis is favored when organic matter is abundant, or when enzyme production costs can be shared (e.g., on particles, in biofilms); selfish uptake would be a better strategy when high molecular weight (HMW) organic matter is scarce, and particularly when the HMW organic matter is very complex. This study will test this model by characterizing the structure of polysaccharide-containing components of dissolved organic matter (DOM) and particulate organic matter (POM) collected from the ocean, by determining the extent of selfish uptake and rates of external hydrolysis of different polysaccharides by natural microbial communities from the surface and the deep ocean, and by incubation experiments that control for the abundance of polysaccharides of different structural complexity. This project will be carried out in collaboration with colleagues at the Max Planck Institute for Marine Microbiology, whose expertise in carbohydrate chemistry and structural analyses, and in advanced microscopy and analysis of complex microbial communities, are central to the project.</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>
Substrate complexity and microbes
largerWorkCitation
project
eng; USA
oceans
Northern Atlantic
-75.296666
-53.873585
33.7441666
42.870093
2022-05-22
2022-06-09
Western North Atlantic
0
BCO-DMO catalogue of parameters from Peptidase and glucosidase activities from mesocosm and bulk water incubations from waters taken aboard the R/V Endeavor in the Western North Atlantic during the research cruise EN683 in May and June, 2022.
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/956152.rdf
Name: Incubation
Units: unitless
Description: <p>Mesocosm or Bulk Water Incubation</p>
http://lod.bco-dmo.org/id/dataset-parameter/956153.rdf
Name: deployment
Units: unitless
Description: <p>Cruise ID</p>
http://lod.bco-dmo.org/id/dataset-parameter/956154.rdf
Name: Station
Units: unitless
Description: <p>Station number for cruise</p>
http://lod.bco-dmo.org/id/dataset-parameter/956155.rdf
Name: longitude
Units: decimal degrees
Description: <p>Longitude, west is negative</p>
http://lod.bco-dmo.org/id/dataset-parameter/956156.rdf
Name: latitude
Units: decimal degrees
Description: <p>Latitude, south is negative</p>
http://lod.bco-dmo.org/id/dataset-parameter/956157.rdf
Name: date
Units: unitless
Description: <p>Date of sample collection in ISO format (yyyy-mm-dd), US Eastern Time (UTC-05:00)</p>
http://lod.bco-dmo.org/id/dataset-parameter/956158.rdf
Name: time
Units: unitless
Description: <p>Time of sample collection in ISO format (hh:mm:ss), US Eastern Time (UTC-05:00)</p>
http://lod.bco-dmo.org/id/dataset-parameter/956159.rdf
Name: ISO_DateTime_UTC
Units: unitless
Description: <p>DateTime of sample collection in ISO format in GMT/UTC Time</p>
http://lod.bco-dmo.org/id/dataset-parameter/956160.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/956161.rdf
Name: depth_actual
Units: meters (m)
Description: <p>Actual depth at which water was collected</p>
http://lod.bco-dmo.org/id/dataset-parameter/956162.rdf
Name: sample_type
Units: unitless
Description: <p>Sample from bulk water or Large Volume incubation</p>
http://lod.bco-dmo.org/id/dataset-parameter/956163.rdf
Name: Incubation_Temp
Units: Degrees Celsius (°C)
Description: <p>Temperature of incubation, RT (~20-25°C).</p>
http://lod.bco-dmo.org/id/dataset-parameter/956164.rdf
Name: unamended_amended
Units: unitless
Description: <p>Whether high molecular weight organic mater was added or not; U for unamended, F, A, T refer to type of organic mater added (Fucodian, Arabinogalactan, Thalassiosira extract), the following number corresponds to amended incubation replicate.</p>
http://lod.bco-dmo.org/id/dataset-parameter/956165.rdf
Name: Sub_sample_day
Units: days
Description: <p>Days post amendment when subsample was taken prior to substate addition and enzymatic activity measurement.</p>
http://lod.bco-dmo.org/id/dataset-parameter/956166.rdf
Name: substrate
Units: unitless
Description: <p>Substrates for measurement of enzymatic activities:</p>
<p>* a-glu: substrate to measure alpha glucosidase: 4-methylumbelliferyl-α-D-<br />
* b-glu: substrate to measure beta glucosidase: 4-methylumbelliferyl-β-D-<br />
* L: substrate to measure leucine aminopeptidase (L-leucine-7-amido-4 MCA)<br />
* AAF: substrate to measure chymotrypsin activity: ala-ala-phe-MCA<br />
* AAPF: substrate to measure chymotrypsin activity: N-succinyl-ala-ala-pro-phe-MCA<br />
* QAR: substrate to measure trypsin activity: Boc-gln-ala-arg-MCA<br />
* FSR: substrate to measure trypsin activity: N-t-boc-phe-ser-arg-MCA</p>
http://lod.bco-dmo.org/id/dataset-parameter/956167.rdf
Name: rate_6hr
Units: nmol L-1 h-0
Description: <p>Measured hydrolysis rate at indicated time interval (6hr, 12hr, 18hr, ...) post substrate addition. Blank = not measured</p>
http://lod.bco-dmo.org/id/dataset-parameter/956168.rdf
Name: sd_6hr
Units: nmol L-1 h-1
Description: <p>Standard deviation of measured hydrolysis rate at indicated time interval (6hr, 12hr, 18hr, ...) post substrate addition. Blank = not measured</p>
http://lod.bco-dmo.org/id/dataset-parameter/956169.rdf
Name: rate_12hr
Units: nmol L-1 h-1
Description: <p>Measured hydrolysis rate at indicated time interval (6hr, 12hr, 18hr, ...) post substrate addition. Blank = not measured</p>
http://lod.bco-dmo.org/id/dataset-parameter/956170.rdf
Name: sd_12hr
Units: nmol L-1 h-1
Description: <p>Standard deviation of measured hydrolysis rate at indicated time interval (6hr, 12hr, 18hr, ...) post substrate addition. Blank = not measured</p>
http://lod.bco-dmo.org/id/dataset-parameter/956171.rdf
Name: rate_18hr
Units: nmol L-1 h-1
Description: <p>Measured hydrolysis rate at indicated time interval (6hr, 12hr, 18hr, ...) post substrate addition. Blank = not measured</p>
http://lod.bco-dmo.org/id/dataset-parameter/956172.rdf
Name: sd_18hr
Units: nmol L-1 h-1
Description: <p>Standard deviation of measured hydrolysis rate at indicated time interval (6hr, 12hr, 18hr, ...) post substrate addition. Blank = not measured</p>
http://lod.bco-dmo.org/id/dataset-parameter/956173.rdf
Name: rate_24hr
Units: nmol L-1 h-1
Description: <p>Measured hydrolysis rate at indicated time interval (6hr, 12hr, 18hr, ...) post substrate addition. Blank = not measured</p>
http://lod.bco-dmo.org/id/dataset-parameter/956174.rdf
Name: sd_24hr
Units: nmol L-1 h-1
Description: <p>Standard deviation of measured hydrolysis rate at indicated time interval (6hr, 12hr, 18hr, ...) post substrate addition. Blank = not measured</p>
http://lod.bco-dmo.org/id/dataset-parameter/956175.rdf
Name: rate_36hr
Units: nmol L-1 h-1
Description: <p>Measured hydrolysis rate at indicated time interval (6hr, 12hr, 18hr, ...) post substrate addition. Blank = not measured</p>
http://lod.bco-dmo.org/id/dataset-parameter/956176.rdf
Name: sd_36hr
Units: nmol L-1 h-1
Description: <p>Standard deviation of measured hydrolysis rate at indicated time interval (6hr, 12hr, 18hr, ...) post substrate addition. Blank = not measured</p>
http://lod.bco-dmo.org/id/dataset-parameter/956177.rdf
Name: rate_48hr
Units: nmol L-1 h-1
Description: <p>Measured hydrolysis rate at indicated time interval (6hr, 12hr, 18hr, ...) post substrate addition. Blank = not measured</p>
http://lod.bco-dmo.org/id/dataset-parameter/956178.rdf
Name: sd_48hr
Units: nmol L-1 h-1
Description: <p>Standard deviation of measured hydrolysis rate at indicated time interval (6hr, 12hr, 18hr, ...) post substrate addition. Blank = not measured</p>
http://lod.bco-dmo.org/id/dataset-parameter/956179.rdf
Name: rate_72hr
Units: nmol L-1 h-1
Description: <p>Measured hydrolysis rate at indicated time interval (6hr, 12hr, 18hr, ...) post substrate addition. Blank = not measured</p>
http://lod.bco-dmo.org/id/dataset-parameter/956180.rdf
Name: sd_72hr
Units: nmol L-1 h-1
Description: <p>Standard deviation of measured hydrolysis rate at indicated time interval (6hr, 12hr, 18hr, ...) post substrate addition. Blank = not measured</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
281090
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/009005c7-7461-455f-a124-e0d95441b356/content
download
https://doi.org/10.26008/1912/bco-dmo.956085.1
download
onLine
dataset
<p>Mesocosm incubations:</p>
<p>For mesocosm (large volume) incubation experiments (referred to as “LV” incubations), 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. Four carboys were filled from bottom water and deep chlorophyll maximum (DCM) water each, according to the CTD. Triplicate 20L carboys (a total of 9 carboys) were amended with high molecular weight material isolated from the diatom Thalassiosira, or the polysaccharide fucodian, or the polysaccharide arabinogalactan; unamended single carboys were used for controls. 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 the activities of peptidases, and glucosidases. A separate glass Duran bottle was filled with seawater from the carboy and sterilized in an autoclave to serve as a killed control for microbial activity measurements. All mesocosms were incubated in the dark at near in-situ temperatures. Mesocosms were sub-sampled for peptidase and glucosidase activity measurements at the start of incubation (0 days), and then after at approximately 5d, 10d, 15d, and 25d. To measure gluosidase and peptidase activities at each timepoint, water was collected from the mesocosms as described above.</p>
<p>For these measurements, seven glucosidase and peptidase substrates were set up in a 96-well plate. The substrates used included alpha-glucose and beta-glucose linked to a 4-methylumbelliferyl (MUF) fluorophore to measure&nbsp; exo-acting glucosidase activities. Five substrates linked to a 7-amido-4-methyl coumarin (MCA) fluorophore, including one amino acid – leucine – and four oligopeptides – the chymotrypsin substrates alanine-alanine-phenylalanine (AAF) and alanine-alanine-proline-phenylalanine (AAPF), and the trypsin substrates glutamine-alanine-arginine (QAR) and phenylalanine-serine-arginine (FSR) – were used to measure exo- and endo-acting peptidase activities, respectively. For each substrate, triplicate wells were filled with a total volume of 200 uL seawater for experimental incubations; triplicate wells were filled with 200 uL autoclaved seawater for killed control incubations. Substrate was added at saturating concentrations.&nbsp;A saturation curve was determined with surface water from each station to <u>identify &nbsp;</u>saturating concentrations of substrate.&nbsp;The saturating concentration was identified as the lowest tested concentration of substrate at which additional substrate did not yield higher rates of hydrolysis. Fluorescence was measured over 24-48 hours incubation time with a plate reader (TECAN infiniteF200; 360 nm excitation, 460 emission), with timepoints taken every 4-6 hours. Bottom water measurements were made in a cold van/cold room at 4 C; water from the deep chlorophyll maximum was incubated at room temperature.</p>
<p>&nbsp;</p>
<p>Bulk water incubations:</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 the activities of 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.Two substrates, alpha-glucose and beta-glucose linked to a 4-methylumbelliferyl (MUF) fluorophore, were used to measure glucosidase activities. Five substrates linked to a 7-amido-4-methyl coumarin (MCA) fluorophore, one amino acid – leucine – and four oligopeptides – the chymotrypsin substrates alanine-alanine-phenylalanine (AAF) and alanine-alanine-proline-phenylalanine (AAPF), and the trypsin substrates glutamine-alanine-arginine (QAR) and phenylalanine-serine-arginine (FSR) – were used to measure exo- and endo-acting peptidase activities, respectively. Incubations with the seven low molecular weight substrates were set up in a 96-well plate. For each substrate, triplicate wells were filled with a total volume of 200 uL seawater for experimental incubations; triplicate wells were filled with 200 uL autoclaved seawater for killed control incubations. Substrate was added at saturating concentrations.&nbsp;A saturation curve was determined with surface water from each station to identify&nbsp;saturating concentrations of substrate.The saturating concentration was identified as the lowest tested concentration of substrate at which additional substrate did not yield higher rates of hydrolysis. Fluorescence was measured over 0-72 hours incubation time with a plate reader (TECAN infiniteF200; 360 nm excitation, 460 emission), with timepoints taken every 4-6 hours.</p>
Specified by the Principal Investigator(s)
<p>Hydrolysis of the substrates was measured as an increase in fluorescence as the fluorophore was hydrolyzed from the substrate over time [as in Hoppe, 1983; Obayashi and Suzuki, 2005].</p>
<p>Hydrolysis rates were calculated from the rate of increase of fluorescence in the incubation over time relative to a set of standards of known concentration of fluorophore.&nbsp; Calculations followed the procedure outlined in the tutorial available in the associated Github repository (https://github.com/ArnostiLab/ArnostiLab-RScript-Demo-PlateRdr/tree/master/scripts (DOI: 10.5281/zenodo.14783119).&nbsp;&nbsp;</p>
Specified by the Principal Investigator(s)
* Merged bulk water and mesocosm incubations data into 1 dataset (added Sample_type parameter to differentiate between the 2 datasets)
* Added ISO_DateTime UTC variable to data
* Merged bulk water and mesocosm incubations metadata into 1 landing page
*
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
TECAN infiniteF200; 360 nm excitation, 460 emission
TECAN infiniteF200; 360 nm excitation, 460 emission
PI Supplied Instrument Name: TECAN infiniteF200; 360 nm excitation, 460 emission Instrument Name: plate reader Instrument Short Name: Instrument Description: Plate readers (also known as microplate readers) are laboratory instruments designed to detect biological, chemical or physical events of samples in microtiter plates. They are widely used in research, drug discovery, bioassay validation, quality control and manufacturing processes in the pharmaceutical and biotechnological industry and academic organizations. Sample reactions can be assayed in 6-1536 well format microtiter plates. The most common microplate format used in academic research laboratories or clinical diagnostic laboratories is 96-well (8 by 12 matrix) with a typical reaction volume between 100 and 200 uL per well. Higher density microplates (384- or 1536-well microplates) are typically used for screening applications, when throughput (number of samples per day processed) and assay cost per sample become critical parameters, with a typical assay volume between 5 and 50 µL per well. Common detection modes for microplate assays are absorbance, fluorescence intensity, luminescence, time-resolved fluorescence, and fluorescence polarization. From: http://en.wikipedia.org/wiki/Plate_reader, 2014-09-0-23.
Cruise: EN683
EN683
R/V Endeavor
Community Standard Description
International Council for the Exploration of the Sea
R/V Endeavor
vessel
EN683
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