Accessing BCO-DMO data
log in    
Brought to you by BCO-DMO    

ERDDAP > info > bcodmo_dataset_748423

Title Sum-
Institution Dataset ID
     data   graph     files  public Hydrolytic enzyme activities during CDOM monoculture experiments with Skeletonema,
Leptocylindrus, and Phaeocystis
   ?     I   M   background (external link) RSS Subscribe BCO-DMO bcodmo_dataset_748423

The Dataset's Variables and Attributes

Row Type Variable Name Attribute Name Data Type Value
attribute NC_GLOBAL access_formats String .htmlTable,.csv,.json,.mat,.nc,.tsv
attribute NC_GLOBAL acquisition_description String Hydrolytic enzyme activities were determined using
L-leucine-4-methylcoumarinyl-7-amide (MCA) hydrochloride, 4-methylumbelliferyl
\u03b1-D-glucopyranoside, and 4-methylumbelliferone (MUF)
\u03b2-D-glucopyranoside (Sigma-Aldrich) as substrate proxies for leucine-
aminopeptidase, \u03b1-glucosidase, and \u03b2-glucosidase activities,
respectively. For each bottle and substrate proxy, 196 \u00b5L of unfiltered
experimental or control water was added in duplicate to a pure-grade black
96-well plate (Brand Life Sciences) containing a single substrate proxy at
saturation levels (final concentration 200 \u00b5M). Fluorescence (excitation
370 nm, emission 440 nm) was measured in a Tecan Infinite 200 Pro microplate
reader immediately following the addition of the substrate and several more
times over 7-20 h. The well plates were incubated in the dark at in situ
temperature. MUF and MCA standard solutions prepared in seawater were used to
determine hydrolysis rates. Killed controls (boiled sample water) and
ultrapure water samples showed little change over the incubations.

See the table of time stamps under \"Supplemental Documents\", below.
attribute NC_GLOBAL awards_0_award_nid String 734588
attribute NC_GLOBAL awards_0_award_number String OCE-1459406
attribute NC_GLOBAL awards_0_data_url String http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1459406 (external link)
attribute NC_GLOBAL awards_0_funder_name String NSF Division of Ocean Sciences
attribute NC_GLOBAL awards_0_funding_acronym String NSF OCE
attribute NC_GLOBAL awards_0_funding_source_nid String 355
attribute NC_GLOBAL awards_0_program_manager String Henrietta N Edmonds
attribute NC_GLOBAL awards_0_program_manager_nid String 51517
attribute NC_GLOBAL cdm_data_type String Other
attribute NC_GLOBAL comment String Phytoplankton hydrolytic enzyme activities during CDOM monoculture experiment
PI: K. Ziervogel (UNH)
version: 2018-10-17
Note: Phytoplankton sample id's indicate the time-point in days and the replicate identifier;
Controls sample id's indicate hours from the start of the experiment.
attribute NC_GLOBAL Conventions String COARDS, CF-1.6, ACDD-1.3
attribute NC_GLOBAL creator_email String info at bco-dmo.org
attribute NC_GLOBAL creator_name String BCO-DMO
attribute NC_GLOBAL creator_type String institution
attribute NC_GLOBAL creator_url String https://www.bco-dmo.org/ (external link)
attribute NC_GLOBAL data_source String extract_data_as_tsv version 2.3 19 Dec 2019
attribute NC_GLOBAL date_created String 2018-10-17T20:08:35Z
attribute NC_GLOBAL date_modified String 2019-03-18T15:42:27Z
attribute NC_GLOBAL defaultDataQuery String &time<now
attribute NC_GLOBAL doi String 10.1575/1912/bco-dmo.748423.1
attribute NC_GLOBAL infoUrl String https://www.bco-dmo.org/dataset/748423 (external link)
attribute NC_GLOBAL institution String BCO-DMO
attribute NC_GLOBAL instruments_0_acronym String Flow Cytometer
attribute NC_GLOBAL instruments_0_dataset_instrument_description String Used to make cell counts.
attribute NC_GLOBAL instruments_0_dataset_instrument_nid String 748427
attribute NC_GLOBAL instruments_0_description String Flow cytometers (FC or FCM) are automated instruments that quantitate properties of single cells, one cell at a time. They can measure cell size, cell granularity, the amounts of cell components such as total DNA, newly synthesized DNA, gene expression as the amount messenger RNA for a particular gene, amounts of specific surface receptors, amounts of intracellular proteins, or transient signalling events in living cells.
(from: http://www.bio.umass.edu/micro/immunology/facs542/facswhat.htm)
attribute NC_GLOBAL instruments_0_instrument_external_identifier String https://vocab.nerc.ac.uk/collection/L05/current/LAB37/ (external link)
attribute NC_GLOBAL instruments_0_instrument_name String Flow Cytometer
attribute NC_GLOBAL instruments_0_instrument_nid String 660
attribute NC_GLOBAL instruments_0_supplied_name String FACSCalibur flow cytometer (Becton-Dickson)
attribute NC_GLOBAL instruments_1_dataset_instrument_description String Used to measure fluorescence from which hydrolysis rates were calculated.
attribute NC_GLOBAL instruments_1_dataset_instrument_nid String 748430
attribute NC_GLOBAL instruments_1_description String 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: https://en.wikipedia.org/wiki/Plate_reader, 2014-09-0-23.
attribute NC_GLOBAL instruments_1_instrument_name String plate reader
attribute NC_GLOBAL instruments_1_instrument_nid String 528693
attribute NC_GLOBAL instruments_1_supplied_name String Tecan Infinite 200 Pro microplate reader
attribute NC_GLOBAL keywords String activity, bco, bco-dmo, biological, blank, chemical, data, dataset, dmo, enz, enz_activity_blank, enz_activity_t0, enz_activity_t1, enz_activity_t2, enz_activity_t3, enz_activity_t4, enz_activity_t5, enz_activity_t6, enz_activity_t7, enz_activity_t8, erddap, fluor, fluor_blank, fluor_t0, fluor_t1, fluor_t2, fluor_t3, fluor_t4, fluor_t5, fluor_t6, fluor_t7, fluor_t8, management, oceanography, office, preliminary, rsqr, sample, slope, substrate, taxon
attribute NC_GLOBAL license String https://www.bco-dmo.org/dataset/748423/license (external link)
attribute NC_GLOBAL metadata_source String https://www.bco-dmo.org/api/dataset/748423 (external link)
attribute NC_GLOBAL param_mapping String {'748423': {}}
attribute NC_GLOBAL parameter_source String https://www.bco-dmo.org/mapserver/dataset/748423/parameters (external link)
attribute NC_GLOBAL people_0_affiliation String University of New Hampshire
attribute NC_GLOBAL people_0_affiliation_acronym String UNH
attribute NC_GLOBAL people_0_person_name String Kai Ziervogel
attribute NC_GLOBAL people_0_person_nid String 734583
attribute NC_GLOBAL people_0_role String Principal Investigator
attribute NC_GLOBAL people_0_role_type String originator
attribute NC_GLOBAL people_1_affiliation String Woods Hole Oceanographic Institution
attribute NC_GLOBAL people_1_affiliation_acronym String WHOI BCO-DMO
attribute NC_GLOBAL people_1_person_name String Nancy Copley
attribute NC_GLOBAL people_1_person_nid String 50396
attribute NC_GLOBAL people_1_role String BCO-DMO Data Manager
attribute NC_GLOBAL people_1_role_type String related
attribute NC_GLOBAL project String PlankDOM
attribute NC_GLOBAL projects_0_acronym String PlankDOM
attribute NC_GLOBAL projects_0_description String NSF abstract:
Chromophoric dissolved organic matter (CDOM) is a small but important fraction of the marine carbon pool that interacts with solar radiation and thus affects many photochemical and biological processes in the ocean. Despite its importance, the chemical basis for the formation of oceanic CDOM remains unclear. CDOM may be formed from two possible sources: 1) heterotrophic bacterial transformations of primary productivity (plankton-derived), or 2) terrestrially-derived. This project will examine the role of phytoplankton as a source of CDOM in the ocean by utilizing a powerful, new technique to measure particulate organic matter absorbance and fluorescence, discrete chemical measurements of probable precursors to planktonic CDOM, and enzymatic assays. Results of this research will provide new insights into the origin and production of planktonic CDOM and its transformation by heterotrophic bacteria. This research on CDOM will be shared broadly through a module at a North Carolina Aquarium, and streaming live feeds of shipboard activities to elementary school classrooms.
Terrestrial and oceanic dissolved organic matter (DOM) differ in their chemical composition. Laboratory and open-ocean observations suggest that bacterial transformation of phytoplankton DOM produces humic-like CDOM signals that are visually similar to those in terrestrial CDOM. However, prior studies of oceanic CDOM using absorbance and fluorescence fit an electronic interaction (EI) model of intramolecular charge transfer (CT) reactions between donor and acceptor molecules common to partially-oxidized terrestrial molecules found in humic substances. This project will test the hypothesis that phytoplankton and bacteria provide a source of donors and acceptors that are microbially-transformed and linked, enabling CT contacts between them and creating oceanic CDOM. To address this, researchers will systematically study phytoplankton growth, including marine snow formation. A new technique for measuring base-extracted POM (BEPOM) absorbance and fluorescence will be used to incorporate planktonic CDOM results into the EI model, and supplemented with measurements of its probable chemical precursors. These experiments will improve understanding of how the production of CDOM in the ocean is linked to the optics and chemistry of planktonic CDOM formation. Determining the time course and extent of phytoplankton POM and DOM transformation by heterotrophic bacteria during the same phytoplankton growth experiments will provide an in-depth understanding as to how bacterial transformation of marine snow-associated planktonic organic matter drives CDOM production throughout the ocean.
attribute NC_GLOBAL projects_0_end_date String 2019-04
attribute NC_GLOBAL projects_0_geolocation String Northern Atlantic Ocean, 34.65 N, 69.63 W
attribute NC_GLOBAL projects_0_name String Collaborative Research: Planktonic Sources of Chromophoric Dissolved Organic Matter in Seawater
attribute NC_GLOBAL projects_0_project_nid String 734581
attribute NC_GLOBAL projects_0_start_date String 2015-05
attribute NC_GLOBAL publisher_name String Biological and Chemical Oceanographic Data Management Office (BCO-DMO)
attribute NC_GLOBAL publisher_type String institution
attribute NC_GLOBAL sourceUrl String (local files)
attribute NC_GLOBAL standard_name_vocabulary String CF Standard Name Table v55
attribute NC_GLOBAL summary String This dataset is from a laboratory experiment. Four phytoplankton cultures and their associated bacterial communities were incubated in replicate roller bottles (1.9 L) over 3-6 weeks under laboratory conditions. Bacterial dynamics in the culture bottles were measured and correlated with geochemical parameters to determine the role of bacterial activities on the formation of CDOM in the cultures (Kinsey et al., 2018, see below).\r\n\r\nThe data include fluorescence and bacterial enzyme activity during CDOM monoculture experiments. The phytoplankton cultures were Skeletonema sp., Leptocylindrus sp., and Phaeocystis sp. Growth stages were initial, exponential, stationary, and degradation.
attribute NC_GLOBAL title String Hydrolytic enzyme activities during CDOM monoculture experiments with Skeletonema, Leptocylindrus, and Phaeocystis
attribute NC_GLOBAL version String 1
attribute NC_GLOBAL xml_source String osprey2erddap.update_xml() v1.3
variable substrate   String  
attribute substrate bcodmo_name String unknown
attribute substrate description String substrate for measuring enzyme activity: a-glu = 4-methylumbelliferyl a-D-glucopyranoside; b-glu = 4-methylumbelliferone (MUF) ß-D-glucopyranoside; leu = L-leucine-4-methylcoumarinyl-7-amide
attribute substrate long_name String Substrate
attribute substrate units String unitless
variable taxon   String  
attribute taxon bcodmo_name String taxon
attribute taxon description String taxonomic genus name of phytoplankton monoculture
attribute taxon long_name String Taxon
attribute taxon units String unitless
variable sample   String  
attribute sample bcodmo_name String sample
attribute sample description String sample identifier denoted as growth stage (days from start) replicate id
attribute sample long_name String Sample
attribute sample nerc_identifier String https://vocab.nerc.ac.uk/collection/P02/current/ACYC/ (external link)
attribute sample units String unitless
variable fluor_blank   short  
attribute fluor_blank _FillValue short 32767
attribute fluor_blank actual_range short 7, 2109
attribute fluor_blank bcodmo_name String fluorescence
attribute fluor_blank description String fluorescence intensity of blank
attribute fluor_blank long_name String Fluor Blank
attribute fluor_blank nerc_identifier String https://vocab.nerc.ac.uk/collection/P01/current/CPHLPM01/ (external link)
attribute fluor_blank units String relative fluorescence units
variable fluor_t0   short  
attribute fluor_t0 _FillValue short 32767
attribute fluor_t0 actual_range short 16, 5791
attribute fluor_t0 bcodmo_name String fluorescence
attribute fluor_t0 description String fluorescence intensity at time 0
attribute fluor_t0 long_name String Fluor T0
attribute fluor_t0 nerc_identifier String https://vocab.nerc.ac.uk/collection/P01/current/CPHLPM01/ (external link)
attribute fluor_t0 units String relative fluorescence units
variable fluor_t1   int  
attribute fluor_t1 _FillValue int 2147483647
attribute fluor_t1 actual_range int 14, 47192
attribute fluor_t1 bcodmo_name String fluorescence
attribute fluor_t1 description String fluorescence intensity at time 1
attribute fluor_t1 long_name String Fluor T1
attribute fluor_t1 nerc_identifier String https://vocab.nerc.ac.uk/collection/P01/current/CPHLPM01/ (external link)
attribute fluor_t1 units String relative fluorescence units
variable fluor_t2   short  
attribute fluor_t2 _FillValue short 32767
attribute fluor_t2 actual_range short 15, 18295
attribute fluor_t2 bcodmo_name String fluorescence
attribute fluor_t2 description String fluorescence intensity at time 2
attribute fluor_t2 long_name String Fluor T2
attribute fluor_t2 nerc_identifier String https://vocab.nerc.ac.uk/collection/P01/current/CPHLPM01/ (external link)
attribute fluor_t2 units String relative fluorescence units
variable fluor_t3   short  
attribute fluor_t3 _FillValue short 32767
attribute fluor_t3 actual_range short 16, 24418
attribute fluor_t3 bcodmo_name String fluorescence
attribute fluor_t3 description String fluorescence intensity at time 3
attribute fluor_t3 long_name String Fluor T3
attribute fluor_t3 nerc_identifier String https://vocab.nerc.ac.uk/collection/P01/current/CPHLPM01/ (external link)
attribute fluor_t3 units String relative fluorescence units
variable fluor_t4   short  
attribute fluor_t4 _FillValue short 32767
attribute fluor_t4 actual_range short 14, 27302
attribute fluor_t4 bcodmo_name String fluorescence
attribute fluor_t4 description String fluorescence intensity at time 4
attribute fluor_t4 long_name String Fluor T4
attribute fluor_t4 nerc_identifier String https://vocab.nerc.ac.uk/collection/P01/current/CPHLPM01/ (external link)
attribute fluor_t4 units String relative fluorescence units
variable fluor_t5   int  
attribute fluor_t5 _FillValue int 2147483647
attribute fluor_t5 actual_range int 15, 55198
attribute fluor_t5 bcodmo_name String fluorescence
attribute fluor_t5 description String fluorescence intensity at time 5
attribute fluor_t5 long_name String Fluor T5
attribute fluor_t5 nerc_identifier String https://vocab.nerc.ac.uk/collection/P01/current/CPHLPM01/ (external link)
attribute fluor_t5 units String relative fluorescence units
variable fluor_t6   int  
attribute fluor_t6 _FillValue int 2147483647
attribute fluor_t6 actual_range int 14, 54366
attribute fluor_t6 bcodmo_name String fluorescence
attribute fluor_t6 description String fluorescence intensity at time 6
attribute fluor_t6 long_name String Fluor T6
attribute fluor_t6 nerc_identifier String https://vocab.nerc.ac.uk/collection/P01/current/CPHLPM01/ (external link)
attribute fluor_t6 units String relative fluorescence units
variable fluor_t7   int  
attribute fluor_t7 _FillValue int 2147483647
attribute fluor_t7 actual_range int 14, 60005
attribute fluor_t7 bcodmo_name String fluorescence
attribute fluor_t7 description String fluorescence intensity at time 7
attribute fluor_t7 long_name String Fluor T7
attribute fluor_t7 nerc_identifier String https://vocab.nerc.ac.uk/collection/P01/current/CPHLPM01/ (external link)
attribute fluor_t7 units String relative fluorescence units
variable fluor_t8   int  
attribute fluor_t8 _FillValue int 2147483647
attribute fluor_t8 actual_range int 29, 47708
attribute fluor_t8 bcodmo_name String fluorescence
attribute fluor_t8 description String fluorescence intensity at time 8
attribute fluor_t8 long_name String Fluor T8
attribute fluor_t8 nerc_identifier String https://vocab.nerc.ac.uk/collection/P01/current/CPHLPM01/ (external link)
attribute fluor_t8 units String relative fluorescence units
variable enz_activity_blank   float  
attribute enz_activity_blank _FillValue float NaN
attribute enz_activity_blank actual_range float -0.026, 0.672
attribute enz_activity_blank bcodmo_name String unknown
attribute enz_activity_blank description String enzymatic activity of blank
attribute enz_activity_blank long_name String Enz Activity Blank
attribute enz_activity_blank units String nanoMol/hour
variable enz_activity_t0   float  
attribute enz_activity_t0 _FillValue float NaN
attribute enz_activity_t0 actual_range float -0.022, 1.894
attribute enz_activity_t0 bcodmo_name String unknown
attribute enz_activity_t0 description String enzymatic activity at time 0
attribute enz_activity_t0 long_name String Enz Activity T0
attribute enz_activity_t0 units String nanoMol/hour
variable enz_activity_t1   float  
attribute enz_activity_t1 _FillValue float NaN
attribute enz_activity_t1 actual_range float -0.023, 15.638
attribute enz_activity_t1 bcodmo_name String unknown
attribute enz_activity_t1 description String enzymatic activity at time 1
attribute enz_activity_t1 long_name String Enz Activity T1
attribute enz_activity_t1 units String nanoMol/hour
variable enz_activity_t2   float  
attribute enz_activity_t2 _FillValue float NaN
attribute enz_activity_t2 actual_range float -0.022, 47.713
attribute enz_activity_t2 bcodmo_name String unknown
attribute enz_activity_t2 description String enzymatic activity at time 2
attribute enz_activity_t2 long_name String Enz Activity T2
attribute enz_activity_t2 units String nanoMol/hour
variable enz_activity_t3   float  
attribute enz_activity_t3 _FillValue float NaN
attribute enz_activity_t3 actual_range float -0.022, 60.743
attribute enz_activity_t3 bcodmo_name String unknown
attribute enz_activity_t3 description String enzymatic activity at time 3
attribute enz_activity_t3 long_name String Enz Activity T3
attribute enz_activity_t3 units String nanoMol/hour
variable enz_activity_t4   float  
attribute enz_activity_t4 _FillValue float NaN
attribute enz_activity_t4 actual_range float -0.022, 73.14
attribute enz_activity_t4 bcodmo_name String unknown
attribute enz_activity_t4 description String enzymatic activity at time 4
attribute enz_activity_t4 long_name String Enz Activity T4
attribute enz_activity_t4 units String nanoMol/hour
variable enz_activity_t5   float  
attribute enz_activity_t5 _FillValue float NaN
attribute enz_activity_t5 actual_range float -0.021, 77.254
attribute enz_activity_t5 bcodmo_name String unknown
attribute enz_activity_t5 description String enzymatic activity at time 5
attribute enz_activity_t5 long_name String Enz Activity T5
attribute enz_activity_t5 units String nanoMol/hour
variable enz_activity_t6   float  
attribute enz_activity_t6 _FillValue float NaN
attribute enz_activity_t6 actual_range float -0.015, 34.559
attribute enz_activity_t6 bcodmo_name String unknown
attribute enz_activity_t6 description String enzymatic activity at time 6
attribute enz_activity_t6 long_name String Enz Activity T6
attribute enz_activity_t6 units String nanoMol/hour
variable enz_activity_t7   float  
attribute enz_activity_t7 _FillValue float NaN
attribute enz_activity_t7 actual_range float 0.027, 32.638
attribute enz_activity_t7 bcodmo_name String unknown
attribute enz_activity_t7 description String enzymatic activity at time 7
attribute enz_activity_t7 long_name String Enz Activity T7
attribute enz_activity_t7 units String nanoMol/hour
variable enz_activity_t8   float  
attribute enz_activity_t8 _FillValue float NaN
attribute enz_activity_t8 actual_range float 0.059, 42.044
attribute enz_activity_t8 bcodmo_name String unknown
attribute enz_activity_t8 description String enzymatic activity at time 8
attribute enz_activity_t8 long_name String Enz Activity T8
attribute enz_activity_t8 units String nanoMol/hour
variable SLOPE   float  
attribute SLOPE _FillValue float NaN
attribute SLOPE actual_range float -0.74, 10.71
attribute SLOPE bcodmo_name String unknown
attribute SLOPE description String the slope of the graph of fluorescence intensity vs substrate concentration
attribute SLOPE long_name String SLOPE
attribute SLOPE units String unitless
variable RSQR   double  
attribute RSQR _FillValue double NaN
attribute RSQR actual_range double 3.90209E-4, 1.0
attribute RSQR bcodmo_name String unknown
attribute RSQR description String the square of the correlation coefficient of fluorescence intensity vs substrate concentration
attribute RSQR long_name String RSQR
attribute RSQR units String unitless

The information in the table above is also available in other file formats (.csv, .htmlTable, .itx, .json, .jsonlCSV1, .jsonlCSV, .jsonlKVP, .mat, .nc, .nccsv, .tsv, .xhtml) via a RESTful web service.

ERDDAP, Version 2.02
Disclaimers | Privacy Policy | Contact