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

ERDDAP > info > bcodmo_dataset_739973

Title Sum-
Institution Dataset ID
     data   graph     files  public Alkaline phosphatase activities for in situ and incubation samples from RV/Atlantic Explorer
cruise AE1812 cruise transect from Bermuda to Rhode Island in May 2018.
   ?     I   M   background (external link) RSS Subscribe BCO-DMO bcodmo_dataset_739973

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,.esriCsv,.geoJson
attribute NC_GLOBAL acquisition_description String For APA analysis, triplicate biological samples (250 mL) from in situ and
incubation samples were filtered onto 47-mm polycarbonate membranes (0.2
\u03bcm). Stored at \u221220\u00b0C until analysis.

APA was assayed after Dyhrman and Ruttenberg (2006) using the fluorogenic
phosphatase substrate 6,8-difluoro-4-methylumbelliferyl phosphate. Values were
normalized to both volume and chl a. Reagents/Abs/Em used:

D-6567 6,8-difluoro-4-methylumbelliferyl phosphate (DiFMUP):
- Storage upon receipt: \u2264 20\u00b0C; Desiccate
- Abs/Em = 358/455
- Molecular Formula: C10H7F2O6P
- Molecular Weight: 292.1
- CAS Name/Number: 2H-1-Benzopyran-2-one,
6,8-difluoro-4-methyl-7-(phosphonooxy)-/ 214491-43-7

D-6566 6,8-difluoro-7-Hydroxy-4-Methylcoumarin (DiFMU) - Reference Standard:
- Storage upon receipt: Room temp.; protect from light
- Molecular Formula: C10H6F2O3
- Molecular Weight: 212.15
- CAS Name/Number: 2H-1-Benzopyran-2-one, 6,8-difluoro-7-hydroxy-4-methyl-/

Incubation key:
Control = no addition of nutrients or deep water
DSW = deep seawater addition (added 20% deep seawater (700 m))
+P = Added phosphate only (0.5 \u00b5M final for incubations 1 and 2, 1
\u00b5M final for incubation 3)
+N = Added nitrate only (6 \u00b5M final for incubations 1 and 2, 12 \u00b5M
final for incubation 3)
phi_P = All but P added (N, Si, Fe, B12)
\u00a0phi_N = All but N added (P, Si, Fe, B12)
-1, -2, -3 = biological replicates

In situ key:
IS = in situ
-1, -2, -3 = biological replicates

Lost = sample was lost
attribute NC_GLOBAL awards_0_award_nid String 704773
attribute NC_GLOBAL awards_0_award_number String OCE-1558506
attribute NC_GLOBAL awards_0_data_url String http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1558506 (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 David L. Garrison
attribute NC_GLOBAL awards_0_program_manager_nid String 50534
attribute NC_GLOBAL cdm_data_type String Other
attribute NC_GLOBAL comment String AE1812 Alkaline phosphatase activity
in situs and incubation samples from AE1812 cruise transect from Bermuda to Rhode Island in May 2018
PI: S. Dyhrman (LDEO)
version: 2018-07-17
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 dataset_current_state String Final and no updates
attribute NC_GLOBAL date_created String 2018-07-16T15:35:18Z
attribute NC_GLOBAL date_modified String 2020-06-29T18:48:11Z
attribute NC_GLOBAL defaultDataQuery String &time<now
attribute NC_GLOBAL doi String 10.26008/1912/bco-dmo.739973.1
attribute NC_GLOBAL Easternmost_Easting double -56.56
attribute NC_GLOBAL geospatial_lat_max double 40.42
attribute NC_GLOBAL geospatial_lat_min double 31.42
attribute NC_GLOBAL geospatial_lat_units String degrees_north
attribute NC_GLOBAL geospatial_lon_max double -56.56
attribute NC_GLOBAL geospatial_lon_min double -70.58
attribute NC_GLOBAL geospatial_lon_units String degrees_east
attribute NC_GLOBAL infoUrl String https://www.bco-dmo.org/dataset/739973 (external link)
attribute NC_GLOBAL institution String BCO-DMO
attribute NC_GLOBAL instruments_0_dataset_instrument_description String Samples were run on a Biotek Synergy fluorescent plate reader using black plates
attribute NC_GLOBAL instruments_0_dataset_instrument_nid String 739977
attribute NC_GLOBAL instruments_0_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_0_instrument_name String plate reader
attribute NC_GLOBAL instruments_0_instrument_nid String 528693
attribute NC_GLOBAL instruments_0_supplied_name String Biotek Synergy fluorescent plate reader
attribute NC_GLOBAL keywords String apa, APA_nmolP_hr_liter, APA_nmolP_hr_ug_chla, bco, bco-dmo, biological, cast, chemical, chla, chlorophyll, chlorophyll-a, data, dataset, date, dmo, erddap, harvest, incubation, latitude, liter, longitude, management, nmol, oceanography, office, preliminary, sample, station, time
attribute NC_GLOBAL license String https://www.bco-dmo.org/dataset/739973/license (external link)
attribute NC_GLOBAL metadata_source String https://www.bco-dmo.org/api/dataset/739973 (external link)
attribute NC_GLOBAL Northernmost_Northing double 40.42
attribute NC_GLOBAL param_mapping String {'739973': {'lat': 'flag - latitude', 'lon': 'flag - longitude'}}
attribute NC_GLOBAL parameter_source String https://www.bco-dmo.org/mapserver/dataset/739973/parameters (external link)
attribute NC_GLOBAL people_0_affiliation String Lamont-Doherty Earth Observatory
attribute NC_GLOBAL people_0_affiliation_acronym String LDEO
attribute NC_GLOBAL people_0_person_name String Sonya T. Dyhrman
attribute NC_GLOBAL people_0_person_nid String 51101
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 University of Rhode Island
attribute NC_GLOBAL people_1_affiliation_acronym String URI-GSO
attribute NC_GLOBAL people_1_person_name String Bethany D. Jenkins
attribute NC_GLOBAL people_1_person_nid String 558172
attribute NC_GLOBAL people_1_role String Co-Principal Investigator
attribute NC_GLOBAL people_1_role_type String originator
attribute NC_GLOBAL people_2_affiliation String University of Rhode Island
attribute NC_GLOBAL people_2_affiliation_acronym String URI-GSO
attribute NC_GLOBAL people_2_person_name String Tatiana Rynearson
attribute NC_GLOBAL people_2_person_nid String 511706
attribute NC_GLOBAL people_2_role String Co-Principal Investigator
attribute NC_GLOBAL people_2_role_type String originator
attribute NC_GLOBAL people_3_affiliation String Woods Hole Oceanographic Institution
attribute NC_GLOBAL people_3_affiliation_acronym String WHOI BCO-DMO
attribute NC_GLOBAL people_3_person_name String Nancy Copley
attribute NC_GLOBAL people_3_person_nid String 50396
attribute NC_GLOBAL people_3_role String BCO-DMO Data Manager
attribute NC_GLOBAL people_3_role_type String related
attribute NC_GLOBAL project String North Atlantic Diatoms
attribute NC_GLOBAL projects_0_acronym String North Atlantic Diatoms
attribute NC_GLOBAL projects_0_description String NSF abstract:
About half of photosynthesis on earth is generated by marine phytoplankton, single celled organisms that drift with tides and currents. Within the phytoplankton, the diatoms conduct nearly half of this photosynthesis, exerting profound control over global carbon cycling. Despite their importance, there are surprisingly fundamental gaps in understanding how diatoms function in their natural environment, in part because methods to assess in situ physiology are lacking. This project focuses on the application of a powerful new approach, called Quantitative Metabolic Fingerprinting (QMF), to address this knowledge gap and examine species-specific physiology in the field. The project will provide transformative insights into how ocean geochemistry controls the distribution of diatoms, the metabolic responses of individual diatom species, and how metabolic potential is partitioned between diatom species, thus providing new insights into the structure and function of marine systems. The overarching goal is to examine how diatom species respond to changes in biogeochemistry across marine provinces, from the coast to the open ocean, by following shifts in diatom physiology using QMF. This research is critical to understand future changes in oceanic phytoplankton in response to climate and environmental change. Furthermore, activities on this project will include supporting a graduate student and postdoctoral fellow and delivering the Artistic Oceanographer Program (AOP) to diverse middle school age children and teachers in the NYC metropolitan area and to middle-school girls in the Girl Scouts of RI, reaching an anticipated 60 children and 30 teachers annually. The programs will foster multidisciplinary hands-on learning and will directly impact STEM education at a critical point in the pipeline by targeting diverse middle-school aged groups in both NY and RI.
In laboratory studies with cultured isolates, there are profound differences among diatom species' responses to nutrient limitation. Thus, it is likely that different species contribute differently to nutrient uptake, carbon flux and burial. However, marine ecosystem models often rely on physiological attributes drawn from just one species and apply those attributes globally (e.g. coastal species used to model open ocean dynamics) or choose a single average value to represent all species across the world's oceans. In part, this is due to a relatively poor understanding of diatom physiological ecology and a limited tool set for assessing in situ diatom physiological ecology. This research project will address this specific challenge by explicitly tracking metabolic pathways, measuring their regulation and determining their taxonomic distribution in a suite of environmentally significant diatoms using a state of the art, species-specific approach. A research expedition is set in the North Atlantic, a system that plays a major role in carbon cycling. Starting with a New England coastal shelf site, samples will be collected from the coast where diatoms thrive, to the open ocean and a site of a long term ocean time series station (the Bermuda Atlantic Time Series) where diatom growth is muted by nutrient limitation. This research takes advantage of new ocean observatories initiative (OOI) and time series information. Through the research expedition and downstream laboratory experiments, the molecular pathways of nutrient metabolism and related gene expression in a suite of environmentally significant diatoms will be identified. Data will be combined to predict major limiting factors and potentially important substrates for diatoms across marine provinces. Importantly, this integrated approach takes advantage of new advances in molecular and bioinformatics tools to examine in situ physiological ecology at the species-specific level, a key knowledge gap in the field.
attribute NC_GLOBAL projects_0_end_date String 2019-08
attribute NC_GLOBAL projects_0_geolocation String North Atlantic
attribute NC_GLOBAL projects_0_name String Collaborative Research: Defining the biogeochemical drivers of diatom physiological ecology in the North Atlantic
attribute NC_GLOBAL projects_0_project_nid String 704768
attribute NC_GLOBAL projects_0_start_date String 2016-09
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 Southernmost_Northing double 31.42
attribute NC_GLOBAL standard_name_vocabulary String CF Standard Name Table v55
attribute NC_GLOBAL summary String This dataset reports alkaline phosphatase activities (APA) for 3 incubation runs and 33 in situ samples collected on RV/Atlantic Explorer cruise AE1812 in May 2018. The samples were collected between Bermuda and Rhode Island.
attribute NC_GLOBAL title String Alkaline phosphatase activities for in situ and incubation samples from RV/Atlantic Explorer cruise AE1812 cruise transect from Bermuda to Rhode Island in May 2018.
attribute NC_GLOBAL version String 1
attribute NC_GLOBAL Westernmost_Easting double -70.58
attribute NC_GLOBAL xml_source String osprey2erddap.update_xml() v1.5
variable incubation   String  
attribute incubation bcodmo_name String replicate
attribute incubation description String Incubation replicate or in situ sampling
attribute incubation long_name String Incubation
attribute incubation units String unitless
variable sample   String  
attribute sample bcodmo_name String sample
attribute sample description String Sample identifier
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 station   String  
attribute station bcodmo_name String station
attribute station description String Station identification number
attribute station long_name String Station
attribute station units String unitless
variable cast   String  
attribute cast bcodmo_name String cast
attribute cast description String Cast number on cruise
attribute cast long_name String Cast
attribute cast units String unitless
variable date_harvest   String  
attribute date_harvest bcodmo_name String date
attribute date_harvest description String Day on which samples were filtered and stored; formatted as yyyy-mm-dd
attribute date_harvest long_name String Date Harvest
attribute date_harvest nerc_identifier String https://vocab.nerc.ac.uk/collection/P01/current/ADATAA01/ (external link)
attribute date_harvest source_name String date_harvest
attribute date_harvest time_precision String 1970-01-01
attribute date_harvest units String unitless
variable APA_nmolP_hr_liter   String  
attribute APA_nmolP_hr_liter bcodmo_name String unknown
attribute APA_nmolP_hr_liter description String Alkaline phosphatase activity; volume normalized
attribute APA_nmolP_hr_liter long_name String APA Nmol P Hr Liter
attribute APA_nmolP_hr_liter units String nanomol Phosphate/hour/liter [nmol P/h/L]
variable APA_nmolP_hr_ug_chla   String  
attribute APA_nmolP_hr_ug_chla bcodmo_name String unknown
attribute APA_nmolP_hr_ug_chla description String Alkaline phosphatase activity; chl a normalized
attribute APA_nmolP_hr_ug_chla long_name String APA Nmol P Hr Ug Chla
attribute APA_nmolP_hr_ug_chla units String nanomol Phosphate/hour/microgram chlorophyll-a [nmol P/h/µg Chl a]
variable latitude   double  
attribute latitude _CoordinateAxisType String Lat
attribute latitude _FillValue double NaN
attribute latitude actual_range double 31.42, 40.42
attribute latitude axis String Y
attribute latitude bcodmo_name String latitude
attribute latitude colorBarMaximum double 90.0
attribute latitude colorBarMinimum double -90.0
attribute latitude description String latitude; north is positive
attribute latitude ioos_category String Location
attribute latitude long_name String Latitude
attribute latitude nerc_identifier String https://vocab.nerc.ac.uk/collection/P09/current/LATX/ (external link)
attribute latitude standard_name String latitude
attribute latitude units String degrees_north
variable longitude   double  
attribute longitude _CoordinateAxisType String Lon
attribute longitude _FillValue double NaN
attribute longitude actual_range double -70.58, -56.56
attribute longitude axis String X
attribute longitude bcodmo_name String longitude
attribute longitude colorBarMaximum double 180.0
attribute longitude colorBarMinimum double -180.0
attribute longitude description String longitude; east is positive
attribute longitude ioos_category String Location
attribute longitude long_name String Longitude
attribute longitude nerc_identifier String https://vocab.nerc.ac.uk/collection/P09/current/LONX/ (external link)
attribute longitude standard_name String longitude
attribute longitude units String degrees_east

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