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| Dataset Title: | [BIB Experiments] - Experimental results: Bloom in Bottle (BIB) experiments: culture studies of the effect of Si and N stress on diatoms of the Santa Barbara Channel (SBDOM project, SBC LTER) (Mechanisms controlling the production and fate of DOM during diatom blooms) 
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| Institution: | BCO-DMO (Dataset ID: bcodmo_dataset_518427) |
| Information: | Summary
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| ISO 19115
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Attributes {
s {
species {
String bcodmo_name "species";
String description "Name of the species.";
String long_name "Species";
String units "text";
}
date_start {
String bcodmo_name "date_start";
String description "Date of the start of the experiment in mm/dd/yyyy format.";
String long_name "Date Start";
String source_name "date_start";
String time_precision "1970-01-01";
String units "unitless";
}
date_end {
String bcodmo_name "date_end";
String description "Date of the end of the experiment in mm/dd/yyyy format.";
String long_name "Date End";
String time_precision "1970-01-01";
String units "unitless";
}
treatment {
String bcodmo_name "treatment";
String description "Treatment condition.";
String long_name "Treatment";
String units "text";
}
time_point {
String bcodmo_name "time_point";
String description "Sampling time point.";
String long_name "Time Point";
String units "alphanumeric";
}
nominal_hrs {
Int16 _FillValue 32767;
Int16 actual_range 0, 234;
String bcodmo_name "unknown";
String description "Nominal number of hours since start of experiment.";
String long_name "Nominal Hrs";
String units "integer";
}
replicate {
Byte _FillValue 127;
String _Unsigned "false";
Byte actual_range 1, 2;
String bcodmo_name "replicate";
String description "Replicate number (duplicate batch cultures were grown).";
String long_name "Replicate";
String units "1 or 2";
}
chl {
Float32 _FillValue NaN;
Float32 actual_range 0.05, 223.97;
String bcodmo_name "unknown";
String description "Chlorophyll concentration.";
String long_name "CHL";
String units "micrograms per Liter (ug L-1)";
}
phyt_abun {
Int32 _FillValue 2147483647;
Int32 actual_range 794, 289630;
String bcodmo_name "abundance";
String description "Phytoplankton abundance.";
String long_name "Phyt Abun";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P03/current/B070/";
String units "cells per milliliter (cells/mL)";
}
phyt_abun_sd {
Int32 _FillValue 2147483647;
Int32 actual_range 11, 57006;
String bcodmo_name "standard deviation";
Float64 colorBarMaximum 50.0;
Float64 colorBarMinimum 0.0;
String description "Standard deviation of phyt_abun.";
String long_name "Phyt Abun Sd";
String units "cells per milliliter (cells/mL)";
}
NO3 {
Float32 _FillValue NaN;
Float32 actual_range 0.0, 120.39;
String bcodmo_name "NO3";
Float64 colorBarMaximum 50.0;
Float64 colorBarMinimum 0.0;
String description "Nitrate concentration.";
String long_name "Mole Concentration Of Nitrate In Sea Water";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/NTRAIGGS/";
String units "micromolar (uM)";
}
Si {
Float32 _FillValue NaN;
Float32 actual_range 0.0, 116.65;
String bcodmo_name "Si";
String description "Silicate concentration.";
String long_name "Mass Concentration Of Silicate In Sea Water";
String units "micromolar (uM)";
}
Si_bio {
Float32 _FillValue NaN;
Float32 actual_range 0.94, 81.12;
String bcodmo_name "Si_bio";
String description "Biogenic silica concentration.";
String long_name "Mass Concentration Of Silicate In Sea Water";
String units "micromolar (uM)";
}
prim_prod {
Float32 _FillValue NaN;
Float32 actual_range 0.05, 323.72;
String bcodmo_name "Primary Production";
String description "Primary production.";
String long_name "Prim Prod";
String units "micromoles Carbon per Liter per day (uMol C L-1 d-1)";
}
ER {
Float32 _FillValue NaN;
Float32 actual_range 0.12, 6.38;
String bcodmo_name "unknown";
String description "Extracellular release";
String long_name "ER";
String units "micromoles Carbon per Liter per day (uMol C L-1 d-1)";
}
POC {
Float32 _FillValue NaN;
Float32 actual_range 15.46, 1033.01;
String bcodmo_name "POC";
String description "Particulate organic carbon.";
String long_name "Particulate Organic Carbon";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/CORGCAP1/";
String units "micromolar (uM)";
}
DOC {
Float32 _FillValue NaN;
Float32 actual_range 70.87, 111.47;
String bcodmo_name "DOC";
String description "Dissolved organic carbon.";
String long_name "DOC";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/CORGZZZX/";
String units "micromolar (uM)";
}
DOC_sd {
Float32 _FillValue NaN;
Float32 actual_range 0.02, 17.13;
String bcodmo_name "standard deviation";
Float64 colorBarMaximum 50.0;
Float64 colorBarMinimum 0.0;
String description "Standard deviation of DOC.";
String long_name "DOC Sd";
String units "micromolar (uM)";
}
TEP {
Int16 _FillValue 32767;
Int16 actual_range 42, 9421;
String bcodmo_name "unknown";
String description "Transparent exopolymer particles";
String long_name "TEP";
String units "(uXeq L-1)";
}
TEP_sd {
Int16 _FillValue 32767;
Int16 actual_range 0, 1812;
String bcodmo_name "standard deviation";
Float64 colorBarMaximum 50.0;
Float64 colorBarMinimum 0.0;
String description "Standard deviation of TEP.";
String long_name "TEP Sd";
String units "(uXeq L-1)";
}
BP {
Float32 _FillValue NaN;
Float32 actual_range 17.75, 7465.21;
String bcodmo_name "unknown";
String description "Bacterial production.";
String long_name "BP";
String units "picomoles per Liter per hour (pmol L-1 h-1)";
}
BP_sd {
Float32 _FillValue NaN;
Float32 actual_range 0.03, 459.42;
String bcodmo_name "standard deviation";
Float64 colorBarMaximum 50.0;
Float64 colorBarMinimum 0.0;
String description "Standard deviation of BP.";
String long_name "BP SD";
String units "picomoles per Liter per hour (pmol L-1 h-1)";
}
}
NC_GLOBAL {
String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv";
String acquisition_description
"Skeletonema costatum:
Duplicate batch cultures of coastal diatom strain Skeletonema costatum (CCMP
1332) were grown in clear rectangular 20L polycarbonate carboys under six cool
white and two natural s11 type light bulbs providing\\u00a0 ~200 umol photons
s-1 m-2. The cultures were grown under a 12:10 light:dark cycle and mixed by
hand twice per day. Sampling occurred once per day, just before the beginning
of the dark period. The media was designed to assess the carbon partitioning
response under stress from Si, N, and both Si & N -- however, as this
experiment did not proceed as with the other three experiments here (i.e.
especially in terms of initial nutrient concentration design, nutrient uptake
outcomes, growing time, and parameters measured), nearly all further analyses
were not initiated.
Chaetoceros socialis:
Duplicate batch cultures of coastal diatom strain Chaetoceros socialis (CCMP
172) were grown in clear rectangular 20L polycarbonate carboys under six cool
white and two natural s11 type light bulbs providing\\u00a0 ~200 umol photons
s-1 m-2. The cultures were grown under a 12:10 light:dark cycle and mixed by
hand twice per day. Sampling occurred once per day, just before the beginning
of the dark period. The media was designed to assess the carbon partitioning
response under stress from Si, N, and both Si & N. To allow better comparison
among species and treatments, all experimental flasks were started with a ~40
umol L-1 initial nitrate concentration. In those treatments limited by silicic
acid (and therefore replete in N), the Si concentration was adjusted to
produce the same number of replete cells as the N-stress treatments.
Phosphorous was added in sufficient quantities to avoid P depletion; vitamins
and trace metals were added at f/20 and f/80 concentrations, respectively.
Thalassiosira weissflogii:
Duplicate batch cultures of coastal diatom strain Thalassiosira weissflogii
(CCMP 1051) were grown in clear rectangular 20L polycarbonate carboys under
six cool white and two natural s11 type light bulbs providing\\u00a0 ~200 umol
photons s-1 m-2. The cultures were grown under a 12:10 light:dark cycle and
mixed by hand twice per day. Sampling occurred once per day, just before the
beginning of the dark period. The media was designed to assess the carbon
partitioning response under stress from Si, N, and both Si & N. To allow
better comparison among species and treatments, all experimental flasks were
started with a ~40 umol L-1 initial nitrate concentration. In those treatments
limited by silicic acid (and therefore replete in N), the Si concentration was
adjusted to produce the same number of replete cells as the N-stress
treatments. Phosphorous was added in sufficient quantities to remain replete
throughout the duration of each experiment; vitamins and trace metals were
added at f/20 and f/80 concentrations, respectively.
Odontella aurita:
Duplicate batch cultures of coastal diatom strain Odontella aurita (CCMP
595) was grown in clear rectangular 20L polycarbonate carboys under six cool
white and two natural s11 type light bulbs providing\\u00a0 ~200 umol photons
s-1 m-2. The cultures were grown under a 12:10 light:dark cycle and mixed by
hand twice per day. Sampling occurred once per day, just before the beginning
of the dark period. The media was designed to assess the carbon partitioning
response under stress from Si, N, and both Si & N. To allow better comparison
among species and treatments, all experimental flasks were started with a ~40
umol L-1 initial nitrate concentration. In those treatments limited by silicic
acid (and therefore replete in N), the Si concentration was adjusted to
produce the same number of replete cells as the N-stress treatments.
Phosphorous was added in sufficient quantities to remain replete throughout
the duration of each experiment; vitamins and trace metals were added at f/40
concentration.";
String awards_0_award_nid "54995";
String awards_0_award_number "OCE-0850857";
String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=0850857";
String awards_0_funder_name "NSF Division of Ocean Sciences";
String awards_0_funding_acronym "NSF OCE";
String awards_0_funding_source_nid "355";
String awards_0_program_manager "David L. Garrison";
String awards_0_program_manager_nid "50534";
String cdm_data_type "Other";
String comment
"Bloom in Bottle (BIB) Experiments
Project: SBDOM
PI: Craig Carlson (UC Santa Barbara, MSI)
Co-PI: Mark Brzezinski (UC Santa Barbara, MSI)
Version: 09 July 2014";
String Conventions "COARDS, CF-1.6, ACDD-1.3";
String creator_email "info@bco-dmo.org";
String creator_name "BCO-DMO";
String creator_type "institution";
String creator_url "https://www.bco-dmo.org/";
String data_source "extract_data_as_tsv version 2.3 19 Dec 2019";
String date_created "2014-07-09T14:23:53Z";
String date_modified "2019-08-28T17:20:53Z";
String defaultDataQuery "&time<now";
String doi "10.1575/1912/bco-dmo.518427.1";
String history
"2024-11-08T06:03:32Z (local files)
2024-11-08T06:03:32Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_518427.html";
String infoUrl "https://www.bco-dmo.org/dataset/518427";
String institution "BCO-DMO";
String keywords "abun, bco, bco-dmo, biological, BP_sd, carbon, chemical, chemistry, chl, chlorophyll, commerce, concentration, data, dataset, date, date_end, department, dmo, doc, DOC_sd, earth, Earth Science > Oceans > Ocean Chemistry > Nitrate, Earth Science > Oceans > Ocean Chemistry > Silicate, end, erddap, hrs, management, mass, mass_concentration_of_silicate_in_sea_water, mole, mole_concentration_of_nitrate_in_sea_water, n02, nitrate, no3, nominal, nominal_hrs, ocean, oceanography, oceans, office, organic, particulate, phyt, phyt_abun, phyt_abun_sd, POC, point, preliminary, prim, prim_prod, prod, replicate, science, sea, seawater, Si_bio, silicate, species, start, tep, TEP_sd, time, time_point, treatment, water";
String keywords_vocabulary "GCMD Science Keywords";
String license "https://www.bco-dmo.org/dataset/518427/license";
String metadata_source "https://www.bco-dmo.org/api/dataset/518427";
String param_mapping "{'518427': {}}";
String parameter_source "https://www.bco-dmo.org/mapserver/dataset/518427/parameters";
String people_0_affiliation "University of California-Santa Barbara";
String people_0_affiliation_acronym "UCSB-MSI";
String people_0_person_name "Craig Carlson";
String people_0_person_nid "50575";
String people_0_role "Lead Principal Investigator";
String people_0_role_type "originator";
String people_1_affiliation "University of California-Santa Barbara";
String people_1_affiliation_acronym "UCSB-MSI";
String people_1_person_name "Mark A. Brzezinski";
String people_1_person_nid "50663";
String people_1_role "Co-Principal Investigator";
String people_1_role_type "originator";
String people_2_affiliation "University of California-Santa Barbara";
String people_2_affiliation_acronym "UCSB-MSI";
String people_2_person_name "Craig Carlson";
String people_2_person_nid "50575";
String people_2_role "Contact";
String people_2_role_type "related";
String people_3_affiliation "Woods Hole Oceanographic Institution";
String people_3_affiliation_acronym "WHOI BCO-DMO";
String people_3_person_name "Shannon Rauch";
String people_3_person_nid "51498";
String people_3_role "BCO-DMO Data Manager";
String people_3_role_type "related";
String project "SBDOM,SBC LTER";
String projects_0_acronym "SBDOM";
String projects_0_description
"This project is also affiliated with the Plumes and Blooms project.
Data:
The following data files have been submitted to BCO-DMO but are not yet available online. Data are restricted until June 2016. Please contact the PI for access prior to public availability:
-- SBDOM10 and SBDOM11 CTD and Niskin bottle data.
The following are available online (see 'Datasets' heading below):
-- SBDOM10 and SBDOM11 cruise plans (available online on deployment pages: PS1009, PS1103)
-- SBDOM10 and SBDOM11 event logs (available online; see 'Datasets' below)
-- Laboratory-based Bloom in a Bottle (BIB) Experiment
-- Laboratory-based Remineralization Experiments
-- SBDOM10 and SBDOM11 data summaries (including CTD data, nutrients, and bacterial production)
Project Description from NSF Award Proposal and Abstract:
Diatom blooms are known to produce prodigious quantities of DOM upon entering nutrient stress with a chemical composition that varies with the type of nutrient limitation (Si or N). This variable composition likely influences the nutritional value of DOM to microbes driving species successions towards functional groups of heterotrophic prokaryotes that are best able to metabolize particular forms of DOM. To date each side of this coupled system of production/consumption has been examined independently. A few studies have examined how limitation by different limiting nutrients affects the chemical character of the DOM produced by phytoplankton, while others have focused on the fate of DOM without detailed understanding of the mechanisms influencing its initial chemical composition.
We propose to investigate the mechanisms determining the character and fate of DOM produced during temperate diatom blooms. Specifically we will investigate how physiological stress on diatoms induced by different limiting nutrients influences the production, chemical composition of DOM and the microbial community structure that respond to it to better understand the mechanisms driving the accumulation and persistence of DOM in marine systems. The research will involve both laboratory and field experiments. The novel aspects of this work are:
1) We will investigate how limitation by either N or Si impacts the quantity and chemical composition of the DOM released by diatoms.
2) Assess how the differences in the chemical composition of the DOM produced under N or Si limitation affect its lability by examining the productivity, growth efficiency and community structure of heterotrophic bacterioplankton responding to the release of substrates.
3) Predicted DOM dynamics based on (1) and (2) will be tested in the field during diatom blooms in the Santa Barbara Channel, California.
While experiments investigating aspects of either 1 or 2 have been conducted successfully in the past (Lancelot, 1983; Billen and Fontigny, 1987; Goldman et al., 1992; Carlson et al.,1999; Cherrier and Bauer, 2004; Conan et al., 2007) ours will be the first study to combine these approaches in an integrated assessment of the mechanisms governing both the production and fate of DOM produced by diatom blooms experiencing limitation by different nutrients.
References:
Lancelot, C. (1983). Factors affecting phytoplankton extracellular release in the Southern Bight of the North Sea. Marine Ecology Progress Series 12: 115-121.
Billen, G. and A. Fontigny (1987). Dynamics of a Phaeocystis -dominated spring bloom in Belgian coastal waters. II. Bacterioplankton dynamics. Mar. Ecol. Prog. Ser. 37: 249-257.
Goldman, J.C., D.A. Hansell and M.R. Dennett (1992). Chemical characterization of three large oceanic diatoms: potential impact on water column chemistry. Marine Ecology Progress Series 88: 257-270.
Carlson, C.A., N.R. Bates, H.W. Ducklow and D.A. Hansell (1999). Estimation of bacterial respiration and growth efficiency in the Ross Sea, Antarctica. Aquatic Microbial Ecology 19: 229-244.
Cherrier, J. and J.E. Bauer (2004). Bacterial utilization of transient plankton-derived dissolved organic carbon and nitrogen inputs in surface ocean waters. Aquatic Microbial Ecology 35(3): 229-241.
Conan, P., M. Sondegaard, T. Kragh, F. Thingstad, M. Pujo-Pay, P.J.l.B. Williams, S. Markager, G. Cauwet, N.H. Borch, D. Evans and B. Rieman (2007). Partitioning of organic production in marine plankton communities: The effects of inorganic nutrient ratios and community composition on new dissolved organic matter. Limnology and Oceanography 52(2): 753-765.";
String projects_0_end_date "2014-03";
String projects_0_geolocation "Pacific California, Santa Barbara Channel";
String projects_0_name "Mechanisms controlling the production and fate of DOM during diatom blooms";
String projects_0_project_nid "2226";
String projects_0_start_date "2009-04";
String projects_1_acronym "SBC LTER";
String projects_1_description
"From http://www.lternet.edu/sites/sbc
The Santa Barbara Coastal LTER is located in the coastal zone of southern California near Santa Barbara. It is bounded by the steep east-west trending Santa Ynez Mountains and coastal plain to the north and the unique Northern Channel Islands archipelago to the south. Santa Barbara Coastal Long-Term Ecological Research (SBC) Project is headquartered at the University of California, Santa Barbara, and is part of the National Science Foundation’s (NSF) Long-Term Ecological Research (LTER) Network.
The research focus of SBC LTER is on ecological systems at the land-ocean margin. Although there is increasing concern about the impacts of human activities on coastal watersheds and nearshore marine environments, there have been few long-term studies of the linkages among oceanic, reef, sandy beaches, wetland, and upland habitats. SBC LTER is helping to fill this gap by studying the effects of oceanic and coastal watershed influences on kelp forests in the Santa Barbara Channel located off the coast of southern California. The primary research objective of SBC LTER is to investigate the relative importance of land vs. ocean processes in structuring giant kelp (Macrocystis pyrifera) forest ecosystems for different conditions of land use, climate and ocean influences.
SBC LTER Data: The Santa Barbara Coastal (SBC) LTER data are managed by and available directly from the SBC project data site URL shown above. If there are any datasets listed below, they are data sets that were collected at or near the SBC LTER sampling locations, and funded by NSF OCE as ancillary projects related to the SBC LTER core research themes. See the SBC LTER Data Overview page for access to data and information about data management policies.";
String projects_1_geolocation "Southern California Coastal Zone";
String projects_1_name "Santa Barbara Coastal Long Term Ecological Research site";
String projects_1_project_nid "2227";
String projects_1_project_website "https://sbclter.msi.ucsb.edu/";
String projects_1_start_date "2000-04";
String publisher_name "Biological and Chemical Oceanographic Data Management Office (BCO-DMO)";
String publisher_type "institution";
String sourceUrl "(local files)";
String standard_name_vocabulary "CF Standard Name Table v55";
String summary "Culture studies of diatoms that dominate spring blooms in the Santa Barbara Channel were used to examine the effects of N and Si stress on the magnitude of production and the chemical composition of DOM. Species cultured were: Skeletonema costatum (CCMP 1332), Chaetoceros socialis (CCMP 172), Thalassiosira weissflogii (CCMP 1051), and Odontella aurita (CCMP 595).";
String title "[BIB Experiments] - Experimental results: Bloom in Bottle (BIB) experiments: culture studies of the effect of Si and N stress on diatoms of the Santa Barbara Channel (SBDOM project, SBC LTER) (Mechanisms controlling the production and fate of DOM during diatom blooms)";
String version "1";
String xml_source "osprey2erddap.update_xml() v1.3";
}
}
Data Access Protocol (DAP) and its
selection constraints.
The URL specifies what you want: the dataset, a description of the graph or the subset of the data, and the file type for the response.
Tabledap request URLs must be in the form
https://coastwatch.pfeg.noaa.gov/erddap/tabledap/datasetID.fileType{?query}
For example,
https://coastwatch.pfeg.noaa.gov/erddap/tabledap/pmelTaoDySst.htmlTable?longitude,latitude,time,station,wmo_platform_code,T_25&time>=2015-05-23T12:00:00Z&time<=2015-05-31T12:00:00Z
Thus, the query is often a comma-separated list of desired variable names,
followed by a collection of
constraints (e.g., variable<value),
each preceded by '&' (which is interpreted as "AND").
For details, see the tabledap Documentation.