http://lod.bco-dmo.org/id/dataset/518508
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
2014-07-09
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Experimental results: Remineralization experiments to assess the ability of natural assemblages of bacteria to utilize DOM produced under Si and N limitation (SBDOM project, SBC LTER project)
2014-07-09
publication
2014-07-09
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2019-08-28
publication
https://doi.org/10.1575/1912/bco-dmo.518508.1
Craig A. Carlson
University of California-Santa Barbara
principalInvestigator
Mark A. Brzezinski
University of California-Santa Barbara
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: Carlson, C., Brzezinski, M. (2014) Experimental results: Remineralization experiments to assess the ability of natural assemblages of bacteria to utilize DOM produced under Si and N limitation (SBDOM project, SBC LTER project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2014-07-09 [if applicable, indicate subset used]. doi:10.1575/1912/bco-dmo.518508.1 [access date]
Remineralization experiments to assess the ability of natural assemblages of bacteria to utilize DOM produced under Si and N limitation. Dataset Description: <p>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 (see the <a href="http://www.bco-dmo.org/dataset/518427">BIB Experiments</a> dataset). The ability of natural assemblages of bacteria to utilize DOM produced under Si and N limitation was then assessed using remineralization experiments. Species examined in the remineralization experiments include: <em>Skeletonema marinoi</em>, <em>Chaetoceros socialis</em>, <em>Thalassiosira weissflogii</em>, and <em>Odontella aurita</em>.</p> Methods and Sampling: <p><strong><em>S. marinoi experimental design:</em></strong><br />
DOM was harvested from cultures of <em>S. marinoi</em> 48 hours after the indicated nutrient became deplete. Harvested media was 2x filtered through 0.2 um filters. Ambient seawater was the aged seawater media in which the phytoplankton were grown. Media (6L) and inoculum (2L, 1.2-um filtered water from the Santa Barbara Channel) were combined in a spigoted polycarbonate carboy and incubated in the dark at 14C for 4 months.</p>
<p><strong><em>C. socialis experimental design:</em></strong><br />
DOM was harvested from cultures of <em>C. socialis</em> 48 hours after the indicated nutrient became deplete. Harvested media was 2x filtered through 0.2 um filters. Ambient seawater was the aged seawater media in which the phytoplankton were grown. Media (6L) and inoculum (2L, 1.2-um filtered water from the Santa Barbara Channel) were combined in a spigoted polycarbonate carboy and incubated in the dark at 14C for 4 months.</p>
<p><strong><em>T. weissflogii experimental design:</em></strong><br />
DOM was harvested from cultures of <em>T. weissflogii </em>48 hours after the indicated nutrient became deplete. Harvested media was 2x filtered through 0.2 um filters. Ambient seawater was the aged seawater media in which the phytoplankton were grown. Media (6L) and inoculum (2L, 1.2-um filtered water from the Santa Barbara Channel) were combined in a spigoted polycarbonate carboy and incubated in the dark at 14C for 4 months.</p>
<p><strong><em>O. aurita experimental design:</em></strong><br />
DOM was harvested from cultures of <em>O. aurita </em>48 hours after the indicated nutrient became deplete. Harvested media was 2x filtered through 0.2 um filters. Ambient seawater was the aged seawater media in which the phytoplankton were grown. This experiment included full-volume inorganic nutrient controls (ambient seawater with added nitrate and phosphate or silicate and phosphate, at concentrations comparable to the Si-limited and N-limited treatments, respectively) and small-volume (2L, same media:inoculum ratio) controls to look at carry-over from the phytoplankton media that were sampled less frequently and with fewer replicates (ambient seawater plus f/2 and ambient seawater plus filtered media from an <em>O. aurita</em> culture in exponential growth, both at concentrations comparable to those at the start of the <em>O. aurita</em> batch culture grow-ups). Media (6L) and inoculum (2L, 1.2-um filtered water from the Santa Barbara Channel) were combined in a spigoted polycarbonate carboy and incubated in the dark at 14C for 4 months.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-0850857 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=0850857
completed
Craig A. Carlson
University of California-Santa Barbara
(805) 893-2541
University of California Department of Ecology, Evolution and Marine Biology
Santa Barbara
CA
93106-6150
USA
craig_carlson@ucsb.edu
pointOfContact
Mark A. Brzezinski
University of California-Santa Barbara
805-893-7061
UCSB Marine Science Institute Bldg 520 Rm 4002 Fl 4L
Santa Barbara
CA
93106
USA
mark.brzezinski@lifesci.ucsb.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
species
treatment
replicate
time_point
days_elapsed
DOC
DOC_sd
TDN
TDN_sd
NO3_NO2
NH4
PO4
dSi
bact_abund_FCM
bact_abund_DAPI
bact_abund_DAPI_sd
bact_prod
bact_prod_sd
specifc_growth_rate
bact_growth_eff
DNA_sampled
theme
None, User defined
species scientific name (binomial)
treatment
replicate
time_point
time_elapsed
dissolved organic Carbon
standard deviation
Total Dissolved Nitrogen
nitrate plus nitrite
Ammonium
reactive phosphorus (PO4)
No BCO-DMO term
featureType
BCO-DMO Standard Parameters
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.
Long Term Ecological Research network
http://www.lternet.edu/
Long Term Ecological Research network
adapted from http://www.lternet.edu/
The National Science Foundation established the LTER program in 1980 to support research on long-term ecological phenomena in the United States. The Long Term Ecological Research (LTER) Network is a collaborative effort involving more than 1800 scientists and students investigating ecological processes over long temporal and broad spatial scales. The LTER Network promotes synthesis and comparative research across sites and ecosystems and among other related national and international research programs. The LTER research sites represent diverse ecosystems with emphasis on different research themes, and cross-site communication, network publications, and research-planning activities are coordinated through the LTER Network Office.
2017 LTER research site map obtained from https://lternet.edu/site/lter-network/
LTER
largerWorkCitation
program
Mechanisms controlling the production and fate of DOM during diatom blooms
https://osprey.bco-dmo.org/project/2226
Mechanisms controlling the production and fate of DOM during diatom blooms
<p>This project is also affiliated with the <a href="http://www.icess.ucsb.edu/PnB/PnB.html" target="_blank">Plumes and Blooms</a> project.</p>
<p><strong>Data:</strong><br />
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:<br />
-- SBDOM10 and SBDOM11 CTD and Niskin bottle data.</p>
<p>The following are available online (see 'Datasets' heading below):<br />
-- SBDOM10 and SBDOM11 cruise plans (available online on deployment pages: <a href="http://www.bco-dmo.org/deployment/58833">PS1009</a>, <a href="http://www.bco-dmo.org/deployment/517703">PS1103</a>)<br />
-- SBDOM10 and SBDOM11 event logs (available online; see 'Datasets' below)<br />
-- Laboratory-based Bloom in a Bottle (BIB) Experiment<br />
-- Laboratory-based Remineralization Experiments<br />
-- SBDOM10 and SBDOM11 data summaries (including CTD data, nutrients, and bacterial production)</p>
<p>
<strong>Project Description from NSF Award Proposal and Abstract:</strong><br />
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.</p>
<p>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:<br />
1) We will investigate how limitation by either N or Si impacts the quantity and chemical composition of the DOM released by diatoms.<br />
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.<br />
3) Predicted DOM dynamics based on (1) and (2) will be tested in the field during diatom blooms in the Santa Barbara Channel, California.</p>
<p>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.</p>
<p><strong>References:</strong><br />
Lancelot, C. (1983). Factors affecting phytoplankton extracellular release in the Southern Bight of the North Sea. Marine Ecology Progress Series 12: 115-121.</p>
<p>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.</p>
<p>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.</p>
<p>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.</p>
<p>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.</p>
<p>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.</p>
SBDOM
largerWorkCitation
project
Santa Barbara Coastal Long Term Ecological Research site
http://sbc.lternet.edu/
Santa Barbara Coastal Long Term Ecological Research site
<p><strong>From <a href="http://www.lternet.edu/sites/sbc">http://www.lternet.edu/sites/sbc</a></strong><br />
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.</p>
<p>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.</p>
<p><strong>SBC LTER Data</strong>: 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 <a href="http://sbc.lternet.edu/data/" target="_blank">SBC LTER Data Overview</a> page for access to data and information about data management policies.</p>
SBC LTER
largerWorkCitation
project
eng; USA
oceans
2014-07-09
From projects that focused on the following 2 locations: 1. Pacific California, Santa Barbara Channel 2. Southern California Coastal Zone
0
BCO-DMO catalogue of parameters from Experimental results: Remineralization experiments to assess the ability of natural assemblages of bacteria to utilize DOM produced under Si and N limitation (SBDOM project, SBC LTER 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/518515.rdf
Name: species
Units: text
Description: <p>Name of the species.</p>
http://lod.bco-dmo.org/id/dataset-parameter/518516.rdf
Name: treatment
Units: text
Description: <p>Treatment condition.</p>
http://lod.bco-dmo.org/id/dataset-parameter/518517.rdf
Name: replicate
Units: integer
Description: <p>Replicate number.</p>
http://lod.bco-dmo.org/id/dataset-parameter/518518.rdf
Name: time_point
Units: integer
Description: <p>Sampling time point.</p>
http://lod.bco-dmo.org/id/dataset-parameter/518519.rdf
Name: days_elapsed
Units: number
Description: <p>Number of days elapsed since the start of the experiment.</p>
http://lod.bco-dmo.org/id/dataset-parameter/518520.rdf
Name: DOC
Units: micromoles per Liter (umol/L)
Description: <p>Dissolved organic carbon.</p>
http://lod.bco-dmo.org/id/dataset-parameter/518521.rdf
Name: DOC_sd
Units: micromoles per Liter (umol/L)
Description: <p>Standard deviation of DOC.</p>
http://lod.bco-dmo.org/id/dataset-parameter/518522.rdf
Name: TDN
Units: micromoles per Liter (umol/L)
Description: <p>Total dissolved nitrogen.</p>
http://lod.bco-dmo.org/id/dataset-parameter/518523.rdf
Name: TDN_sd
Units: micromoles per Liter (umol/L)
Description: <p>Standard deviation of TDN.</p>
http://lod.bco-dmo.org/id/dataset-parameter/518524.rdf
Name: NO3_NO2
Units: micromoles per Liter (umol/L)
Description: <p>Nitrate and nitrite.</p>
http://lod.bco-dmo.org/id/dataset-parameter/518525.rdf
Name: NH4
Units: micromoles per Liter (umol/L)
Description: <p>Concentration of NH4.</p>
http://lod.bco-dmo.org/id/dataset-parameter/518526.rdf
Name: PO4
Units: micromoles per Liter (umol/L)
Description: <p>Concentration of PO4.</p>
http://lod.bco-dmo.org/id/dataset-parameter/518527.rdf
Name: dSi
Units: micromoles per Liter (umol/L)
Description: <p>Dissolved SO4.</p>
http://lod.bco-dmo.org/id/dataset-parameter/518528.rdf
Name: bact_abund_FCM
Units: cells per Liter (cells/L)
Description: <p>Bacterial cell abundance measured via flow cytometer using SYBR Green stain.</p>
http://lod.bco-dmo.org/id/dataset-parameter/518529.rdf
Name: bact_abund_DAPI
Units: cells per Liter (cells/L)
Description: <p>Bacterial cell abundance measured via epifluorescence microscopy using DAPI stain.</p>
http://lod.bco-dmo.org/id/dataset-parameter/518530.rdf
Name: bact_abund_DAPI_sd
Units: cells per Liter (cells/L)
Description: <p>Standard deviation of bact_abund_DAPI.</p>
http://lod.bco-dmo.org/id/dataset-parameter/518531.rdf
Name: bact_prod
Units: picomoles Leucine per Liter per hour (pmol Leu/L/hr)
Description: <p>Bacterial production measured via 3H leucine uptake.</p>
http://lod.bco-dmo.org/id/dataset-parameter/518532.rdf
Name: bact_prod_sd
Units: picomoles Leucine per Liter per hour (pmol Leu/L/hr)
Description: <p>Standard deviation of bact_prod.</p>
http://lod.bco-dmo.org/id/dataset-parameter/518533.rdf
Name: specifc_growth_rate
Units: per day
Description: <p>Specific growth rate (µ) over exponential growth phase.</p>
http://lod.bco-dmo.org/id/dataset-parameter/518534.rdf
Name: bact_growth_eff
Units: unitless
Description: <p>Bacterial growth efficiency over exponential growth phase.</p>
http://lod.bco-dmo.org/id/dataset-parameter/518535.rdf
Name: DNA_sampled
Units: yes or no
Description: <p>yes = sample was collected; analyzed samples still in QC.</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
81473
https://darchive.mblwhoilibrary.org/bitstream/1912/24473/1/dataset-518508_remineralization-experiments__v1.tsv
download
https://doi.org/10.1575/1912/bco-dmo.518508.1
download
onLine
dataset
<p><strong><em>S. marinoi experimental design:</em></strong><br />
DOM was harvested from cultures of <em>S. marinoi</em> 48 hours after the indicated nutrient became deplete. Harvested media was 2x filtered through 0.2 um filters. Ambient seawater was the aged seawater media in which the phytoplankton were grown. Media (6L) and inoculum (2L, 1.2-um filtered water from the Santa Barbara Channel) were combined in a spigoted polycarbonate carboy and incubated in the dark at 14C for 4 months.</p>
<p><strong><em>C. socialis experimental design:</em></strong><br />
DOM was harvested from cultures of <em>C. socialis</em> 48 hours after the indicated nutrient became deplete. Harvested media was 2x filtered through 0.2 um filters. Ambient seawater was the aged seawater media in which the phytoplankton were grown. Media (6L) and inoculum (2L, 1.2-um filtered water from the Santa Barbara Channel) were combined in a spigoted polycarbonate carboy and incubated in the dark at 14C for 4 months.</p>
<p><strong><em>T. weissflogii experimental design:</em></strong><br />
DOM was harvested from cultures of <em>T. weissflogii </em>48 hours after the indicated nutrient became deplete. Harvested media was 2x filtered through 0.2 um filters. Ambient seawater was the aged seawater media in which the phytoplankton were grown. Media (6L) and inoculum (2L, 1.2-um filtered water from the Santa Barbara Channel) were combined in a spigoted polycarbonate carboy and incubated in the dark at 14C for 4 months.</p>
<p><strong><em>O. aurita experimental design:</em></strong><br />
DOM was harvested from cultures of <em>O. aurita </em>48 hours after the indicated nutrient became deplete. Harvested media was 2x filtered through 0.2 um filters. Ambient seawater was the aged seawater media in which the phytoplankton were grown. This experiment included full-volume inorganic nutrient controls (ambient seawater with added nitrate and phosphate or silicate and phosphate, at concentrations comparable to the Si-limited and N-limited treatments, respectively) and small-volume (2L, same media:inoculum ratio) controls to look at carry-over from the phytoplankton media that were sampled less frequently and with fewer replicates (ambient seawater plus f/2 and ambient seawater plus filtered media from an <em>O. aurita</em> culture in exponential growth, both at concentrations comparable to those at the start of the <em>O. aurita</em> batch culture grow-ups). Media (6L) and inoculum (2L, 1.2-um filtered water from the Santa Barbara Channel) were combined in a spigoted polycarbonate carboy and incubated in the dark at 14C for 4 months.</p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO processing notes:</strong><br />
- Changed paramter names to conform to BCO-DMO naming conventions.<br />
- Replaced N/A and blanks with 'nd' to indicate 'no data'.<br />
- In original 'DNA_sampled' column, replaced X with 'yes' and blanks with 'no'.<br />
- Separated original treatment column into treatment and replicate.</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