http://lod.bco-dmo.org/id/dataset/948590
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
2025-01-16
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Data from nutrient manipulation experiments (conducted on EXPORTS cruise DY131) aimed at relieving or inducing nutrient stress in phytoplankton and quantifying these responses using metatranscriptomic sequencing
2025-01-21
publication
2025-01-21
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2025-01-22
publication
https://doi.org/10.26008/1912/bco-dmo.948590.1
Mark A. Brzezinski
University of California-Santa Barbara
principalInvestigator
Kristen Nicolle Buck
University of South Florida
principalInvestigator
Bethany D. Jenkins
University of Rhode Island
principalInvestigator
Sarah Joanne Lux Lerch
Norwegian Institute of Marine Research
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: Lerch, S. J., Brzezinski, M. A., Buck, K. N., Jenkins, B. D. (2025) Data from nutrient manipulation experiments (conducted on EXPORTS cruise DY131) aimed at relieving or inducing nutrient stress in phytoplankton and quantifying these responses using metatranscriptomic sequencing. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2025-01-21 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.948590.1 [access date]
Metatranscriptomic nutrient response experiments - 2021 DY131 Dataset Description: Methods and Sampling: <p>Seawater for five shipboard incubation experiments was collected using a surface towfish (Mellett and Buck 2020) at ~2 meters (m) depth on the RSS Discovery between 5 May 2021 and 26 May 2021. All experimental setup and sampling was conducted in a trace metal clean (TMC) lab using TMC methods. Water was prefiltered through a 150-micrometer (µm) mesh to remove large grazers. For all incubations, 20-liter (L) acid-cleaned carboys were filled in sets based on the replicate number (e.g. replicate 1 carboys for all treatments were filled in succession). For LT1, individual carboys were completely filled prior to filling the next. For all other experiments carboys were filled "round robin", filling each 1/3 at a time until all replicates in the set were full. Triplicate control and treatment carboys were amended for each experiment as indicated in Table 1 (see Supplemental File "EXPORTS_2021_dy131_table1.pdf"). In addition, triplicate T0 carboys were also collected. T0 carboys were sampled immediately after the experimental start. Control and treatment carboys were sampled at the end of each incubation. T0 carboys are shared between LT2 and ST2 experiments.</p>
<p>Short-term incubations were carried out for 24 (ST1A and ST2) and 42 hours (ST1B). Long-term incubations were carried out for 6 (LT1) and 5 (LT2) days (Table 1). Short-term nutrient amendment treatments were selected to alleviate potential in situ nutrient stress. The +Si and +N treatments were amended to final concentrations of 20 micromolar (µM) silicate and nitrate respectively, in addition to in situ nutrient concentrations. The +Fe treatment was amended to a final concentration of 0.005 µM ⁵⁷Fe. The long-term experiments were amended with all key macro and trace nutrients (N, P, Si, Fe) except one, with the aim of inducing a specified nutrient stress. For LT1 and LT2, we refer to the +20 μM nitrate +1.25 μM phosphate +20 μM silicic acid treatment as "AllButFe" and the +20 μM nitrate +1.25 μM phosphate +0.005 µM ⁵⁷Fe treatment as "AllButSi".</p>
<p>Nutrient samples were filtered through 0.2 μm polycarbonate filters and frozen at -20 degrees Celsius (°C). Samples for biogenic silica concentrations were size fractionated by serial filtration through 5 μm and 0.6 μm polycarbonate filters Filters were stored frozen at -20°C. Particulate organic carbon and nitrogen were measured on samples from experiments examining the effect of added Fe and Si on carbon fixation. These samples were filtered through precombusted GFF filters placed in glass scintillation vials and frozen at -20°C.</p>
<p>Biogenic silica concentrations were determined by NaOH digestion followed by colorimetric analysis of the resulting dissolved Si. Particulate organic carbon and nitrogen samples were analyzed by Dumas combustion. Nutrient concentrations were determined by flow injection using a Lachat Instruments QuikChem 8500 Series 2 analyzer.</p>
<p>Metatranscriptomes were sequenced for experiments LT1 and ST1B. Metatranscriptomic samples were collected on 5 μm 47-millimeter (mm) polyester (PETE) membrane filters using a peristaltic pump. Filters were then preserved in 2 milliliters (mL) of RLT buffer (RNeasy Mini Kit, Qiagen, Germantown, MD, USA), flash frozen in liquid nitrogen, and stored at -80°C until RNA extraction. PolyA selection was performed on sample libraries to enrich for eukaryotic sequences and libraries were sequenced on an Illumina NovaSeq 6000 platform.</p>
<p>For more information on nutrient, particulate, and chlorophyll measurements see the Protocol documents attached as Supplemental Files and <a href="https://msi.ucsb.edu/facilities-services/analytical-lab/services" target="_blank">https://msi.ucsb.edu/facilities-services/analytical-lab/services</a>.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1756816 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1756816
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1756433 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1756433
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1756442 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1756442
completed
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
Kristen Nicolle Buck
University of South Florida
541-737-7401
2651 SW Orchard Avenue CEOAS
Corvallis
OR
97331
USA
kristen.buck@oregonstate.edu
pointOfContact
Bethany D. Jenkins
University of Rhode Island
401-874-7551
Department of Cell and Molecular Biology and Graduate School of Oceanography 279 CBLS, 120 Flagg Road
Kingston
RI
02881
USA
bdjenkins@uri.edu
pointOfContact
Sarah Joanne Lux Lerch
Norwegian Institute of Marine Research
+47 406 11 252
Hisøy
Agder
Norway
sarah.lerch@hi.no
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Cruise
ISO_DateTime_UTC
Date_UTC
Time_UTC
Event
Activity
Station
Latitude
Longitude
exp_id
Incubation
Treatment
replicate
BioProject
BioSample
SRA_sample
Phosphate
Phosphate_flag
Silicate
Silicate_flag
Nitrite
Nitrite_flag
Nitrate
Nitrate_flag
chl_a_0_6um_to_5um
chl_a_gt_5um
Blank_Corrected_POC
Blank_Corrected_PON
bSi_0_6um_to_5um
bSi_gt_5um
Illumina NovaSeq 6000 platform
Lachat Instruments QuikChem 8500 Series 2 analyzer
surface towfish
theme
None, User defined
Cruise identfier
ISO_DateTime_UTC
date
time of day
event
instrument
station
latitude
longitude
experiment id
sample identification
treatment
replicate
NCBI BioProject accession
NCBI BioSample accession
NCBI SRA Sample accession (SRS)
phosphate
quality flag
Silicate, Si(OH)4, silicic acid
Nitrite
Nitrate
chlorophyll a
particulate organic Carbon (POC)
particulate organic nitrogen
biogenic silica concentration
featureType
BCO-DMO Standard Parameters
Automated DNA Sequencer
Lachat QuikChem 8500 flow injection analysis system
towed unmanned submersible
instrument
BCO-DMO Standard Instruments
DY131
service
Deployment Activity
Celtic Sea
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.
EXport Processes in the Ocean from Remote Sensing
http://oceanexports.org/
EXport Processes in the Ocean from Remote Sensing
EXport Processes in the Ocean from Remote Sensing (EXPORTS) is a large-scale NASA-led field campaign that will provide critical information for quantifying the export and fate of upper ocean net primary production (NPP) using satellite observations and state of the art ocean technologies.
Ocean ecosystems play a critical role in the Earth’s carbon cycle and the quantification of their impacts for both present conditions and for predictions into the future remains one of the greatest challenges in oceanography. The goal of the EXport Processes in the Ocean from Remote Sensing (EXPORTS) Science Plan is to develop a predictive understanding of the export and fate of global ocean net primary production (NPP) and its implications for present and future climates. The achievement of this goal requires a quantification of the mechanisms that control the export of carbon from the euphotic zone as well as its fate in the underlying "twilight zone" where some fraction of exported carbon will be sequestered in the ocean’s interior on time scales of months to millennia. In particular, EXPORTS will advance satellite diagnostic and numerical prognostic models by comparing relationships among the ecological, biogeochemical and physical oceanographic processes that control carbon cycling across a range of ecosystem and carbon cycling states. EXPORTS will achieve this through a combination of ship and robotic field sampling, satellite remote sensing and numerical modeling. Through a coordinated, process-oriented approach, EXPORTS will foster new insights on ocean carbon cycling that maximizes its societal relevance through the achievement of U.S. and International research agency goals and will be a key step towards our understanding of the Earth as an integrated system.
EXPORTS
largerWorkCitation
program
Collaborative Research: Diatoms, Food Webs and Carbon Export - Leveraging NASA EXPORTS to Test the Role of Diatom Physiology in the Biological Carbon Pump
https://osprey.bco-dmo.org/project/757387
Collaborative Research: Diatoms, Food Webs and Carbon Export - Leveraging NASA EXPORTS to Test the Role of Diatom Physiology in the Biological Carbon Pump
<p><em>NSF Award Abstract:</em><br />
This project focuses on a group of microscopic single-celled photosynthetic organisms in the ocean called diatoms. Diatoms float in the surface ocean as part of a group of organisms collectively called phytoplankton. There are thousands of different species of diatoms distributed across the global ocean. A famous oceanographer Henry Bigelow once said "All fish is diatoms" reflecting the importance of diatoms as the base of the food chain that supports the world's largest fisheries. Despite their small size, diatom photosynthesis produces 20% of the oxygen on earth each year. That's more than all of the tropical rain forests on land. The major objective of the research is to understand how the metabolic differences among diatom species affects the amount of diatom organic carbon that is carried, or exported, from the surface ocean to the deep ocean. As diatoms are photo-synthesizers like green plants, their biological carbon comes from converting carbon dioxide dissolved in seawater from the atmosphere into organic forms. Diatoms also require a series of other nurtrients supplied by the ocean such as nitrogen and phosphorous and, uniquely for diatoms, the silicon used to construct their glass shells. This research will investigate how genetic and physiological differences among diatoms influence how each species react to changes in nutrient levels in the ocean and how those shifts affect the export of diatom carbon to the deep sea. The link between diatoms' physiological response and their carbon export comes about because shifts in physiology affect diatom attributes like how fast they sink and how tasty they are to predators. So if we can relate the physiological condition of different diatoms to the food-web pathways followed by different species, we can ultimately use knowledge of diatom physiological status and food web structure to predict how much diatom carbon gets to the deep sea. The research involves investigators with expertise in the physiology and genomics of diatoms and in the ocean's chemistry. The work will initially take place in the subarctic North Pacific in conjunction with the NASA Export Processes in the Ocean from RemoTe Sensing (EXPORTS) field program. The EXPORTS program is using a wide variety of methods to quantify the export and fate of photo-synthetically fixed carbon in the upper ocean. The research supports the training of undergraduate students, graduate students and a postdoctoral scholar. The research will also serve as the basis for activities aimed at K-12 and junior high school students.</p>
<p>The research will broadly impact our understanding of the biology of the biological pump (the transport of photo-synthetically fixed organic carbon to the deep sea) by forming a mechanistic basis for predicting the export of diatom carbon. It is hypothesized that the type and degree of diatom physiological stress are vital aspects of ecosystem state that drive export. To test this hypothesis, the genetic composition, rates of nutrient use and growth response of diatom communities will be evaluated and supported with measurements of silicon and iron stress to evaluate stress as a predictor of the path of diatom carbon export. The subarctic N. Pacific ecosystem is characterized as high nutrient low chlorophyll (HNLC) due to low iron (Fe) levels that are primary controllers constraining phytoplankton utilization of other nutrients. It has been a paradigm in low Fe, HNLC systems that diatoms grow at elevated Si:C and Si:N ratios and should be efficiently exported as particles significantly enriched in Si relative to C. However, Fe limitation also alters diatoms species composition and the high Si demand imposed by low Fe can drive HNLC regions to Si limitation or Si/Fe co-limitation. Thus, the degree of Si and/or Fe stress in HNLC waters can all alter diatom taxonomic composition, the elemental composition of diatom cells, and the path cells follow through the food web ultimately altering diatom carbon export.</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>
Diatoms and carbon export
largerWorkCitation
project
eng; USA
oceans
Celtic Sea
-15.017959
-14.782629
48.934083
49.079293
2021-05-05
2021-05-26
Sub-Arctic Pacific, Ocean Station Papa
0
BCO-DMO catalogue of parameters from Data from nutrient manipulation experiments (conducted on EXPORTS cruise DY131) aimed at relieving or inducing nutrient stress in phytoplankton and quantifying these responses using metatranscriptomic sequencing
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/948893.rdf
Name: Cruise
Units: unitless
Description: <p>cruise during which sample was collected</p>
http://lod.bco-dmo.org/id/dataset-parameter/948894.rdf
Name: ISO_DateTime_UTC
Units: unitless
Description: <p>date and time (UTC) of sample collection in ISO 8601 format</p>
http://lod.bco-dmo.org/id/dataset-parameter/948895.rdf
Name: Date_UTC
Units: unitless
Description: <p>date (UTC) of sample collection</p>
http://lod.bco-dmo.org/id/dataset-parameter/948896.rdf
Name: Time_UTC
Units: unitless
Description: <p>time (UTC) of sample collection</p>
http://lod.bco-dmo.org/id/dataset-parameter/948897.rdf
Name: Event
Units: unitless
Description: <p>event number from R2R event log</p>
http://lod.bco-dmo.org/id/dataset-parameter/948898.rdf
Name: Activity
Units: unitless
Description: <p>instrument used for sample collection</p>
http://lod.bco-dmo.org/id/dataset-parameter/948899.rdf
Name: Station
Units: unitless
Description: <p>station identifier</p>
http://lod.bco-dmo.org/id/dataset-parameter/948900.rdf
Name: Latitude
Units: decimal degrees
Description: <p>latitude (positive values = North; negative values = South)</p>
http://lod.bco-dmo.org/id/dataset-parameter/948901.rdf
Name: Longitude
Units: decimal degrees
Description: <p>longitude (positive values = East; negative values = West)</p>
http://lod.bco-dmo.org/id/dataset-parameter/948902.rdf
Name: exp_id
Units: unitless
Description: <p>Experiment Id</p>
http://lod.bco-dmo.org/id/dataset-parameter/948903.rdf
Name: Incubation
Units: unitless
Description: <p>Incubation number</p>
http://lod.bco-dmo.org/id/dataset-parameter/948904.rdf
Name: Treatment
Units: unitless
Description: <p>Experimental conditions applied to experimental units. In comparative experiments, members of the complementary group, the control group, receive either no treatment or a standard treatment.</p>
http://lod.bco-dmo.org/id/dataset-parameter/948905.rdf
Name: replicate
Units: unitless
Description: <p>an identifier used to distinguish between one or more replicate samples</p>
http://lod.bco-dmo.org/id/dataset-parameter/948906.rdf
Name: BioProject
Units: unitless
Description: <p>The National Center for Biotechnology Information (NCBI) BioProject identifier. A BioProject is a collection of biological data related to a single initiative, originating from a single organization or from a consortium. A BioProject record provides users a single place to find links to the diverse data types generated for that project. </p>
http://lod.bco-dmo.org/id/dataset-parameter/948907.rdf
Name: BioSample
Units: unitless
Description: <p>The National Center for Biotechnology Information (NCBI) BioSample accession number in the BioSample database. The BioSample database stores descriptive information about the physical biological materials used to generate data submitted to NCBI's primary data archives. Typical examples of a BioSample include a cell line, a tissue biopsy or an environmental isolate. The BioSample database promotes the use of structured and consistent attribute names and values to describe sample properties and provenance. BioSample records are reciprocally linked to data derived from that sample and to the BioProjects in which they participate.</p>
http://lod.bco-dmo.org/id/dataset-parameter/948908.rdf
Name: SRA_sample
Units: unitless
Description: <p>The National Center for Biotechnology Information (NCBI) Sample accession number in the Sequence Read Archive (SRA). A Sample in the SRA is an object that contains the metadata describing the physical sample upon which a sequencing experiment was performed. Imported from BioSample. An experiment targets one or more samples. Results are expressed in terms of individual samples or bundles of samples as defined by the experiment.</p>
http://lod.bco-dmo.org/id/dataset-parameter/948909.rdf
Name: Phosphate
Units: millimoles per cubic meter (mmol m^3)
Description: <p>phosphate concentration (PO4) in micromoles</p>
http://lod.bco-dmo.org/id/dataset-parameter/948910.rdf
Name: Phosphate_flag
Units: unitless
Description: <p>data quality flag: 1 = good; 3 = below detection limit</p>
http://lod.bco-dmo.org/id/dataset-parameter/948911.rdf
Name: Silicate
Units: millimoles per cubic meter (mmol m^3)
Description: <p>silicic acid concentration (SiO4) in micromoles (also known as dissolved silicon concentration or dSi)</p>
http://lod.bco-dmo.org/id/dataset-parameter/948912.rdf
Name: Silicate_flag
Units: unitless
Description: <p>data quality flag: 1 = good; 3 = below detection limit</p>
http://lod.bco-dmo.org/id/dataset-parameter/948913.rdf
Name: Nitrite
Units: millimoles per cubic meter (mmol m^3)
Description: <p>dissolved nitrite (NO2) concentration in micromoles; analyzed in UCSB MSI Analytical lab</p>
http://lod.bco-dmo.org/id/dataset-parameter/948914.rdf
Name: Nitrite_flag
Units: unitless
Description: <p>data quality flag: 1 = good; 3 = below detection limit</p>
http://lod.bco-dmo.org/id/dataset-parameter/948915.rdf
Name: Nitrate
Units: millimoles per cubic meter (mmol m^3)
Description: <p>dissolved nitrate (NO3) concentration in micromoles; analyzed in UCSB MSI Analytical lab</p>
http://lod.bco-dmo.org/id/dataset-parameter/948916.rdf
Name: Nitrate_flag
Units: unitless
Description: <p>data quality flag: 1 = good; 3 = below detection limit</p>
http://lod.bco-dmo.org/id/dataset-parameter/948917.rdf
Name: chl_a_0_6um_to_5um
Units: micrograms per cubic meter (ug m^3)
Description: <p>chlorophyll a in micrograms per liter for the 0.6 to 5 micrometer (um) size fraction</p>
http://lod.bco-dmo.org/id/dataset-parameter/948918.rdf
Name: chl_a_gt_5um
Units: micrograms per cubic meter (ug m^3)
Description: <p>chlorophyll a in micrograms per litre for the size fraction of 5 micrometers (um) and greater</p>
http://lod.bco-dmo.org/id/dataset-parameter/948919.rdf
Name: Blank_Corrected_POC
Units: milligrams per cubic meter (mg m^3)
Description: <p>particulate organic carbon (POC) in micromoles; analyzed in UCSB MSI Analytical lab</p>
http://lod.bco-dmo.org/id/dataset-parameter/948920.rdf
Name: Blank_Corrected_PON
Units: milligrams per cubic meter (mg m^3)
Description: <p>particulate organic nitrogen (PON) in micromoles; analyzed in UCSB MSI Analytical lab</p>
http://lod.bco-dmo.org/id/dataset-parameter/948921.rdf
Name: bSi_0_6um_to_5um
Units: nanomoles Si per liter (nmol Si L^1)
Description: <p>particulate biogenic silica in nanomoles Si per litre for the 0.6 to 5 micrometer (um) size fraction</p>
http://lod.bco-dmo.org/id/dataset-parameter/948922.rdf
Name: bSi_gt_5um
Units: nanomoles Si per liter (nmol Si L^1)
Description: <p>particulate biogenic silica in nanomoles Si per litre for the size fraction of 5 micrometers (um) and greater</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
9962
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/3318eea9-0fb9-4c15-b3e4-8a751315594d/content
download
https://doi.org/10.26008/1912/bco-dmo.948590.1
download
onLine
dataset
<p>Seawater for five shipboard incubation experiments was collected using a surface towfish (Mellett and Buck 2020) at ~2 meters (m) depth on the RSS Discovery between 5 May 2021 and 26 May 2021. All experimental setup and sampling was conducted in a trace metal clean (TMC) lab using TMC methods. Water was prefiltered through a 150-micrometer (µm) mesh to remove large grazers. For all incubations, 20-liter (L) acid-cleaned carboys were filled in sets based on the replicate number (e.g. replicate 1 carboys for all treatments were filled in succession). For LT1, individual carboys were completely filled prior to filling the next. For all other experiments carboys were filled "round robin", filling each 1/3 at a time until all replicates in the set were full. Triplicate control and treatment carboys were amended for each experiment as indicated in Table 1 (see Supplemental File "EXPORTS_2021_dy131_table1.pdf"). In addition, triplicate T0 carboys were also collected. T0 carboys were sampled immediately after the experimental start. Control and treatment carboys were sampled at the end of each incubation. T0 carboys are shared between LT2 and ST2 experiments.</p>
<p>Short-term incubations were carried out for 24 (ST1A and ST2) and 42 hours (ST1B). Long-term incubations were carried out for 6 (LT1) and 5 (LT2) days (Table 1). Short-term nutrient amendment treatments were selected to alleviate potential in situ nutrient stress. The +Si and +N treatments were amended to final concentrations of 20 micromolar (µM) silicate and nitrate respectively, in addition to in situ nutrient concentrations. The +Fe treatment was amended to a final concentration of 0.005 µM ⁵⁷Fe. The long-term experiments were amended with all key macro and trace nutrients (N, P, Si, Fe) except one, with the aim of inducing a specified nutrient stress. For LT1 and LT2, we refer to the +20 μM nitrate +1.25 μM phosphate +20 μM silicic acid treatment as "AllButFe" and the +20 μM nitrate +1.25 μM phosphate +0.005 µM ⁵⁷Fe treatment as "AllButSi".</p>
<p>Nutrient samples were filtered through 0.2 μm polycarbonate filters and frozen at -20 degrees Celsius (°C). Samples for biogenic silica concentrations were size fractionated by serial filtration through 5 μm and 0.6 μm polycarbonate filters Filters were stored frozen at -20°C. Particulate organic carbon and nitrogen were measured on samples from experiments examining the effect of added Fe and Si on carbon fixation. These samples were filtered through precombusted GFF filters placed in glass scintillation vials and frozen at -20°C.</p>
<p>Biogenic silica concentrations were determined by NaOH digestion followed by colorimetric analysis of the resulting dissolved Si. Particulate organic carbon and nitrogen samples were analyzed by Dumas combustion. Nutrient concentrations were determined by flow injection using a Lachat Instruments QuikChem 8500 Series 2 analyzer.</p>
<p>Metatranscriptomes were sequenced for experiments LT1 and ST1B. Metatranscriptomic samples were collected on 5 μm 47-millimeter (mm) polyester (PETE) membrane filters using a peristaltic pump. Filters were then preserved in 2 milliliters (mL) of RLT buffer (RNeasy Mini Kit, Qiagen, Germantown, MD, USA), flash frozen in liquid nitrogen, and stored at -80°C until RNA extraction. PolyA selection was performed on sample libraries to enrich for eukaryotic sequences and libraries were sequenced on an Illumina NovaSeq 6000 platform.</p>
<p>For more information on nutrient, particulate, and chlorophyll measurements see the Protocol documents attached as Supplemental Files and <a href="https://msi.ucsb.edu/facilities-services/analytical-lab/services" target="_blank">https://msi.ucsb.edu/facilities-services/analytical-lab/services</a>.</p>
Specified by the Principal Investigator(s)
<p>Values below detection limits are left blank and flagged in the quality columns, detection limits are as follows:</p>
<p>Nitrate (NO3) + Nitrite (NO2): 0.1 µM</p>
<p>Nitrite (NO2): 0.1 µM</p>
<p>Phosphate (PO4): 0.1 µM</p>
<p>Silicic Acid (Si(OH)4): 0.1 µM</p>
Specified by the Principal Investigator(s)
- Imported original file "EXPORTS_dy131_experiments.xlsx" into the BCO-DMO system.
- Renamed fields to comply with BCO-DMO naming conventions.
- Saved the final file as "948590_v1_exports_dy131_experiments.csv".
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
Illumina NovaSeq 6000 platform
Illumina NovaSeq 6000 platform
PI Supplied Instrument Name: Illumina NovaSeq 6000 platform Instrument Name: Automated DNA Sequencer Instrument Short Name:Automated Sequencer Instrument Description: A DNA sequencer is an instrument that determines the order of deoxynucleotides in deoxyribonucleic acid sequences.
Lachat Instruments QuikChem 8500 Series 2 analyzer
Lachat Instruments QuikChem 8500 Series 2 analyzer
PI Supplied Instrument Name: Lachat Instruments QuikChem 8500 Series 2 analyzer Instrument Name: Lachat QuikChem 8500 flow injection analysis system Instrument Short Name:QuikChem 8500 Instrument Description: The Lachat QuikChem 8500 Series 2 Flow Injection Analysis System features high sample throughput and simple, but rapid, method changeover. The QuikChem 8500 Series 2 system maximises productivity in determining ionic species in a variety of sample types, from sub-ppb to percent concentrations. Analysis takes 20 to 60 seconds, with a sample throughput of 60 to 120 samples per hour.
surface towfish
surface towfish
PI Supplied Instrument Name: surface towfish Instrument Name: towed unmanned submersible Instrument Short Name:towed unmanned submersible Instrument Description: A vehicle towed by rigid cable through the water column at fixed or varying depth with no propulsion and no human operator (e.g. Towfish, Scanfish, UOR, SeaSoar).
Cruise: DY131
DY131
Community Standard Description
International Council for the Exploration of the Sea
RRS Discovery
vessel
DY131
Craig M. Lee
University of Washington
https://www.bodc.ac.uk/resources/inventories/cruise_inventory/reports/dy131.pdf
Report describing DY131
Community Standard Description
International Council for the Exploration of the Sea
RRS Discovery
vessel