http://lod.bco-dmo.org/id/dataset/753883
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
2019-01-28
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Vitamin and methionine quantifications from SPOT cruises during different months from from March to December 2017
2019-02-06
publication
2019-02-06
revision
BCO-DMO Linked Data URI
2019-02-06
creation
http://lod.bco-dmo.org/id/dataset/753883
Sergio A. Sanudo-Wilhelmy
University of Southern California
principalInvestigator
David A. Hutchins
University of Southern California
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: Sanudo-Wilhelmy, S. A., Hutchins, D. A. (2019) Vitamin and methionine quantifications from SPOT cruises during different months from from March to December 2017. Biological and Chemical Oceanography Data Management Office (BCO-DMO). Version Date 2019-02-06 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/753883 [access date]
Vitamin and methionine quantifications from SPOT cruises during different months Dataset Description: Methods and Sampling: <p>Samples for quantification of B-vitamins B1, B7, CB12 and Methionine were collected at a six of depths within the euphotic zone (5-250m). Seawater was collected from each CTD depth using Niskin bottles and immediately filtered. Particulate samples for chlorophyll quantifications were collected using in-line 0.2um, 3µm and 10um pore-size filters and a peristaltic pump (flow rate &lt; 50 ml per minute), transferred into sterile cryovials and were immediately stored at -80 degrees C until analysis. Pigments were extracted from the filters in 3 mL of methanol, BHT(butylated hydroxytoluene) was added and placed in a -20 degrees C freezer overnight. For chlorophyll-a measurements, 100 microliters of the pigment extraction were diluted in acetone (50x dilution) and analyzed using a Turner 10AU fluorometer.</p>
<p>B-vitamins and Methionine samples were analyzed as in Suffridge et al. 2017. Two liters of seawater were filtered through um pore-size filters and then preconcentrated using a C18 resin (HF Bondesil (Agilent Technologies) and analyzed by liquid chromatography/triple mass spectrometry (LC/MS/MS/MS). The LCMS system consists of a ThermoTSQ Quantum Access electro-spray ionization triple quadrupole mass spectrometer, coupled to a Thermo Accela High Speed Liquid Chromatography system. The LC system used a stable- bond C18 reversed-phase column (DiscoveryHSC18 10cm × 2.1mm,5 μm column, Supelco Analytical) with a100 uL sample loop. In order to increase the sensitivity and precision, theLC/MS was run in full-loop mode (100 ul/injection).</p>
<p>Bacterial cell counts were heterotrophic prokaryotes were enumerated by flow-cytometry (Becton–Dickinson FACScalibur) (Gasol &amp; del Giorgio, 2000).</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1435666 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1435666
completed
Sergio A. Sanudo-Wilhelmy
University of Southern California
213-821-1302
3616 Trousdale Pkwy Dept. of Biological Sciences, AHF 206, Mail Code: 0371
Los Angeles
CA
90089
USA
sanudo@usc.edu
pointOfContact
David A. Hutchins
University of Southern California
213-740-5616
Department of Biological Sciences 3616 Trousdale Parkway, AHF 20
Los Angeles
CA
90089
USA
dahutch@usc.edu
pointOfContact
asNeeded
Unknown
Cruise
Date
Time_range
Time_start
Time_end
Longitude
Latitude
Depth
B1
B7
CB12
MET
Chla_0_2
Chla_total
Bacterial_cell_counts
ThermoTSQ Quantum Access electro-spray ionization triple quadrupole mass spectrometer
Niskin bottles
Peristaltic pump
Turner 10AU fluorometer
theme
None, User defined
Cruise identfier
date
time of day
longitude
latitude
depth
No BCO-DMO term
chlorophyll a
count
featureType
BCO-DMO Standard Parameters
Mass Spectrometer
Niskin bottle
Pump
Turner Designs Fluorometer 10-AU
instrument
BCO-DMO Standard Instruments
SPOT_Yellowfin_Cruises
SPOT_Nerissa_Cruises_2017
service
Deployment Activity
San Pedro Ocean Time Series
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.
Can the availability of B-vitamins control phyto-and-bacterioplankton successions in a coastal upwelling region?
https://osprey.bco-dmo.org/project/516960
Can the availability of B-vitamins control phyto-and-bacterioplankton successions in a coastal upwelling region?
<p><em>Description from NSF award abstract:</em><br />
B-vitamins (thiamin (B1), biotin (B7), and cobalamin (B12)) are organic molecules used by all organisms for many biochemical reactions ranging from DNA and amino acid synthesis to carbon dioxide assimilation. Despite their metabolic importance, many marine organisms cannot make them and need to obtain them from the environment. Because the requirement for a specific vitamin is different for different organisms, changes in the species composition of algae could be explained by their different B-vitamin requirements. For example, changes in the biological properties of waters during an algal bloom (removal of needed vitamins and release of other vitamins) may favor algae that require the vitamin released by the previous bloom (setting up a floral succession). This selective preconditioning of the waters may be one factor in the seasonal succession of algal species. However, evaluating the role of vitamins in marine ecology has been difficult. No study to date has been comprehensive enough to estimate the importance of vitamins in primary productivity and species succession. This is especially true in coastal upwelling regions that although relatively small in area, are orders of magnitude more productive than their open-ocean counterparts. In fact, those regions contribute a significant portion of the world fisheries. Therefore, in order to try to predict future changes in the world ocean due to human activity, the variables that influence or control the algal communities that dominate the very productive food chains of upwelling regions need to be identified.</p>
<p>This study will investigate how the availability of B-vitamins affects the dynamics of algal- and bacterioplankton population growth in coastal waters of an upwelling region off Southern California. This comprehensive field investigation will determine in situ temporal concentrations of several dissolved and particulate B-vitamins, inorganic micro- and macronutrients, concurrently with seasonal changes in phytoplankton and bacterial abundances and species composition at a long-term time series station within the San Pedro Basin near Los Angeles. Those measurements will be complemented with field incubation experiments with natural plankton assemblages to study the effect of organic and inorganic nutrient amendments on phytoplankton and bacterial community structure. This study will establish for the first time that the availability of ambient B-vitamins influence algal and bacterial species succession in a highly productive coastal upwelling region and that multiple and differing B-vitamin requirements limit growth of some phytoplankton species in those areas. Furthermore, this study will try to show that coastal upwelling transports some B-vitamins to the phytoplankton community in the photic zone from bacterially-influenced source waters within the upper mesopelagic zone.</p>
B-vitamin plankton succession
largerWorkCitation
project
eng; USA
oceans
San Pedro Ocean Time Series
-118.4
-118.4
33.55
33.55
2017-03-15
2017-12-15
Southern California Bight
0
BCO-DMO catalogue of parameters from Vitamin and methionine quantifications from SPOT cruises during different months from from March to December 2017
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/754280.rdf
Name: Cruise
Units: unitless
Description: <p>Cruise name</p>
http://lod.bco-dmo.org/id/dataset-parameter/754281.rdf
Name: Date
Units: unitless
Description: <p>Date; format: yyyy-mm-dd</p>
http://lod.bco-dmo.org/id/dataset-parameter/754282.rdf
Name: Time_range
Units: unitless
Description: <p>Time range</p>
http://lod.bco-dmo.org/id/dataset-parameter/754283.rdf
Name: Time_start
Units: unitless
Description: <p>Start time; format: HH:MM</p>
http://lod.bco-dmo.org/id/dataset-parameter/754284.rdf
Name: Time_end
Units: unitless
Description: <p>End time; format: HH:MM</p>
http://lod.bco-dmo.org/id/dataset-parameter/754285.rdf
Name: Longitude
Units: decimal degrees
Description: <p>Longitude of sampling site; postivie values = East</p>
http://lod.bco-dmo.org/id/dataset-parameter/754286.rdf
Name: Latitude
Units: decimal degrees
Description: <p>Latitude of sampling site; positive values = North</p>
http://lod.bco-dmo.org/id/dataset-parameter/754287.rdf
Name: Depth
Units: meters (m)
Description: <p>Sample depth</p>
http://lod.bco-dmo.org/id/dataset-parameter/754288.rdf
Name: B1
Units: picomolar (pM)
Description: <p>Average Vitamin B1 (Thiamin) concentrations of triplicate analytical replicates using HPLC-MS</p>
http://lod.bco-dmo.org/id/dataset-parameter/754289.rdf
Name: B7
Units: picomolar (pM)
Description: <p>Average Vitamin B7 (Biotin) concentrations of triplicate analytical replicates using HPLC-MS.</p>
http://lod.bco-dmo.org/id/dataset-parameter/754290.rdf
Name: CB12
Units: picomolar (pM)
Description: <p>Average Vitamin B12 (as Cyanocobalamin) concentrations of triplicate analytical replicates using HPLC-MS.</p>
http://lod.bco-dmo.org/id/dataset-parameter/754291.rdf
Name: MET
Units: picomolar (pM)
Description: <p>Average Methionine concentrations of triplicate analytical replicates using HPLC-MS.</p>
http://lod.bco-dmo.org/id/dataset-parameter/754292.rdf
Name: Chla_0_2
Units: picomolar (pM)
Description: <p>Chlorophyll-a concentrations of triplicate analytical replicates using a 10-AU fluorometer. This fraction contains chlorophyll from organisms of 0.2-3 um and was collected onto 0.2 um pore-size filters.</p>
http://lod.bco-dmo.org/id/dataset-parameter/754293.rdf
Name: Chla_total
Units: picomolar (pM)
Description: <p>Chlorophyll-a concentrations of triplicate analytical replicates using a 10-AU fluorometer. This fraction contains chlorophyll from all microorganisms larger than 0.2 um.</p>
http://lod.bco-dmo.org/id/dataset-parameter/754294.rdf
Name: Bacterial_cell_counts
Units: cells per milliliter (cells ml-1)
Description: <p>Bacterial cell concentration per milliliter of seawater.</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
https://osprey.bco-dmo.org/dataset/753883/data/download
download
onLine
dataset
<p>Samples for quantification of B-vitamins B1, B7, CB12 and Methionine were collected at a six of depths within the euphotic zone (5-250m). Seawater was collected from each CTD depth using Niskin bottles and immediately filtered. Particulate samples for chlorophyll quantifications were collected using in-line 0.2um, 3µm and 10um pore-size filters and a peristaltic pump (flow rate &lt; 50 ml per minute), transferred into sterile cryovials and were immediately stored at -80 degrees C until analysis. Pigments were extracted from the filters in 3 mL of methanol, BHT(butylated hydroxytoluene) was added and placed in a -20 degrees C freezer overnight. For chlorophyll-a measurements, 100 microliters of the pigment extraction were diluted in acetone (50x dilution) and analyzed using a Turner 10AU fluorometer.</p>
<p>B-vitamins and Methionine samples were analyzed as in Suffridge et al. 2017. Two liters of seawater were filtered through um pore-size filters and then preconcentrated using a C18 resin (HF Bondesil (Agilent Technologies) and analyzed by liquid chromatography/triple mass spectrometry (LC/MS/MS/MS). The LCMS system consists of a ThermoTSQ Quantum Access electro-spray ionization triple quadrupole mass spectrometer, coupled to a Thermo Accela High Speed Liquid Chromatography system. The LC system used a stable- bond C18 reversed-phase column (DiscoveryHSC18 10cm × 2.1mm,5 μm column, Supelco Analytical) with a100 uL sample loop. In order to increase the sensitivity and precision, theLC/MS was run in full-loop mode (100 ul/injection).</p>
<p>Bacterial cell counts were heterotrophic prokaryotes were enumerated by flow-cytometry (Becton–Dickinson FACScalibur) (Gasol &amp; del Giorgio, 2000).</p>
Specified by the Principal Investigator(s)
<p>Data Processing: The LC-MS data was processed using Xcalibur and LCQUAN quantitative softwares from Thermo Scientific.</p>
<p>Problem report: The SPOT sampling for the months of May and July were carried out on the research vessel&nbsp; Nerissa of the Orange County Sanitation District. This was because the RV Yellowfin was in the dry dock for maintenance and repairs. Unfortunately, the light intensity for those two months is missing due to problems with the sensor.&nbsp;</p>
<p>BCO-DMO Processing:<br />
- replaced spaces with underscores in cruise names;<br />
- changed date format from m/d/yyyy to yyyy-mm-dd;<br />
- separated time column into Time_start and Time_end<br />
- converted Latitude and Longitude from degrees and minutes&nbsp;to decimal degrees, added new columns and removed original;<br />
- modified parameter names (replaced spaces and decimals with underscores, removed units)<br />
- filled in empty cells with "nd"; replaced NaN with "nd" ("no data").</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
ThermoTSQ Quantum Access electro-spray ionization triple quadrupole mass spectrometer
ThermoTSQ Quantum Access electro-spray ionization triple quadrupole mass spectrometer
PI Supplied Instrument Name: ThermoTSQ Quantum Access electro-spray ionization triple quadrupole mass spectrometer Instrument Name: Mass Spectrometer Instrument Short Name:Mass Spec Instrument Description: General term for instruments used to measure the mass-to-charge ratio of ions; generally used to find the composition of a sample by generating a mass spectrum representing the masses of sample components. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB16/
Niskin bottles
Niskin bottles
PI Supplied Instrument Name: Niskin bottles Instrument Name: Niskin bottle Instrument Short Name:Niskin bottle Instrument Description: A Niskin bottle (a next generation water sampler based on the Nansen bottle) is a cylindrical, non-metallic water collection device with stoppers at both ends. The bottles can be attached individually on a hydrowire or deployed in 12, 24, or 36 bottle Rosette systems mounted on a frame and combined with a CTD. Niskin bottles are used to collect discrete water samples for a range of measurements including pigments, nutrients, plankton, etc. Community Standard Description: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0412/
Peristaltic pump
Peristaltic pump
PI Supplied Instrument Name: Peristaltic pump Instrument Name: Pump Instrument Short Name: Instrument Description: A pump is a device that moves fluids (liquids or gases), or sometimes slurries, by mechanical action. Pumps can be classified into three major groups according to the method they use to move the fluid: direct lift, displacement, and gravity pumps
Turner 10AU fluorometer
Turner 10AU fluorometer
PI Supplied Instrument Name: Turner 10AU fluorometer Instrument Name: Turner Designs Fluorometer 10-AU Instrument Short Name:Turner Fluorometer 10-AU Instrument Description: The Turner Designs 10-AU Field Fluorometer is used to measure Chlorophyll fluorescence. The 10AU Fluorometer can be set up for continuous-flow monitoring or discrete sample analyses. A variety of compounds can be measured using application-specific optical filters available from the manufacturer (read more from Turner Designs, turnerdesigns.com, Sunnyvale, CA, USA). Community Standard Description: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0393/
Cruise: SPOT_Yellowfin_Cruises
SPOT_Yellowfin_Cruises
R/V Yellowfin
R/V Yellowfin
vessel
Cruise: SPOT_Nerissa_Cruises_2017
SPOT_Nerissa_Cruises_2017
R/V Nerissa
vessel
R/V Yellowfin
R/V Yellowfin
vessel
R/V Nerissa
vessel