http://lod.bco-dmo.org/id/dataset/954686
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
2025-02-26
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Dissolved B vitamin and vitamer concentrations in surface seawater collected during the Malaspina Circumnavigation Expedition from December 2010 to July 2011
2025-02-27
publication
2025-02-27
revision
BCO-DMO Linked Data URI
2025-02-27
creation
http://lod.bco-dmo.org/id/dataset/954686
Sergio A. Sanudo-Wilhelmy
University of Southern California
principalInvestigator
Laura Gómez-Consarnau
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: Gómez-Consarnau, L., Sanudo-Wilhelmy, S. A., Shang, Y., Rugama-Montenegro, R. (2025) Dissolved B vitamin and vitamer concentrations in surface seawater collected during the Malaspina Circumnavigation Expedition from December 2010 to July 2011. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2025-02-27 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/954686 [access date]
Dissolved B-vitamins and vitamers Dataset Description: Methods and Sampling: <p><strong>Sampling protocol:</strong><br />
Samples were collected using a Teflon tow-fish sampling system deployed at approximately 3-meters (m) depth utilizing established trace metal-clean techniques. After sample collection, seawater was filtered on board through acid-washed 0.2-micrometer (μm) filter cartridges and frozen until analysis.</p>
<p><strong>Preconcentration protocol:</strong><br />
Samples for dissolved vitamin analysis were preconcentrated as previously described (Okbamichael and Sañudo-Wilhelmy, 2004; Okbamichael and Sañudo-Wilhelmy, 2005; Sañudo-Wilhelmy et al., 2012; Suffridge et al., 2017). Briefly, preconcentration columns were prepared by pouring 1:1 MeOH: C18 resin (HF Bondesil (Agilent Technologies)) slurry into Poly-Prep Columns (Biorad). The resin was allowed to settle, and the excess MeOH was drained, leaving 7 milliliters (ml) of resin. Thawed samples were adjusted to pH 6.5 using dilute HCl and passed over the preconcentration column at 1 ml per minute. The residual salt was rinsed off the resin using 30 ml of LC/MS grade water. The target analytes were then eluted from the resin using 12 ml of LC/MS grade methanol into methanol-rinsed 15 ml conical centrifuge tubes. Eluted samples were then further concentrated via evaporation in a nitrogen dryer using 5-20 PSI compressed N2 gas, in a dark, at room temperature. Samples were allowed to evaporate until 250 microliters (μl) remained, and then stored at -20 degrees Celsius (°C) until LC/MS analysis, which occurred within 24 hours. Prior to LC/MS analysis, samples were adjusted to pH 6.5 using 10 μl of dilute NaOH.</p>
<p><strong>LC/MS Analysis:</strong><br />
Quantification of vitamin B7 (biotin); four different chemical forms of vitamin B12 ((adenosyl (AB12)-cyano (CB12)-hydroxy (HB12), and methyl (MB12) B12; vitamin B1 (thiamin); two of its precursors (HMP,( 4-Amino-5-hydroxymethyl-2-methylpyrimidine) and cHET (5-(2-Hydroxyethyl)-4-methyl-1,3-thiazole-2-carboxylic acid) as well as HET (4-Methyl-5-thiazoleethanol), precursor of cHET and AmMP (4-amino-5-aminomethyl-2-methylpyrimidine), a salvage compound for the HMP synthesis, was carried out with a Thermo TSQ Altis Plus triple quadrupole mass spectrometer, coupled to a Vanquish Flex UHPLC system. The LC system used a stable-bond C18 reversed-phase column (Discovery HS C18 10cm x 2.1mm, 5μm column, Supelco Analytical) with a 50 μl sample loop. The computer software Trace Finder General 5.2 Quan and TSQ Altis Plus 3.4 Tune (Thermo Scientific) were used for data acquisition and analysis. A 12-minute gradient flow was used with mobile phases of methanol (MeOH) and LC/MS grade water, both buffered to pH 4 with 0.5% acetic acid. The flow rate was set at 230 microliters per minute (μl/min) throughout the run, with a gradient starting at 93% LC/MS water: 7% MeOH for two minutes, changing to 100% MeOH by seven minutes, and continuing at 100% MeOH until nine minutes and returning to initial conditions until the gradient completes at twelve minutes. All peaks were identified using standards dissolved in LC/MS grade water. The mass spectrometer was run in Selected Reaction Monitoring (SRM) mode with positive polarity with a well time of 100 milliseconds (ms) per transition. The resolution of the mass filters used for quadrupoles 1 and 2 were 0.7 and 0.1 m/z, respectively. The ESI spray voltage was 4000V, sheath gas (N2) pressure was 30 PSI, the auxiliary gas (Ar) pressure was 3 PSI, the capillary temperature was 269°C, and the collision pressure was 2.1 torr. B vitamin and vitamer values reported as 0.00 should be interpreted as "non-detectable".</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-2220546 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=2220546
onGoing
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
Laura Gómez-Consarnau
University of Southern California
213-740-8779
3616 Trousdale Parkway AHF 143
Los Angeles
CA
90089
USA
gomezcon@usc.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Cruise
Sample_ID
Station
Date
Longitude
Latitude
Depth_m
HMP_pM
AmMP_pM
B1_pM
HET_pM
Thiazole_pM
cHET_pM
B7_pM
HB12_pM
CB12_pM
AB12_pM
MB12_pM
Thermo TSQ Altis Plus triple quadrupole mass spectrometer
Teflon tow-fish sampling system
Vanquish Flex UHPLC system
theme
None, User defined
Cruise identfier
sample identification
station
date
latitude
longitude
depth
chemical concentration
featureType
BCO-DMO Standard Parameters
Quadrupole Mass Spectrometer
towed unmanned submersible
Ultra-high-performance liquid chromatography
instrument
BCO-DMO Standard Instruments
Malaspina_2010_Hesperides
Malaspina_2010_Gamboa
service
Deployment Activity
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.
Putting B-vitamins on the map: to what extent do they shape phytoplankton dynamics and biogeography in the global ocean?
https://osprey.bco-dmo.org/project/877145
Putting B-vitamins on the map: to what extent do they shape phytoplankton dynamics and biogeography in the global ocean?
<p><em>NSF Award Abstract:</em><br />
B-vitamins (thiamin, B1; biotin B7; cobalamin, B12) are organic molecules necessary for all the biological transformations of the chemical elements that support life on Earth. Without the activity of those molecules, the chemistry of life on Earth—as we know it—would end. In marine systems, the availability of B-vitamins also affects food web dynamics by controlling both bacterial and phytoplankton growth and species diversity. Because many organisms that can make several B-vitamins lack the ability to synthesize others, their vitamin needs and environmental accessibility could define which, when, and where specific phytoplankton species flourish. As a result, planktonic communities in nature need to constantly share B-vitamins in a complex mosaic of interdependencies. Despite the early discovery of their relevance in the 1940s, most current marine vitamin research is still based on laboratory experiments or studies focusing on the biological responses of B-vitamin additions on algae and bacteria. Yet, vitamin distributions in the world ocean are mostly unknown, as they have only been measured in a few marine basins. Thus, the actual effect of their natural distributions in phytoplankton communities is still a mystery today. The main goal of this project is to elucidate the effects of B-vitamins availability on the spatial distributions of different phytoplankton species in surface waters of the world ocean. These data are needed to start untangling the rules by which members of the microbial plankton are interconnected through vitamin exchange and to determine how these essential interrelations may control surface ocean ecosystem functioning, such as phytoplankton and bacterial growth. Ultimately understanding these controls and their dynamics is critical to predicting future changes in the marine environment. In the future greenhouse world, the ocean is expected to be of paramount importance, providing the required protein to nurture future human populations and to reduce the levels of human-produced atmospheric CO2 through its uptake by photosynthetic organisms with different vitamin requirements.</p>
<p>This study is to establish the first global map of B-vitamin distributions in surface waters of the world ocean collected during the Malaspina circumnavigation expedition. This global map of vitamins is being used to determine their importance on phytoplankton species biogeography, a still unresolved ecological riddle. Another objective of the study is to establish how ambient vitamin concentrations, combined with bioactive trace elements and macronutrients, promote changes in the relative abundance of different eukaryotic and prokaryotic plankton species on the surface ocean. Overall, this is the first global study on the role of B-vitamins on ecosystem functioning and species composition in subtropical and tropical open ocean environments including the ocean gyres. The investigators are carrying out targeted metagenomic analyses to identify B-vitamins synthesizers and consumers within the planktonic community at several globally distributed stations across the Atlantic, Pacific, and Indian oceans. The extensive datasets already generated by the hundreds of participants of the Malaspina expedition is fully available to interpret the vitamin results. This study allows us to expand our understanding of B-vitamin distributions on a global scale and further investigate how surface ocean’s plankton community dynamics are intertwined with ambient B-vitamin pools.</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>
VitaMaps
largerWorkCitation
project
eng; USA
oceans
150.9605738
-179.5331244
-39.841384
35.161876
2010-12-16
2011-07-09
0
BCO-DMO catalogue of parameters from Dissolved B vitamin and vitamer concentrations in surface seawater collected during the Malaspina Circumnavigation Expedition from December 2010 to July 2011
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/954906.rdf
Name: Cruise
Units: unitless
Description: <p>Cruise name</p>
http://lod.bco-dmo.org/id/dataset-parameter/954907.rdf
Name: Sample_ID
Units: unitless
Description: <p>Sample ID</p>
http://lod.bco-dmo.org/id/dataset-parameter/954908.rdf
Name: Station
Units: unitless
Description: <p>Station number</p>
http://lod.bco-dmo.org/id/dataset-parameter/954909.rdf
Name: Date
Units: unitless
Description: <p>Date of sampling</p>
http://lod.bco-dmo.org/id/dataset-parameter/954910.rdf
Name: Longitude
Units: decimal degrees
Description: <p>Longitude of sampling; negative values = West</p>
http://lod.bco-dmo.org/id/dataset-parameter/954911.rdf
Name: Latitude
Units: decimal degrees
Description: <p>Latitude of sampling; negative values = South</p>
http://lod.bco-dmo.org/id/dataset-parameter/954912.rdf
Name: Depth_m
Units: meters (m)
Description: <p>Sample depth</p>
http://lod.bco-dmo.org/id/dataset-parameter/954913.rdf
Name: HMP_pM
Units: picomoles per liter (pico mol L-1)
Description: <p>4-aminio-5-hydroxymethyl-2-methylpyrimidine concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/954914.rdf
Name: AmMP_pM
Units: picomoles per liter (pico mol L-1)
Description: <p>4-amino-5-aminomethyl-2-methylpyrimidine concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/954915.rdf
Name: B1_pM
Units: picomoles per liter (pico mol L-1)
Description: <p>Thiamin concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/954916.rdf
Name: HET_pM
Units: picomoles per liter (pico mol L-1)
Description: <p>4-methyl-5-thiazoleethanol concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/954917.rdf
Name: Thiazole_pM
Units: picomoles per liter (pico mol L-1)
Description: <p>Thiazole concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/954918.rdf
Name: cHET_pM
Units: picomoles per liter (pico mol L-1)
Description: <p>5-(2-Hydroxyethy)-4-Methyl-1,3-Thiazole-2-Carboxylic Acid concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/954919.rdf
Name: B7_pM
Units: picomoles per liter (pico mol L-1)
Description: <p>Biotin concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/954920.rdf
Name: HB12_pM
Units: picomoles per liter (pico mol L-1)
Description: <p>Hydroxycobalamin concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/954921.rdf
Name: CB12_pM
Units: picomoles per liter (pico mol L-1)
Description: <p>Cyanocobalamin concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/954922.rdf
Name: AB12_pM
Units: picomoles per liter (pico mol L-1)
Description: <p>Adenosylobalamin concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/954923.rdf
Name: MB12_pM
Units: picomoles per liter (pico mol L-1)
Description: <p>Methylcobalamin concentration</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/954686/data/download
download
onLine
dataset
<p><strong>Sampling protocol:</strong><br />
Samples were collected using a Teflon tow-fish sampling system deployed at approximately 3-meters (m) depth utilizing established trace metal-clean techniques. After sample collection, seawater was filtered on board through acid-washed 0.2-micrometer (μm) filter cartridges and frozen until analysis.</p>
<p><strong>Preconcentration protocol:</strong><br />
Samples for dissolved vitamin analysis were preconcentrated as previously described (Okbamichael and Sañudo-Wilhelmy, 2004; Okbamichael and Sañudo-Wilhelmy, 2005; Sañudo-Wilhelmy et al., 2012; Suffridge et al., 2017). Briefly, preconcentration columns were prepared by pouring 1:1 MeOH: C18 resin (HF Bondesil (Agilent Technologies)) slurry into Poly-Prep Columns (Biorad). The resin was allowed to settle, and the excess MeOH was drained, leaving 7 milliliters (ml) of resin. Thawed samples were adjusted to pH 6.5 using dilute HCl and passed over the preconcentration column at 1 ml per minute. The residual salt was rinsed off the resin using 30 ml of LC/MS grade water. The target analytes were then eluted from the resin using 12 ml of LC/MS grade methanol into methanol-rinsed 15 ml conical centrifuge tubes. Eluted samples were then further concentrated via evaporation in a nitrogen dryer using 5-20 PSI compressed N2 gas, in a dark, at room temperature. Samples were allowed to evaporate until 250 microliters (μl) remained, and then stored at -20 degrees Celsius (°C) until LC/MS analysis, which occurred within 24 hours. Prior to LC/MS analysis, samples were adjusted to pH 6.5 using 10 μl of dilute NaOH.</p>
<p><strong>LC/MS Analysis:</strong><br />
Quantification of vitamin B7 (biotin); four different chemical forms of vitamin B12 ((adenosyl (AB12)-cyano (CB12)-hydroxy (HB12), and methyl (MB12) B12; vitamin B1 (thiamin); two of its precursors (HMP,( 4-Amino-5-hydroxymethyl-2-methylpyrimidine) and cHET (5-(2-Hydroxyethyl)-4-methyl-1,3-thiazole-2-carboxylic acid) as well as HET (4-Methyl-5-thiazoleethanol), precursor of cHET and AmMP (4-amino-5-aminomethyl-2-methylpyrimidine), a salvage compound for the HMP synthesis, was carried out with a Thermo TSQ Altis Plus triple quadrupole mass spectrometer, coupled to a Vanquish Flex UHPLC system. The LC system used a stable-bond C18 reversed-phase column (Discovery HS C18 10cm x 2.1mm, 5μm column, Supelco Analytical) with a 50 μl sample loop. The computer software Trace Finder General 5.2 Quan and TSQ Altis Plus 3.4 Tune (Thermo Scientific) were used for data acquisition and analysis. A 12-minute gradient flow was used with mobile phases of methanol (MeOH) and LC/MS grade water, both buffered to pH 4 with 0.5% acetic acid. The flow rate was set at 230 microliters per minute (μl/min) throughout the run, with a gradient starting at 93% LC/MS water: 7% MeOH for two minutes, changing to 100% MeOH by seven minutes, and continuing at 100% MeOH until nine minutes and returning to initial conditions until the gradient completes at twelve minutes. All peaks were identified using standards dissolved in LC/MS grade water. The mass spectrometer was run in Selected Reaction Monitoring (SRM) mode with positive polarity with a well time of 100 milliseconds (ms) per transition. The resolution of the mass filters used for quadrupoles 1 and 2 were 0.7 and 0.1 m/z, respectively. The ESI spray voltage was 4000V, sheath gas (N2) pressure was 30 PSI, the auxiliary gas (Ar) pressure was 3 PSI, the capillary temperature was 269°C, and the collision pressure was 2.1 torr. B vitamin and vitamer values reported as 0.00 should be interpreted as "non-detectable".</p>
Specified by the Principal Investigator(s)
<p>The computer software Trace Finder General 5.2 Quan and TSQ Altis Plus 3.4 Tune (Thermo Scientific) were used for data acquisition and analysis.</p>
Specified by the Principal Investigator(s)
- Imported original file "Dataset_MH_B-vitamin concentrations_Final data set_20241206.xlsx" into the BCO-DMO system.
- Renamed fields to comply with BCO-DMO naming conventions.
- Converted date field to YYYY-MM-DD format.
- Saved the final file as "954686_v1_dissolved_b_vitamins_and_vitamers.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
Thermo TSQ Altis Plus triple quadrupole mass spectrometer
Thermo TSQ Altis Plus triple quadrupole mass spectrometer
PI Supplied Instrument Name: Thermo TSQ Altis Plus triple quadrupole mass spectrometer PI Supplied Instrument Description:Thermo TSQ Altis Plus triple quadrupole mass spectrometer, coupled to a Vanquish Flex UHPLC system Instrument Name: Quadrupole Mass Spectrometer Instrument Short Name:QMS Instrument Description: A piece of apparatus that consists of an ion source, a mass-to-charge analyser, a detector and a vacuum system and is used to measure mass spectra. The detector is a quadrupole mass-to-charge analyser, which holds the ions in a stable orbit by an electric field generated by four parallel electrodes.
Teflon tow-fish sampling system
Teflon tow-fish sampling system
PI Supplied Instrument Name: Teflon tow-fish sampling system PI Supplied Instrument Description:a Teflon tow-fish sampling system deployed at approximately 3m depth utilizing established trace metal-clean techniques 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).
Vanquish Flex UHPLC system
Vanquish Flex UHPLC system
PI Supplied Instrument Name: Vanquish Flex UHPLC system PI Supplied Instrument Description:Thermo TSQ Altis Plus triple quadrupole mass spectrometer, coupled to a Vanquish Flex UHPLC system Instrument Name: Ultra-high-performance liquid chromatography Instrument Short Name:UHPLC Instrument Description: Ultra high-performance liquid chromatography: Column chromatography where the mobile phase is a liquid, the stationary phase consists of very small (< 2 microm) particles and the inlet pressure is relatively high.
Cruise: Malaspina_2010_Hesperides
Malaspina_2010_Hesperides
R/V Hespérides
vessel
Cruise: Malaspina_2010_Gamboa
Malaspina_2010_Gamboa
R/V Sarmiento de Gamboa
vessel
R/V Hespérides
vessel