Dataset: vitamin B particulate - Hotmix 2014

Name: Particulate B vitamins from Hotmix expedition, B/O Sarmiento de Gamboa Hotmix, May 2014
Published: 2016-08-08
Keywords: oceans

View Data: Data not available yet

Cite This Dataset

Project:

Can the availability of B-vitamins control phyto-and-bacterioplankton successions in a coastal upwelling region? (B-vitamin plankton succession)

Principal Investigator:

Sergio A. Sanudo-Wilhelmy (University of Southern California, USC-WIES)

Co-Principal Investigator:

Feixue Fu (University of Southern California, USC-WIES)

David A. Hutchins (University of Southern California, USC-HIMS)

Contact:

Lynda Cutter (University of Southern California, USC)

BCO-DMO Data Manager:

Nancy Copley (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Version Date:

2016-08-08

Restricted:

Yes

Release Date:

2017-12-31

Validated:

Yes

Current State:

Final no updates expected

Particulate B vitamins from Hotmix expedition, B/O Sarmiento de Gamboa Hotmix, May 2014

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Description

Access to this data set is restricted until 2017-12-31. Please contact L. Cutter for further information.

Methods & Sampling

Samples for quantification of dissolved and particulate B vitamins were collected at a number of depths within the euphotic zone (see field study sites). Seawater was collected from each CTD depth using Niskin bottles and immediately filtered. Particulate samples were collected using 0.2µm in-line filters and a peristaltic pump (flow rate < 50 ml per minute), transferred into sterile cryovials. and were immediately stored at -80 degrees C until analysis. One liter of filtrate was collected and stored in 1-L bottles at -20 degrees C until analysis. Dissolved B-vitamin pre-concentration was performed as described in Suffridge et. al (2017) and Sañudo et al 2012.

All vitamin samples were analyzed by liquid chromatography/tandem mass spectrometry (LC/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.

Particulate B-vitamins were extracted in acidic methanol (pH 3.5, 5% MeOH, 95% LC/MS Grade water) using bead-beating for cell lysis and a 30C incubation for B-vitamin extraction. A liquid phase extraction using chloroform (1:1 v/v) was used to clean up the samples prior to analysis. The extraction was performed as described in Suffridge et. al (submitted to L&O Methods, June 2016).

Cited References:

Suffridge, Christopher; Cutter, Lynda; Sanudo-Wilhelmy, Sergio (2017) A New Analytical Method for Direct Measurement of Particulate and Dissolved B-vitamins and Their Congeners in Seawater. Front. Mar. Sci. vol.4 doi.org/10.3389/fmars.2017.00011

Sanudo 2012 - Proc Natl Acad Sci U S A. 2012 Aug 28;109(35):14041-5. doi: 10.1073/pnas.1208755109. Epub 2012 Jul 23

Data Processing Description

BCO-DMO Processing:

- added conventional header with dataset name, PI name, version date
- renamed parameters to BCO-DMO standard
- replaced blank cells with nd (no data)
- mean_pM and std_dev: reduced digits right of decimal from 9 to 1 to take measurement precision into consideration

More Information about this dataset

Funding Sources

Funding Source	Award Number
NSF Division of Ocean Sciences	OCE-1435666

Deployments

Deployment	Synonyms	Start Date	Platform	Investigator
Hotmix2014		2014-04-29	B/O Sarmiento de Gamboa		data info

Instruments

CTD - profiler

Supplied Name:

Supplied Description:

Instrument Type

Generic Name: CTD - profiler

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/130/

Generic Description:

The Conductivity, Temperature, Depth (CTD) unit is an integrated instrument package designed to measure the conductivity, temperature, and pressure (depth) of the water column. The instrument is lowered via cable through the water column. It permits scientists to observe the physical properties in real-time via a conducting cable, which is typically connected to a CTD to a deck unit and computer on a ship. The CTD is often configured with additional optional sensors including fluorometers, transmissometers and/or radiometers. It is often combined with a Rosette of water sampling bottles (e.g. Niskin, GO-FLO) for collecting discrete water samples during the cast.

This term applies to profiling CTDs. For fixed CTDs, see https://www.bco-dmo.org/instrument/869934.

High-Performance Liquid Chromatograph

Supplied Name:

Supplied Description:

Thermo Accela High Speed Liquid Chromatography system

Instrument Type

Generic Name: High-Performance Liquid Chromatograph

Acronym: HPLC

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB11/

Generic Description:

A High-performance liquid chromatograph (HPLC) is a type of liquid chromatography used to separate compounds that are dissolved in solution. HPLC instruments consist of a reservoir of the mobile phase, a pump, an injector, a separation column, and a detector. Compounds are separated by high pressure pumping of the sample mixture onto a column packed with microspheres coated with the stationary phase. The different components in the mixture pass through the column at different rates due to differences in their partitioning behavior between the mobile liquid phase and the stationary phase.

Mass Spectrometer

Supplied Name:

Supplied Description:

ThermoTSQ Quantum Access electro-spray ionization triple quadrupole mass spectrometer

Instrument Type

Generic Name: Mass Spectrometer

Acronym: Mass Spec

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB16/

Generic 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.

Niskin bottle

Supplied Name:

Supplied Description:

Instrument Type

Generic Name: Niskin bottle

Community Identifier: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0412/

Generic 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.

Parameters

Date and time formats are described in python strftime() syntax.

Supplied Name	Supplied description	Supplied Units	Standard Name
station	station number	unitless	station
lat	latitude; north is positive	decimal degrees	lat
lon	longitude; east is positive	decimal degrees	lon
depth	sample depth	meters	depth
analyte	dissolved vitamin-B form: AB12: Adenosyl Cobalamin B1: Thiamine B7: Biotin CB12: Cyanocobalamin HB12: Hydroxycobalamin HMP: 4-Amino-2-methyl-5-pyrimidinyl methanol MB12: Methylcobalamin MET: Methionine TMP: Thiamine monophosphate TPP: Thiamine pyrophosphate	unitless	sample_descrip
mean_pM	analyte concentration	picomoles per liter	no_bcodmo_term
std_dev	concentration standard deviation	picomoles per liter	std_dev

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Database

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Dataset: vitamin B particulate - Hotmix 2014