Dataset: EN640 HPLC Pigments

Name: Phytoplankton diagnostic pigments from HPLC from samples collected on R/V Endeavor cruise EN640 in the tropical North Atlantic during June-July 2019
Published: 2021-12-08
Keywords: oceans

Cite This Dataset

DOI:10.26008/1912/bco-dmo.866351.1

Spatial Extent: N:16.0128 E:-50.384 S:4.87925 W:-60.0025

Temporal Extent: 2019-06-15 - 2019-07-07

Project:

Collaborative Research: Impact of the Amazon River Plume on Nitrogen Availability and Planktonic Food Web Dynamics in the Western Tropical North Atlantic (Amazon River Plume Nitrogen)

Principal Investigator:

Ajit Subramaniam (Lamont-Doherty Earth Observatory, LDEO)

BCO-DMO Data Manager:

Shannon Rauch (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Version:

Version Date:

2021-12-08

Restricted:

Validated:

Yes

Current State:

Final no updates expected

Phytoplankton diagnostic pigments from HPLC from samples collected on R/V Endeavor cruise EN640 in the tropical North Atlantic during June-July 2019

Abstract:

This dataset includes phytoplankton diagnostic pigments from HPLC from samples collected on R/V Endeavor cruise EN640 in the tropical North Atlantic during June-July 2019. These data are also available through NASA's SeaBASS repository.

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Archival Copy

Version Date	Archive	Persistent Identifier (PID)	Date PID Issued
2021-12-08	Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)	10.26008/1912/bco-dmo.866351.1	2025-01-14

Methods & Sampling

The samples were collected using a CTD rosette and an appropriate volume of water was filtered through a 25mm GF/F filter soon after collection. The filters were then stored in liquid nitrogen until analyzed.

The diagnostic pigments were measured using High-performance liquid chromatography as detailed in Van Heukelem and Thomas (2001) and Hooker et al (2005).

The HPLC used for pigment analysis is an Agilent RR1200 with a programmable autoinjector (900 ul syringe head), refrigerated autosampler, degasser, and photo-diode array detector with deuterium and tungsten lamps. The HPLC is controlled by Agilent Chemstation software. The 4.6 x 150 mm HPLC Eclipse XDB column (Agilent Technologies, Palo Alto, CA) is filled with a C8 stationary phase (3.5 um stationary phase); the mobile phase consists of a linear gradient from 5-95% solvent B over the 27 minutes, for which solvent A is 70 parts methanol, 30 parts 28 mM tetrabutylammononium acetate (pH 6.5) and solvent B is methanol. The column temperature is 60 C and the photo diode array detector is set to plot chromatograms at 450, 665, and 222 nm to acquire visible absorbance spectra between 350 and 750 nm.

Data Processing Description

These data are also available through NASA's SeaBASS repository. See: https://seabass.gsfc.nasa.gov/archive/COLUMBIA_U/subramaniam/LAMONT_ATL/jun19atl/archive

BCO-DMO Processing:
- renamed fields to comply with BCO-DMO naming conventions;
- created ISO_DateTime_UTC field.

Data Files

File
EN640_HPLC.csv (Comma Separated Values (.csv), 32.16 KB) MD5:2ca1e56d614286e22e3d0cfe987891fd Primary data file for dataset ID 866351

More Information about this dataset

Funding Sources

Funding Source	Award Number
NSF Division of Ocean Sciences	OCE-1737128

Deployments

Deployment	Synonyms	Start Date	Platform	Investigator
EN640	JUN19ATL	2019-06-13	R/V Endeavor	Joseph Montoya (Chief Scientist)	data info

Instruments

High-Performance Liquid Chromatograph

Supplied Name: Agilent RR1200

Supplied Description:

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.

Parameters

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

Supplied Name	Supplied description	Supplied Units	Standard Name
Cruise	Cruise ID	unitless	cruise_id
Station	Station ID	unitless	station
Date	Date; format: mon-DD-YYYY Format: %b-%d-%Y	unitless	date
Year	4-digit year Format: %Y	unitless	year
Month	Month Format: %b	unitless	month
Day	Day of month Format: %d	unitless	day
Time_GMT	Time (GMT); format: hh:mm:ss Format: %H:%M:%S	unitless	time
ISO_DateTime_UTC	Date and time (UTC) formatted to ISO8601 standard. Format: yyyy-mm-ddTHH:MM:SSZ (Z indicates UTC) Format: %Y-%m-%dT%H:%M:%SZ	unitless	ISO_DateTime_UTC
Julian_day	Julian day number	unitless	julian_day
Total_Depth	Depth of the water column at the location the sample was collected as measured by the ship's echo sounder (bottom depth)	meters (m)	depth_w
Latitude	Latitude (negative = south)	decimal degrees North	lat
Longitude	Longitude (negative = west)	decimal degrees East	lon
Niskin	Niskin bottle number	unitless	bot_Nis
Depth	Depth of sample	meters (m)	depth
Temperature	Temperature	degrees Celsius	temp
salinity	Salinity	PSU	sal
BeamC	Beam attenuation	reciprocal meters (m-1)	beam_cp
Trans	Percent light transmission	unitless (percent)	trans
Fluorometer	Fluorescence	milligrams per cubic meter (mg/m3)	fluor
PAR	PAR	microEinsteins	PAR
Surface_PAR	Surface PAR	microEinsteins	SPAR
sample	Sample ID	unitless	sample
volfilt	Volume of water filtered	liters (L)	vol_filt
Tot_Chl_a	total chlorophyll a; DV_Chl_a + MV_Chl_a + Chlide_a + Chl_a allomers + Chl_a epimers	milligrams per cubic meter (mg/m3)	chl_a_tot
Tot_Chl_b	total chlorophyll b; DV_Chl_b + MV_Chl_b + Chl_b epimers	milligrams per cubic meter (mg/m3)	chl_b_tot
Tot_Chl_c	total chlorophyll c; Chl_c3 + Chl_c1c2	milligrams per cubic meter (mg/m3)	chl_c_tot
Alpha_beta_Car	carotenes; alpha (beta, epsilon) + beta (beta, beta) carotene. Unresolved and therefore undifferentiated.	milligrams per cubic meter (mg/m3)	carotene
But_fuco	19'-butanoyloxyfucoxanthin	milligrams per cubic meter (mg/m3)	fucox_but
Hex_fuco	19'-hexanoyloxyfucoxanthin	milligrams per cubic meter (mg/m3)	fucox_hex
Allo	alloxanthin	milligrams per cubic meter (mg/m3)	allox
Diadino	diadinoxanthin	milligrams per cubic meter (mg/m3)	diadinox
Diato	diatoxanthin	milligrams per cubic meter (mg/m3)	diatox
Fuco	fucoxanthin	milligrams per cubic meter (mg/m3)	fucox
Perid	Peridinin	milligrams per cubic meter (mg/m3)	peridinin
Zea	Zeaxanthin	milligrams per cubic meter (mg/m3)	zeax
MV_Chl_a	monovinyl chlorophyll a	milligrams per cubic meter (mg/m3)	chl_a1
DV_Chl_a	divinyl chlorophyll a	milligrams per cubic meter (mg/m3)	chl_a2
Chlide_a	chlorophyllide a	milligrams per cubic meter (mg/m3)	chlide_a
MV_Chl_b	monovinyl chlorophyll b	milligrams per cubic meter (mg/m3)	chl_b1
DV_Chl_b	divinyl chlorophyll b	milligrams per cubic meter (mg/m3)	chl_b2
Chl_c1c2	Chlorophyll c2 + chlorophyll c1 + MGDVP Mg-2,4-divnyl pheoporphyrin a5 monomethyl ester	milligrams per cubic meter (mg/m3)	chl_c1_c2
Chl_c3	Chlorophyll c3	milligrams per cubic meter (mg/m3)	chl_c3
Lut	Lutein	milligrams per cubic meter (mg/m3)	lutein
Neo	Neoxanthin	milligrams per cubic meter (mg/m3)	neox
Viola	Violaxanthin	milligrams per cubic meter (mg/m3)	violax
Phytin_a	total pheophorbide a; multiple peaks	milligrams per cubic meter (mg/m3)	p_phorbide
Phide_a	total pheophytin a; pheophytin a + pheophytin a'	milligrams per cubic meter (mg/m3)	p_phytin
Pras	Prasinoxanthin	milligrams per cubic meter (mg/m3)	prasinox
Gyro	Gyroxanthin diester	milligrams per cubic meter (mg/m3)	gyrox
Tchl	total chlorophylls; Tot_Chl_a +Tot_Chl_b +Tot_Chl_c	milligrams per cubic meter (mg/m3)	chl_tot
PPC	photoprotective carotenoids; allo + diadino + diato + zea + alpha-beta-car	milligrams per cubic meter (mg/m3)	car_ppc
PSC	photosynthetic carotenoids; but-fuco + fuco + hex-fuco + perid	milligrams per cubic meter (mg/m3)	car_psc
PSP	photosynthetic pigments; PSC + TChl	milligrams per cubic meter (mg/m3)	chl_psp
Tcar	total carotenoids; PPC + PSC	milligrams per cubic meter (mg/m3)	car_psc_psp
Tacc	total accessory pigments; PPC + PSC + Tot_Chl_b + Tot_Chl_c	milligrams per cubic meter (mg/m3)	pig_tot_acc
Tpg	total pigments; TAcc + Tot_Chl_a	milligrams per cubic meter (mg/m3)	pig_tot
DP	total diagnostic pigments; PSC + allo + zea + Tot_Chl_b	milligrams per cubic meter (mg/m3)	pig_diag
Tacc_Tchla	ratio of total accessory pigments to total chlorophyll a; [Tacc]/[Tchla]	unitless (ratio)	pigacc_to_chla_tot
PSC_Tcar	ratio of photosynthetic carotenoids to total carotenoids; [PSC]/[TCar]	unitless (ratio)	pigpsc_to_cartot
PPC_Tcar	ratio of photoprotective carotenoids to total carotenoids; [PPC]/[Tcar]	unitless (ratio)	pigppc_to_cartot
Tchl_Tcar	ratio of total chlorophyll to total carotenoids; [TChl]/[TCaro]	unitless (ratio)	chltot_to_cartot
PPC_Tpg	ratio of photoprotective carotenoids to total pigments; [PPC]/[Tpg]	unitless (ratio)	pigppc_to_pigtot
PSP_Tpg	ratio of photosynthetic pigments to total pigments; [PSP]/[TPg]	unitless (ratio)	pigpsp_to_pigtot
Tchl_a_Tpg	ratio of total chlorophyll a to total pigments; [TChla]/[TPg]	unitless (ratio)	chla_tot_to_pigtot

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Dataset: EN640 HPLC Pigments