Dataset: chlorophyll_profile
Deployment: COOK19MV

Fluorometric chlorophyll from Niskin and TM bottle samples

Co-Principal Investigator:

Richard Barber (Duke University)

Kenneth H. Coale (Moss Landing Marine Laboratories, MLML)

Contact:

Anna K. Hilting (Duke University)

Analyst:

Anna K. Hilting (Duke University)

Technician:

Jodi Brewster (Moss Landing Marine Laboratories, MLML)

Sara Tanner (Moss Landing Marine Laboratories, MLML)

BCO-DMO Data Manager:

Cynthia L. Chandler (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Project:

Southern Ocean Iron Experiment (SOFeX)

Current State:

Final no updates expected

Version:

6 November 2008

Deployment Synonyms:

SOFeX MV

Coordinated Deployments:

DRFT08RR, PS02_2002

Version Date:

2008-11-06

Data URL:

https://www.bco-dmo.org/dataset-deployment/451582/data

Expand/Collapse All

Description

Fluorometric chlorophyll from Niskin and TM bottle samples

Methods & Sampling

Dataset acquisition description

 dates:           23 January 2002 to 21 February 2002  (20020123-20020221) 
 location:        N: -52.385  S: -66.612  W: -172.693  E: -166.946 
 project/cruise:  SOFeX/MV

08 February 2008: Prepared for OCB data system by Dave DuBois (WHOI) Cyndy Chandler, OCB DMO (WHOI) from documentation contributed by originating PI, data analysts and technicians.

Original Excel file downloaded from MBARI: copy of original Excel file

Contact: Anna Hilting (Duke University Marine Laboratory)

R/V Melville Extracted Chlorophyll Methodology
Please direct questions to Sara Tanner (tanner@mlml.calstate.edu) or Jodi Brewster (jbrewster@mlml.calstate.edu)
Water samples were collected from 12 depths on the CTD Rosette and 8 depths on the TM Rosette. The TM Rosette depths were chosen at the 100, 45, 30, 16, 10, 5, 1, and 0.1 percent light levels (so phytoplankton production can be related to phytoplankton biomass) (Evans et al 1987). The CTD also had 2 more depths scattered between .1 and 100 percent and one each at 200m and 300m. The water from the CTD and TM rosettes was collected using opaque brown bottles in 250, 500, 1000, and 2000 ml or white 100 ml bottles. The differing volumes depended upon the depth of the sample and whether the samples were taken within the patch or not. Sampling from the TM Rosette was done with gloves. Each bottle was rinsed three times with the sample water before filling to the neck of the bottle.

After the minimum 24 hours extraction time, the filter was removed from the tube and the tube was wiped down with Chem Wipes. The fluorescence of the chlorophyll extracts were read on a 10AU Turner Designs fluorometer. Two drops of 10 % HCl was added and the fluorescence was reread and recorded again. The "before" and "after" readings were plugged into equation chl-a = K * (Rb-Ra) * (vol ext/vol filtered)*dil to calculate chlorophyll a values.

A standard made from Sigma Chl-a in 90% acetone was calibrated on a spectrophotometer and used to calibrate the fluorometer at the beginning, mid and end of the cruise. Due to the fact the fluorometer drifted both ± according to the solid standard, and a high correlation was found between the low solid standard and the calibration curve, Chlorophyll-a values were corrected using the ratio of the low solid standard.

PI Notes
from Richard Barber (rbarber@duke.edu) and Anna Hilting (ahilting@duke.edu)

Chlorophyll a was determined by fluorometric methods. Fresh samples were extracted in 90% acetone at -20 degrees C for 24-30 h (Venrick and Hayward, 1984) and quantified using a Turner Designs fluorometer (Holm-Hansen et al., 1965; Lorenzen, 1966). Contact A. Hilting (Duke) for information.

These data have been edited for quality control but will be processed further for size-fraction analysis and integration using the Morel Model. See Barber et al., 1997 and Hiscock et al., 2002. Incubated depth will be calculated using the Morel model and added later.

Profile chlorophyll sampling comments:
The following embedded comments were preserved from the original profile chlorophyll data file, MelvilleChlorophyll.xls:

Station     Cast     Value              Target Bottle   Filter   Comment
M004        CTD013   34.10                0            5         ahilting: was 64.10. 34.10 is the value in the
                                                                 original SOFeX Station Chl-a.xls file.
M004        CTD013   0.355                5           20         ahilting: error = .02*dilution = .14 ug
M004        CTD013   0.455                3           20         ahilting: error = .02*dilution = .14 ug
M006        TM0011   0.52                 4           20         ahilting: max error (.02*dilution = .14 ug)
M006        TM0011   0.52 (2nd entry)     4           20         ahilting: max error (.02*dilution = .14 ug)
M006        TM0011   0.53                 3           20         ahilting: max error (.02*dilution = .14 ug)
M006        TM0011   0.53 (2nd entry)     3           20         ahilting: max error (.02*dilution = .14 ug)
M010        TM0017   0.37                 3            5         was 0.21 switched with 20 um value at 5%
M010        TM0017   0.21                 3           20         ahilting: was 0.37 switched with 5 um value at 5%

Plots of chlorophyll and primary productivity for Revelle and Melville (PDF file created from MS Word .doc original format from Barber and Hilting)

Deployment-specific acquisition description

 dates:           23 January 2002 to 21 February 2002  (20020123-20020221) 
 location:        N: -52.385  S: -66.612  W: -172.693  E: -166.946 
 project/cruise:  SOFeX/MV

08 February 2008: Prepared for OCB data system by Dave DuBois (WHOI) Cyndy Chandler, OCB DMO (WHOI) from documentation contributed by originating PI, data analysts and technicians.

Original Excel file downloaded from MBARI:
copy of original Excel file

Contact: Anna Hilting (Duke University Marine Laboratory)

R/V Melville Extracted Chlorophyll Methodology

Please direct questions to Sara Tanner (tanner@mlml.calstate.edu) or Jodi Brewster (jbrewster@mlml.calstate.edu)

Water samples were collected from 12 depths on the CTD Rosette and 8
depths on the TM Rosette. The TM Rosette depths were chosen at the 100,
45, 30, 16, 10, 5, 1, and 0.1 percent light levels (so phytoplankton
production can be related to phytoplankton biomass) (Evans et al 1987).
The CTD also had 2 more depths scattered between .1 and 100 percent and
one each at 200m and 300m. The water from the CTD and TM rosettes was
collected using opaque brown bottles in 250, 500, 1000, and 2000 ml or
white 100 ml bottles. The differing volumes depended upon the depth of
the sample and whether the samples were taken within the patch or not.
Sampling from the TM Rosette was done with gloves. Each bottle was
rinsed three times with the sample water before filling to the neck of
the bottle.

A Whatman G/FF glass Fiber Filter, (~0.7um) Polycarbonate 5 um filter, or
Polycarbonate 20 micron filter was placed in a 25 mm diameter Gelman filter
holder. Water was pumped through the filter, being careful the vacuum
pressure did not get above 6 psi to avoid cell lyse. After filtration, the
vacuum was turned off and the filter was added with forceps to a tube
filled with 8 ml of 90% acetone. The tube was labeled and stored in a
freezer for a minimum of 24 hours.

After the minimum 24 hours extraction time, the filter was removed from
the tube and the tube was wiped down with Chem Wipes. The fluorescence of
the chlorophyll extracts were read on a 10AU Turner Designs fluorometer.
Two drops of 10 % HCl was added and the fluorescence was reread and
recorded again. The "before" and "after" readings were plugged into
equation chl-a = K * (Rb-Ra) * (vol ext/vol filtered)*dil to calculate
chlorophyll a values.

A standard made from Sigma Chl-a in 90% acetone was calibrated on a
spectrophotometer and used to calibrate the fluorometer at the beginning,
mid and end of the cruise. Due to the fact the fluorometer drifted both ±
according to the solid standard, and a high correlation was found between
the low solid standard and the calibration curve, Chlorophyll-a values were
corrected using the ratio of the low solid standard.

PI Notes

from Richard Barber (rbarber@duke.edu) and Anna Hilting (ahilting@duke.edu)

Chlorophyll a was determined by fluorometric methods.
Fresh samples were extracted in 90% acetone at -20 degrees C for 24-30 h (Venrick and
Hayward, 1984) and quantified using a Turner Designs fluorometer (Holm-Hansen et al.,
1965; Lorenzen, 1966).
Contact A. Hilting (Duke) for information.

These data have been edited for quality control but will be processed further for
size-fraction analysis and integration using the Morel Model. See Barber et al., 1997 and
Hiscock et al., 2002. Incubated depth will be calculated using the Morel model and added later.

Profile chlorophyll sampling comments:

The following embedded comments were preserved from the original profile chlorophyll data file, MelvilleChlorophyll.xls:

Station     Cast     Value              Target Bottle   Filter   Comment
M004        CTD013   34.10                0            5         ahilting: was 64.10. 34.10 is the value in the
                                                                 original SOFeX Station Chl-a.xls file.
M004        CTD013   0.355                5           20         ahilting: error = .02*dilution = .14 ug
M004        CTD013   0.455                3           20         ahilting: error = .02*dilution = .14 ug
M006        TM0011   0.52                 4           20         ahilting: max error (.02*dilution = .14 ug)
M006        TM0011   0.52 (2nd entry)     4           20         ahilting: max error (.02*dilution = .14 ug)
M006        TM0011   0.53                 3           20         ahilting: max error (.02*dilution = .14 ug)
M006        TM0011   0.53 (2nd entry)     3           20         ahilting: max error (.02*dilution = .14 ug)
M010        TM0017   0.37                 3            5         was 0.21 switched with 20 um value at 5%
M010        TM0017   0.21                 3           20         ahilting: was 0.37 switched with 5 um value at 5%

Plots of chlorophyll and primary productivity for Revelle and Melville (PDF file created from MS Word .doc original format from Barber and Hilting)

Data Processing Description

Dataset Processing Description

 Change history: 
    070119: downloaded original data (MelvilleChlorophyll.xls) from SOFeX project data web site;
    080208: data prepared for OCB database by Dave duBois (WHOI, OCB) 
    080813: added to OCB database by Cyndy Chandler, OCB DMO, (cchandler@whoi.edu); 
            no position or depth reported with these data
    081106: cast changed to ev_type to match cruise event log; lat, lon, event and date 
            added from event log; depth is from the SIO_bottle data object

OCB DMO Processing Notes for Profile Chlorophyll

Data file records were sorted by 'Ship Station', then by 'Cast', then by 'Target Bottle'. Some manual sorting was required for TM008 where the 'Sample Bottle' did not track the 'Target Bottle'. Also performed manual sort within 'Ship Station' M004, where TM0010 was listed before TM008 according to sort rules. CTD013 bucket samples were reordered to be listed at the top of that 'Cast' sequence.

SCUFA Underway Chlorophyll Survey Data

SCUFA underway survey data are reported separately.

Deployment-specific processing description

<pre>
Change history:
070119: downloaded original data (MelvilleChlorophyll.xls) from SOFeX project data web site;
080208: data prepared for OCB database by Dave duBois (WHOI, OCB)
080813: added to OCB database by Cyndy Chandler, OCB DMO, (cchandler@whoi.edu);
no position or depth reported with these data
081106: cast changed to ev_type to match cruise event log; lat, lon, event and date
added from event log; depth is from the SIO_bottle data object

</pre>

OCB DMO Processing Notes for Profile Chlorophyll 
 
Data file records were sorted by 'Ship Station', then by 'Cast', then by 'Target Bottle'.
Some manual sorting was required for TM008 where the 'Sample Bottle' did not track the
'Target Bottle'. Also performed manual sort within 'Ship Station' M004, where TM0010 was
listed before TM008 according to sort rules. CTD013 bucket samples were reordered to be
listed at the top of that 'Cast' sequence.

SCUFA Underway Chlorophyll Survey Data 
 
SCUFA underway survey data are reported separately.

More information about this dataset deployment

Instruments

Niskin bottle

Supplied Name: Niskin Bottle

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.

Trace Metal Bottle

Supplied Description:

Instrument Type

Generic Name: Trace Metal Bottle

Acronym: TM Bottle

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/30/

Generic Description:

Trace metal (TM) clean rosette bottle used for collecting trace metal clean seawater samples.

Parameters

Supplied Name	Supplied description	Supplied Units	Standard Name
ship_sta	ship station	alphanumeric	no_bcodmo_term
ev_type	event type; profile cast number	alphanumeric	no_bcodmo_term
event	unique sampling event composite of day of year and time (UTC)	doYhhmm	event
date	date sampling began (UTC)	YYYYMMDD	date
lon	longitude, negative denotes West	decimal degrees	lon
lat	latitude, negative denotes South	decimal degrees	lat
bot_target	target bottle	dimensionless	no_bcodmo_term
bot_samp	sample bottle	text	no_bcodmo_term
depth	depth of sample bottle	meters	depth
filt	filter size	microns	no_bcodmo_term
filt_rig	filter rig	dimensionless	no_bcodmo_term
person	scientist responsible for data from event	dimensionless	investigator
chl_mg_m3	chlorophyll	milligrams per cubic meter	no_bcodmo_term
phaeo_mg_m3	phaeophytin??	milligrams per cubic meter	no_bcodmo_term
f0	initial fluorescence	dimensionless	no_bcodmo_term
fa	fluorescence after acidification	dimensionless	no_bcodmo_term
f0_to_fa	ratio f0 to fa	dimensionless	no_bcodmo_term
cast	CTD cast number	alphanumeric	cast
fluor	fluoresence, from CTD??	V ?? voltage	fluor
temp	temperature, from CTD??	degrees Celsius	temp
sal	salinity, from CTD??	dimensionless	sal
dens	density, from CTD??	kilograms/meter^3	no_bcodmo_term
O2_mM_kg	oxygen, from CTD??	millimoles/kilogram	no_bcodmo_term
trans	transmissivity	percent	trans

Database

Contribute Data

Dataset: chlorophyll_profile
Deployment: COOK19MV

Dataset acquisition description

Deployment-specific acquisition description

Dataset Processing Description

Deployment-specific processing description

Database

Contribute Data

Dataset: chlorophyll_profileDeployment: COOK19MV

Dataset acquisition description

Deployment-specific acquisition description

Dataset Processing Description

Deployment-specific processing description

Dataset: chlorophyll_profile
Deployment: COOK19MV