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Metadata Report for BODC Series Reference Number 1872871


Metadata Summary

Data Description

Data Category Water sample data
Instrument Type
NameCategories
Niskin bottle  discrete water samplers
Instrument Mounting lowered unmanned submersible
Originating Country United Kingdom
Originator Dr Stuart Gibb
Originating Organization Plymouth Marine Laboratory
Processing Status banked
Online delivery of data Download available - Ocean Data View (ODV) format
Project(s) Atlantic Meridional Transect (AMT)
 

Data Identifiers

Originator's Identifier AMT4_CTD_PIGX_71:CTDP020
BODC Series Reference 1872871
 

Time Co-ordinates(UT)

Start Time (yyyy-mm-dd hh:mm) 1997-05-05 12:41
End Time (yyyy-mm-dd hh:mm) -
Nominal Cycle Interval -
 

Spatial Co-ordinates

Latitude 18.27228 S ( 18° 16.3' S )
Longitude 34.76455 W ( 34° 45.9' W )
Positional Uncertainty 0.05 to 0.1 n.miles
Minimum Sensor or Sampling Depth 7.3 m
Maximum Sensor or Sampling Depth 7.3 m
Minimum Sensor or Sampling Height 4178.9 m
Maximum Sensor or Sampling Height 4178.9 m
Sea Floor Depth 4186.2 m
Sea Floor Depth Source PEVENT
Sensor or Sampling Distribution Unspecified -
Sensor or Sampling Depth Datum Unspecified -
Sea Floor Depth Datum Instantaneous - Depth measured below water line or instantaneous water body surface
 

Parameters

BODC CODERankUnitsTitle
ADEPZZ011MetresDepth (spatial coordinate) relative to water surface in the water body
ALLOHPP11Nanograms per litreConcentration of alloxanthin {CAS 28380-31-6} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
BBCAHPP11Nanograms per litreConcentration of beta,beta-carotene {beta-carotene CAS 7235-40-7} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
BECAHPP11Nanograms per litreConcentration of beta,epsilon-carotene {alpha-carotene CAS 432-70-2} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
BOTTFLAG1Not applicableSampling process quality flag (BODC C22)
BUTAHPP11Nanograms per litreConcentration of 19'-butanoyloxyfucoxanthin {But-fuco(BF) CAS 111234-30-1} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
C1C2HPP11Nanograms per litreConcentration of chlorophyll-c1+c2 per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
CHLBHPP11Nanograms per litreConcentration of chlorophyll-b {chl-b CAS 519-62-0} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
CLC3HPP11Nanograms per litreConcentration of chlorophyll-c3 {chl-c3} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
CPHLFLP11Milligrams per cubic metreConcentration of chlorophyll-a {chl-a CAS 479-61-8} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and fluorometry
DIADHPP11Nanograms per litreConcentration of diadinoxanthin {CAS 18457-54-0} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
DIATHPP11Nanograms per litreConcentration of diatoxanthin {CAS 31063-73-7} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
DVCAHPP11Nanograms per litreConcentration of divinyl chlorophyll-a {DVchl-a} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
FUCXHPP11Nanograms per litreConcentration of fucoxanthin {CAS 3351-86-8} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
HEXOHPP11Nanograms per litreConcentration of 19'-hexanoyloxyfucoxanthin {CAS 60147-85-5} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
LUTNHPP11Nanograms per litreConcentration of lutein {CAS 127-40-2} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
MDCAHPP11Nanograms per litreConcentration of chlorophyll-a+divinyl chlorophyll-a {chl-a+DVchl-a} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
MVACHPP11Nanograms per litreConcentration of monovinyl chlorophyll-a per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
PBZZHPP11Nanograms per litreConcentration of phaeophorbide per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
PERIHPP11Nanograms per litreConcentration of peridinin {CAS 33281-81-1} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
PRFUHPP11Nanograms per litreConcentration of prasinoxanthin/fucoxanthin isomer per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
PTZZHPP11Nanograms per litreConcentration of phaeophytin {pheophytin} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
SAMPRFNM1DimensionlessSample reference number
VILXHPP11Nanograms per litreConcentration of violaxanthin {CAS 126-29-4} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
ZEOXHPP11Nanograms per litreConcentration of zeaxanthin {CAS 144-68-3} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)

Definition of BOTTFLAG

BOTTFLAGDefinition
0The sampling event occurred without any incident being reported to BODC.
1The filter in an in-situ sampling pump physically ruptured during sample resulting in an unquantifiable loss of sampled material.
2Analytical evidence (e.g. surface water salinity measured on a sample collected at depth) indicates that the water sample has been contaminated by water from depths other than the depths of sampling.
3The feedback indicator on the deck unit reported that the bottle closure command had failed. General Oceanics deck units used on NERC vessels in the 80s and 90s were renowned for reporting misfires when the bottle had been closed. This flag is also suitable for when a trigger command is mistakenly sent to a bottle that has previously been fired.
4During the sampling deployment the bottle was fired in an order other than incrementing rosette position. Indicative of the potential for errors in the assignment of bottle firing depth, especially with General Oceanics rosettes.
5Water was reported to be escaping from the bottle as the rosette was being recovered.
6The bottle seals were observed to be incorrectly seated and the bottle was only part full of water on recovery.
7Either the bottle was found to contain no sample on recovery or there was no bottle fitted to the rosette position fired (but SBE35 record may exist).
8There is reason to doubt the accuracy of the sampling depth associated with the sample.
9The bottle air vent had not been closed prior to deployment giving rise to a risk of sample contamination through leakage.

Definition of Rank

  • Rank 1 is a one-dimensional parameter
  • Rank 2 is a two-dimensional parameter
  • Rank 0 is a one-dimensional parameter describing the second dimension of a two-dimensional parameter (e.g. bin depths for moored ADCP data)

Problem Reports

No Problem Report Found in the Database


Data Access Policy

Open Data

These data have no specific confidentiality restrictions for users. However, users must acknowledge data sources as it is not ethical to publish data without proper attribution. Any publication or other output resulting from usage of the data should include an acknowledgment.

If the Information Provider does not provide a specific attribution statement, or if you are using Information from several Information Providers and multiple attributions are not practical in your product or application, you may consider using the following:

"Contains public sector information licensed under the Open Government Licence v1.0."


Narrative Documents

Niskin Bottle

The Niskin bottle is a device used by oceanographers to collect subsurface seawater samples. It is a plastic bottle with caps and rubber seals at each end and is deployed with the caps held open, allowing free-flushing of the bottle as it moves through the water column.

Standard Niskin

The standard version of the bottle includes a plastic-coated metal spring or elastic cord running through the interior of the bottle that joins the two caps, and the caps are held open against the spring by plastic lanyards. When the bottle reaches the desired depth the lanyards are released by a pressure-actuated switch, command signal or messenger weight and the caps are forced shut and sealed, trapping the seawater sample.

Lever Action Niskin

The Lever Action Niskin Bottle differs from the standard version, in that the caps are held open during deployment by externally mounted stainless steel springs rather than an internal spring or cord. Lever Action Niskins are recommended for applications where a completely clear sample chamber is critical or for use in deep cold water.

Clean Sampling

A modified version of the standard Niskin bottle has been developed for clean sampling. This is teflon-coated and uses a latex cord to close the caps rather than a metal spring. The clean version of the Levered Action Niskin bottle is also teflon-coated and uses epoxy covered springs in place of the stainless steel springs. These bottles are specifically designed to minimise metal contamination when sampling trace metals.

Deployment

Bottles may be deployed singly clamped to a wire or in groups of up to 48 on a rosette. Standard bottles and Lever Action bottles have a capacity between 1.7 and 30 L. Reversing thermometers may be attached to a spring-loaded disk that rotates through 180° on bottle closure.

AMT4 High Performance Liquid Chromatography pigment samples from CTD bottles

Originator's Protocol for Data Acquisition and Analysis

This data originates from samples collected during the AMT4 cruise from CTD bottles. Water samples were collected from 2 different depths, surface and approximately at 7 m, and 4 litres were used to obtain pigment concentration data.

After collection, the samples were filtered through GF/F filters and frozen in liquid nitrogen for subsequent analysis in the laboratory. The analysis procedures included acetone extraction and reverse phase High Performance Liquid Chromatography (HPLC).

Instrumentation Description

Not relevant to this dataset.

BODC Data Processing Procedures

Data were submitted to BODC in a spreadsheet format. The samples were provided with the following metadata information, cruise, sample id, depth, vol filtered and HPLC record #. Sample metadata was cross-checked with information on the Cruise Report and loaded accordingly. No discrepancies were found.

Parameter codes defined in BODC parameter dictionary were assigned to the originator's variables. Data was loaded into BODC's database using established BODC data banking procedures. Chlorophyll-a data in the file was from fluorometry using a Truner Designs 700 fluorometer not from HPLC analysis. A unit conversion was applied to all parameters to change from micrograms per litre to nanograms per litre, except chlorophyll-a as the data were supplied in micrograms per litre which are equivalent to milligrams per cubic metre.

A parameter mapping table is provided below;

Originator's Parameter Units Description BODC Parameter Code Units Comments
c3 µg l-1 Concentration of chlorophyll-c3 {chl-c3} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) CLC3HPP1 ng l-1 conversion by x1000
c1+c2 µg l-1 Concentration of chlorophyll-c1c2 {chl-c1c2} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) C1C2HPP1 ng l-1 conversion by x1000
peridinin µg l-1 Concentration of peridinin per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) PERIHPP1 ng l-1 conversion by x1000
19 but µg l-1 Concentration of 19'-butanoyloxyfucoxanthin per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) BUTAHPP1 ng l-1 conversion by x1000
fuco µg l-1 Concentration of fucoxanthin per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) FUCXHPP1 ng l-1 conversion by x1000
19 hex µg l-1 Concentration of 19'-hexanoyloxyfucoxanthin per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) HEXOHPP1 ng l-1 conversion by x1000
pras/fuc iso µg l-1 Concentration of prasinoxanthin/fucoxanthin isomer per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) PRFUHPP1 ng l-1 conversion by x1000
viola µg l-1 Concentration of violaxanthin per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) VILXHPP1 ng l-1 conversion by x1000
diadino µg l-1 Concentration of diadinoxanthin per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) DIADHPP1 ng l-1 conversion by x1000
allo µg l-1 Concentration of alloxanthin per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) ALLOHPP1 ng l-1 conversion by x1000
diato µg l-1 Concentration of diatoxanthin per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) DIATHPP1 ng l-1 conversion by x1000
lutein µg l-1 Concentration of lutein per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) LUTNHPP1 ng l-1 conversion by x1000
zea µg l-1 Concentration of zeaxanthin per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) ZEOXHPP1 ng l-1 conversion by x1000
Chl b µg l-1 Concentration of chlorophyll-b {chl-b} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) CHLBHPP1 ng l-1 conversion by x1000
alpha car µg l-1 Concentration of beta,epsilon-carotene per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) BECAHPP1 ng l-1 conversion by x1000
beta car µg l-1 Concentration of beta,beta-carotene per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) BBCAHPP1 ng l-1 conversion by x1000
mva and dva µg l-1 Concentration of monovinyl plus divinyl chlorophyll-a per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) MDCAHPP1 ng l-1 conversion by x1000
MVA µg l-1 Concentration of monovinyl chlorophyll-a per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) MVACHPP1 ng l-1 conversion by x1000
DVA µg l-1 Concentration of divinyl chlorophyll-a per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) DVCAHPP1 ng l-1 conversion by x1000
Chl a µg l-1 Concentration of chlorophyll-a {chl-a} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and fluorometry CPHLFLP1 mg m-3 -
pb µg l-1 Concentration of phaeophorbide per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) PBZZHPP1 ng l-1 conversion by x1000
phaeo µg l-1 Concentration of phaeophytin per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) PTZZHPP1 ng l-1 conversion by x1000

Data Quality Report

Not relevant to this data set.

Problem Report

Not relevant to this data set.


Project Information

The Atlantic Meridional Transect (AMT) - Phase 1 (1995-2000)

Who was involved in the project?

The Atlantic Meridional Transect (AMT) programme was designed by and implemented as a collaboration between Plymouth Marine Laboratory (PML) and Southampton Oceanography Centre (SOC). The programme was hosted by Plymouth Marine Laboratory and involved additional researchers from UK and international universities throughout its duration.

What was the project about?

When AMT began in 1995 the programme provided a platform for international scientific collaboration, including the calibration and validation of SeaWiFs measurements and products. The programme provided an exceptional opportunity for nationally and internationally driven collaborative research and provided a platform for excellent multi-disciplinary oceanographic research. As an in situ observation system, the data collected by the AMT consortium informed on changes in biodiversity and function of the Atlantic ecosystem during this period of rapid change to our climate and biosphere.

The scientific aims were to assess:

  • mesoscale to basin scale phytoplankton processes
  • the functional interpretation of bio-optical signatures
  • the seasonal, regional and latitudinal variations in mesozooplankton dynamics

When was the project active?

The first phase of the AMT programme ran from 1995 to 2000 and consisted of a total of 12 cruises. A second phase of funding allowed the project to continue for the period 2002 to 2006 with a further 6 cruises.

Brief summary of the project fieldwork/data

The AMT programme undertook biological, chemical and physical oceanographic research during the annual return passage of the RRS James Clark Ross between the UK and the Falkland Islands or the RRS Discovery between the UK and Cape Town, a distance of up to 13,500 km. This transect crossed a range of ecosystems from sub-polar to tropical and from euphotic shelf seas and upwelling systems to oligotrophic mid-ocean gyres. The transect route was covered north-south in September/October and south-north in April/May of each year.

The measurements of hydrographic and bio-optical properties, plankton community structure and primary production completed on the first 12 transects (1995-2000) represent the most coherent set of repeated biogeochemical observations over ocean basin scales. This unique dataset has led to several important discoveries concerning the identification of oceanic provinces, validation of ocean colour algorithms, distributions of picoplankton, identifying new regional sinks of pCO2 and variability in rates of primary production and respiration.

Who funded the project?

The programme was funded by the Natural Environment Research Council (NERC) and further support was received from the National Aeronautics and Space Administration (NASA) with equipment and funding from the Sea-viewing Wild Field-of-view Sensor (SeaWiFS) project.


Data Activity or Cruise Information

Data Activity

Start Date (yyyy-mm-dd) 1997-05-05
End Date (yyyy-mm-dd) 1997-05-05
Organization Undertaking ActivityPlymouth Marine Laboratory
Country of OrganizationUnited Kingdom
Originator's Data Activity IdentifierAMT4_CTD_CTDP020
Platform Categorylowered unmanned submersible

BODC Sample Metadata Report for AMT4_CTD_CTDP020

Sample reference number Nominal collection volume(l) Bottle rosette position Bottle firing sequence number Minimum pressure sampled (dbar) Maximum pressure sampled (dbar) Depth of sampling point (m) Bottle type Sample quality flag Bottle reference Comments
502899   10.00        9.30   10.70    7.30 Niskin bottle No problem reported    
502900   10.00       22.30   23.80   20.30 Niskin bottle No problem reported    
502901   10.00       41.80   43.10   39.60 Niskin bottle No problem reported    
502902   10.00       62.60   63.90   60.20 Niskin bottle No problem reported    
502903   10.00       82.10   83.20   79.50 Niskin bottle No problem reported    
502904   10.00       91.80   92.80   89.10 Niskin bottle No problem reported    
502905   10.00      101.90  103.20   99.30 Niskin bottle No problem reported    
502906   10.00      111.50  112.90  108.90 Niskin bottle No problem reported    
502907   10.00      132.00  133.10  129.10 Niskin bottle No problem reported    
502908   10.00      151.90  153.20  148.90 Niskin bottle No problem reported    
502909   10.00      176.50  177.70  173.30 Niskin bottle No problem reported    
502910   10.00      200.50  201.80  197.20 Niskin bottle No problem reported    

Please note:the supplied parameters may not have been sampled from all the bottle firings described in the table above. Cross-match the Sample Reference Number above against the SAMPRFNM value in the data file to identify the relevant metadata.

Related Data Activity activities are detailed in Appendix 1

Cruise

Cruise Name JR19970421 (AMT4, JR21)
Departure Date 1997-04-21
Arrival Date 1997-05-27
Principal Scientist(s)Tony Bale (Plymouth Marine Laboratory)
Ship RRS James Clark Ross

Complete Cruise Metadata Report is available here


Fixed Station Information


No Fixed Station Information held for the Series


BODC Quality Control Flags

The following single character qualifying flags may be associated with one or more individual parameters with a data cycle:

Flag Description
Blank Unqualified
< Below detection limit
> In excess of quoted value
A Taxonomic flag for affinis (aff.)
B Beginning of CTD Down/Up Cast
C Taxonomic flag for confer (cf.)
D Thermometric depth
E End of CTD Down/Up Cast
G Non-taxonomic biological characteristic uncertainty
H Extrapolated value
I Taxonomic flag for single species (sp.)
K Improbable value - unknown quality control source
L Improbable value - originator's quality control
M Improbable value - BODC quality control
N Null value
O Improbable value - user quality control
P Trace/calm
Q Indeterminate
R Replacement value
S Estimated value
T Interpolated value
U Uncalibrated
W Control value
X Excessive difference

SeaDataNet Quality Control Flags

The following single character qualifying flags may be associated with one or more individual parameters with a data cycle:

Flag Description
0 no quality control
1 good value
2 probably good value
3 probably bad value
4 bad value
5 changed value
6 value below detection
7 value in excess
8 interpolated value
9 missing value
A value phenomenon uncertain
B nominal value
Q value below limit of quantification

Appendix 1: AMT4_CTD_CTDP020

Related series for this Data Activity are presented in the table below. Further information can be found by following the appropriate links.

If you are interested in these series, please be aware we offer a multiple file download service. Should your credentials be insufficient for automatic download, the service also offers a referral to our Enquiries Officer who may be able to negotiate access.

Series IdentifierData CategoryStart date/timeStart positionCruise
1094102Water sample data1997-05-05 12:41:0018.27228 S, 34.76455 WRRS James Clark Ross JR19970421 (AMT4, JR21)
1632412Water sample data1997-05-05 12:41:0018.27228 S, 34.76455 WRRS James Clark Ross JR19970421 (AMT4, JR21)
1870772Water sample data1997-05-05 12:41:0018.27228 S, 34.76455 WRRS James Clark Ross JR19970421 (AMT4, JR21)