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Metadata Report for BODC Series Reference Number 1887661


Metadata Summary

Data Description

Data Category Water sample data
Instrument Type
NameCategories
Lever Action Niskin Bottle  discrete water samplers
Instrument Mounting lowered unmanned submersible
Originating Country United Kingdom
Originator Dr Alex Poulton
Originating Organization Southampton Oceanography Centre (now National Oceanography Centre, Southampton)
Processing Status banked
Online delivery of data Download available - Ocean Data View (ODV) format
Project(s) Atlantic Meridional Transect Phase2(AMT)
 

Data Identifiers

Originator's Identifier AMT12_CTD_PIGX_215:AMT12_24
BODC Series Reference 1887661
 

Time Co-ordinates(UT)

Start Time (yyyy-mm-dd hh:mm) 2003-05-24 14:17
End Time (yyyy-mm-dd hh:mm) -
Nominal Cycle Interval -
 

Spatial Co-ordinates

Latitude 20.49443 S ( 20° 29.7' S )
Longitude 24.99304 W ( 24° 59.6' W )
Positional Uncertainty 0.05 to 0.1 n.miles
Minimum Sensor or Sampling Depth 13.2 m
Maximum Sensor or Sampling Depth 122.5 m
Minimum Sensor or Sampling Height 5298.1 m
Maximum Sensor or Sampling Height 5407.4 m
Sea Floor Depth 5420.6 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)
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)
CBDVHPP11Nanograms per litreConcentration of chlorophyll-b+divinyl chlorophyll-b {chl-b+DVchl-b} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
CLC2HPP11Nanograms per litreConcentration of chlorophyll-c2 {chl-c2} 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
CPHLHPP11Milligrams 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 high performance liquid chromatography (HPLC)
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)
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)
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)
PRSXHPP11Nanograms per litreConcentration of prasinoxanthin {CAS 94705-97-2} 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.

AMT12 extracted chlorophyll-a measured fluormetrically from CTD bottle samples

Data Acquisition and Analysis

This data originates from analyses on samples collected from CTD rosette bottles for 56 CTD casts.

Water samples from the 5-6 main light depths were collected from CTD bottles and were filtered on 25 mm GFF filters. Filters were extracted in 90% acetone for 24 hrs and total chlorophyll-a measured with a TD-700 Turner Designs fluorometer following the procedure of Welschmeyer (1994) which minimises interference by chlorophyll-b. The fluorometer was calibrated with dilutions of a solution of pure chlorophyll-a (Sigma, UK) in 90% acetone, the concentration of which was determined spectrophotometrically after the cruise.

References Cited

Welschmeyer N.A., 1994. Fluorometric analysis of chlorophyll-a in the presence of chlorophyll-b and phaeopigments. Limnology and Oceanography, 39, 1985-1992.

Instrumentation Description

Not relevant to this dataset.

BODC Data Processing Procedures

Data were submitted to BODC in an Excel spreadsheet and were accessioned under BODC archive SOC040010. Sample metadata provided (CTD cast, date, time, lat/lon and depth) were checked against information held in the database. There were no discrepancies noted.

Parameter codes defined in BODC parameter dictionary were assigned to the variable. The units supplied in the spreadsheet were mg m-3, which match the Parameter Dictionary units so no unit conversions were necessary.

Data loaded into BODC's database without any changes applied.

A parameter mapping table is provided below;

Originator's Parameter Units Description BODC Parameter Code Units Comments
Chl-a mg m-3 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 n/a

Data Quality Report

There was no indication that the dataset had been checked by the data origniator prior to submission to BODC.

Problem Report

Not relevant to this dataset.

AMT12 pigment composition by HPLC analysis from CTD bottle samples

Data Acquisition and Analysis

Fresh seawater samples from upto five light depths were collected from 60 casts during the cruise. The main sampling was conducted on the pre-dawn cast each day with a reduced set of samples from the midday cast. Despite regular contact with technical staff in the UK, persistent problems with the Thermofinigan HPLC system (comms problem with integrator, mysterious autosampler error message) resulted in no samples being analysed during the cruise. All samples and replicates were stored at -80 °C and were returned to SOC in liquid-N for analysis within 8 weeks.

HPLC analysis was carried out according to Barlow et al. (1997).

References Cited

Barlow R.G., Cummings D.G. and Gibb S.W., 1997. Improved resolution of mono- and divinyl chlorophylls a and b and zeaxanthin and lutein in phytoplankton extracts using reverse phase C8 HPLC. Marine Ecology Progress Series, 161 , 303-307.

Instrumentation Description

Section not relevant.

BODC Data Processing Procedures

Data were submitted to BODC in Microsoft Excel spreadsheet format and saved to the archive with reference SOC040045. The file was provided to BODC with cruise, station number, date, lat, lon, water depth and bottle depth as metadata.

Sample metadata were checked against information held in the database - there was one discrepancy. The file provided a sample from cast 48 at depth 8.1m, however there was no bottle sampled at this depth for this cast. There was a sample depth of 8.1m for cast 49 and it appears there was a typing error as the data falls after the deepest sample for cast 48 and the before the next shallowest sample for cast 49. This data has been entered against cast 49 depth 8.1m.

BODC were advised that the parameter 'Tchl b' refers to DivChlb + Chlb. Additional columns 'TChla', '%DvChla' and 'Zea/Hex' were not loaded as they are derived values and the parameter 'FlChl' was already provided to BODC and loaded to the database as the fluorometeric chlorophyll-a dataset.

Parameter codes defined in BODC parameter dictionary were assigned to the variables as shown in the table below. The data were provided in mg m-3 units that were converted to ng l-1 for all parameters but chlorophyll-a.

Data loaded into BODC's database without any changes.

Originator's Parameter Units Description BODC Parameter Code Units Comments
Chlc3 mg m-3 Concentration of chlorophyll-c3 {chl-c3} per unit volume of the water column [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) CLC3HPP1 ng l-1 Unit conversion x1000 applied
Chlc2 mg m-3 Concentration of chlorophyll-c2 {chl-c2} per unit volume of the water column [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) CLC2HPP1 ng l-1 Unit conversion x1000 applied
Perid mg m-3 Concentration of peridinin per unit volume of the water column [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) PERIHPP1 ng l-1 Unit conversion x1000 applied
19'But mg m-3 Concentration of 19'-butanoyloxyfucoxanthin per unit volume of the water column [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) BUTAHPP1 ng l-1 Unit conversion x1000 applied
Fuco mg m-3 Concentration of fucoxanthin per unit volume of the water column [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) FUCXHPP1 ng l-1 Unit conversion x1000 applied
19'Hex mg m-3 Concentration of 19'-hexanoyloxyfucoxanthin per unit volume of the water column [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) HEXOHPP1 ng l-1 Unit conversion x1000 applied
Pras mg m-3 Concentration of prasinoxanthin per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) PRSXHPP1 ng l-1 Unit conversion x1000 applied
Viol mg m-3 Concentration of violaxanthin per unit volume of the water column [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) VILXHPP1 ng l-1 Unit conversion x1000 applied
Diadino mg m-3 Concentration of diadinoxanthin per unit volume of the water column [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) DIADHPP1 ng l-1 Unit conversion x1000 applied
Allo mg m-3 Concentration of alloxanthin per unit volume of the water column [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) ALLOHPP1 ng l-1 Unit conversion x1000 applied
Zea mg m-3 Concentration of zeaxanthin per unit volume of the water column [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) ZEOXHPP1 ng l-1 Unit conversion x1000 applied
TChl b mg m-3 Concentration of chlorophyll-b+divinyl chlorophyll-b per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) CBDVHPP1 ng l-1 Unit conversion x1000 applied
DvChla mg m-3 Concentration of divinyl chlorophyll-a per unit volume of the water column [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) DVCAHPP1 ng l-1 Unit conversion x1000 applied
Chla mg m-3 Concentration of chlorophyll-a {chl-a} per unit volume of the water column [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) CPHLHPP1 mg m-3 n/a
BCar mg m-3 Concentration of beta-carotene {beta,beta-carotene} per unit volume of the water column [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC) BCARHPP1 ng l-1 Unit conversion x1000 applied

Data Quality Report

The data originator indicated all data appear to be good.

Problem Report

This section is not relevant to this data set.


Project Information

The Atlantic Meridional Transect - Phase 2 (2002-2006)

Who was involved in the project?

The Atlantic Meridional Transect Phase 2 was designed by and implemented by a number of UK research centres and universities. The programme was hosted by Plymouth Marine Laboratory in collaboration with the National Oceanography Centre, Southampton. The universities involved were:

  • University of Liverpool
  • University of Newcastle
  • University of Plymouth
  • University of Southampton
  • University of East Anglia

What was the project about?

AMT began in 1995, with scientific aims to assess mesoscale to basin scale phytoplankton processes, the functional interpretation of bio-optical signatures and the seasonal, regional and latitudinal variations in mesozooplankton dynamics. In 2002, when the programme restarted, the scientific aims were broadened to address a suite of cross-disciplinary questions concerning ocean plankton ecology and biogeochemistry and the links to atmospheric processes.

The objectives included the determination of:

  • how the structure, functional properties and trophic status of the major planktonic ecosystems vary in space and time
  • how physical processes control the rates of nutrient supply to the planktonic ecosystem
  • how atmosphere-ocean exchange and photo-degradation influence the formation and fate of organic matter

The data were collected with the aim of being distributed for use in the development of models to describe the interactions between the global climate system and ocean biogeochemistry.

When was the project active?

The second phase of funding allowed the project to continue for the period 2002 to 2006 and consisted of six research cruises. The first phase of the AMT programme ran from 1995 to 2000.

Brief summary of the project fieldwork/data

The fieldwork on the first three cruises was carried out along transects from the UK to the Falkland Islands in September and from the Falkland Islands to the UK in April. The last three cruises followed a cruise track between the UK and South Africa, only deviating from the traditional transect in the southern hemisphere. During this phase the research cruises sampled further into the centre of the North and South Atlantic Ocean and also along the north-west coast of Africa where upwelled nutrient rich water is known to provide a significant source of climatically important gases.

Who funded the project?

Natural Environment Research Council (NERC)


Data Activity or Cruise Information

Data Activity

Start Date (yyyy-mm-dd) 2003-05-24
End Date (yyyy-mm-dd) 2003-05-24
Organization Undertaking ActivityPlymouth Marine Laboratory
Country of OrganizationUnited Kingdom
Originator's Data Activity IdentifierAMT12_CTD_AMT12_24
Platform Categorylowered unmanned submersible

BODC Sample Metadata Report for AMT12_CTD_AMT12_24

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
507000 10.0     2951.60 2951.90 2912.50 Lever Action Niskin Bottle No problem reported    
507093 10.0         13.90     14.10     13.20 Lever Action Niskin Bottle No problem reported    
507094 10.0         53.50     53.80     52.60 Lever Action Niskin Bottle No problem reported    
507095 10.0       123.90   124.20   122.50 Lever Action Niskin Bottle No problem reported    
507096 10.0       203.80   204.40   202.00 Lever Action Niskin Bottle No problem reported    
507097 10.0       255.30   256.00   253.20 Lever Action Niskin Bottle No problem reported    
507098 10.0       304.30   305.90   302.20 Lever Action Niskin Bottle No problem reported    
507099 10.0       406.00   406.40   402.60 Lever Action Niskin Bottle No problem reported    
507100 10.0       709.10   709.50   703.00 Lever Action Niskin Bottle No problem reported    
507101 10.0       911.30   911.50   903.10 Lever Action Niskin Bottle No problem reported    
507102 10.0     1114.80 1115.20 1104.40 Lever Action Niskin Bottle No problem reported    
507104 10.0     1521.10 1521.90 1505.90 Lever Action Niskin Bottle No problem reported    
507105 10.0     1725.00 1725.70 1707.00 Lever Action Niskin Bottle No problem reported    
507106 10.0     1929.10 1929.30 1907.80 Lever Action Niskin Bottle No problem reported    
507107 10.0     2133.10 2133.70 2108.80 Lever Action Niskin Bottle No problem reported    
507108 10.0     2543.10 2543.60 2511.80 Lever Action Niskin Bottle No problem reported    
507109 10.0     2746.80 2747.50 2711.80 Lever Action Niskin Bottle No problem reported    
507110 10.0     3157.20 3158.10 3114.20 Lever Action Niskin Bottle No problem reported    
507111 10.0     3362.20 3362.60 3314.60 Lever Action Niskin Bottle No problem reported    
507566 10.0       153.50   153.80   151.90 Lever Action Niskin Bottle No problem reported    
507567 10.0       507.80   508.20   503.50 Lever Action Niskin Bottle No problem reported    
507568 10.0     1317.80 1319.20 1305.50 Lever Action Niskin Bottle No problem reported    
507569 10.0     2338.10 2338.80 2310.50 Lever Action Niskin Bottle No problem reported    
507570 10.0     3568.60 3569.00 3516.50 Lever Action 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 JR20030512 (AMT12, JR102, JR88, JR90)
Departure Date 2003-05-12
Arrival Date 2003-06-17
Principal Scientist(s)Tim Jickells (University of East Anglia School of Environmental Sciences)
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: AMT12_CTD_AMT12_24

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
1124720Water sample data2003-05-24 14:17:0020.49443 S, 24.99304 WRRS James Clark Ross JR20030512 (AMT12, JR102, JR88, JR90)
1787402Water sample data2003-05-24 14:17:0020.49443 S, 24.99304 WRRS James Clark Ross JR20030512 (AMT12, JR102, JR88, JR90)