Metadata Report for BODC Series Reference Number 1655423


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 Miss Denise Cummings
Originating Organization Plymouth Marine Laboratory
Processing Status banked
Online delivery of data Download available - Ocean Data View (ODV) format
Project(s) -
 

Data Identifiers

Originator's Identifier CD132_CTD_PIGX_204:CD132_061
BODC Series Reference 1655423
 

Time Co-ordinates(UT)

Start Time (yyyy-mm-dd hh:mm) 2001-09-26 08:28
End Time (yyyy-mm-dd hh:mm) -
Nominal Cycle Interval -
 

Spatial Co-ordinates

Latitude 26.00157 N ( 26° 0.1' N )
Longitude 56.58225 E ( 56° 34.9' E )
Positional Uncertainty Unspecified
Minimum Sensor or Sampling Depth 0.7 m
Maximum Sensor or Sampling Depth 91.3 m
Minimum Sensor or Sampling Height 4.7 m
Maximum Sensor or Sampling Height 95.3 m
Sea Floor Depth 96.0 m
Sea Floor Depth Source -
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 below surface of 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)
BOTTFLAG1DimensionlessSampling process quality flag (BODC C22)
BUTAHPP11Nanograms per litreConcentration of 19'-butanoyloxyfucoxanthin 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-c1c2 {chl-c1c2} 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)
CIDAHPP11Nanograms per litreConcentration of chlorophyllide-a {CAS 14897-06-4} 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)
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)
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 per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and high performance liquid chromatography (HPLC)
DVCBHPP11Nanograms per litreConcentration of divinyl chlorophyll-b 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)
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)
PERLHPP11Nanograms per litreConcentration of peridinin-like pigment 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 supplied by Natural Environment Research Council (NERC)

You must always use the following attribution statement to acknowledge the source of the information: "Contains data supplied by Natural Environment Research Council."


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 have a capacity between 1.7 and 30 L, while Lever Action bottles have a capacity between 1.7 and 12 L. Reversing thermometers may be attached to a spring-loaded disk that rotates through 180° on bottle closure.

Phytoplankton pigment concentration data series for cruise RRS Charles Darwin CD132

Content of Data Series

Parameter Unit Parameter Code Number of samples Comments
Chlorophyll a (chla) µg l-1 CPHLHPP1 302 None
Divinyl chlorophyll a (dv chla) ng l-1 DVCAHPP1 302 None
Chlorophyll b (chlb) ng l-1 CHLBHPP1 302 None
Divinyl chlorophyll b (dv chlb) ng l-1 DVCBHPP1 302 None
Chlorophyll c1c2 (chlc1c2) ng l-1 C1C2HPP1 302 None
Chlorophyll c3 (chlc3) ng l-1 CLC3HPP1 302 None
Chlorophyllide (chlide) ng l-1 CIDAHPP1 302 None
Alloxanthin (allo) ng l-1 ALLOHPP1 302 None
19'-Butanoyloxyfucoxanthin (but) ng l-1 BUTAHPP1 302 None
Beta caroten (b car) ng l-1 BCARHPP1 302 None
Diadinoxanthin (diadino) ng l-1 DIADHPP1 302 None
Diatoxanthine (diato) ng l-1 DIATHPP1 302 None
Fucoxanthin (fuc) ng l-1 FUCXHPP1 302 None
19'-Hexanoyloxyfucoxanthin (hex) ng l-1 HEXOHPP1 302 None
Lutein (lut) ng l-1 LUTNHPP1 302 None
Peridinin (per) ng l-1 PERIHPP1 302 None
Peridin-like pigment (per-like) ng l-1 PERLHPP1 80 None
Violaxanthine (viola) ng l-1 VILXHPP1 302 None
Zeaxanthin (zea) ng l-1 ZEOXHPP1 302 None

Originator's Protocol for Data Acquisition and Analysis

The following methodology was compiled from information extracted from the CD132 cruise report (Burkill 2002).

Samples were obtained onboard by vacuum filtering of CTD-collected seawater through 25mm GF/F filters. Pigments were extracted from the filters using 90% acetone with apo-carotenal as an internal standard. Pigment extracts were analysed by reverse-phase HPLC using a Shandon Hypersil MOS-2 C8 column (100 x 4.6mm, 3micron), Thermoseparations UV6000 photodiode array detector (300-700nm) and a binary mobile phase (70:30% methanol:1M ammonium acetate and 100% methanol). Pigment identities were secured through co-elution with authentic pigment standards (VKI, Denmark and Sigma Chemical Co). Not all samples were analysed onboard as the HPLC broke down around 200 miles off Oman (station 8). From station 8 onwards, the filters were preserved in liquid nitrogen and analysed back at the laboratory.

References

Burkill PH (2002). RRS Charles Darwin cruise 132. Analysing the Microbial Biodiversity of the Indian Ocean - AMBITION. 30 Aug-29 Sep 2001. Marine and Freshwater Microbial Biodiversity Cruise Report No.1, 56pp.

BODC Data Processing Procedures

Data were submitted to BODC in an Excel spreadsheet. Sample metadata were checked against information held in the database. Discrepancies were crosschecked with the data originator prior to correction. Parameter codes defined in BODC's parameter dictionary were assigned to the variables. In order to standardise parameter units with that held in BODC's parameter dictionary, chlorophyll a concentration was converted from ng l-1 to µg l-1 by dividing the original value by 1000. The data were then loaded into the BODC Research Project Database under the Oracle Relational Database Management System without further modification.

Data Quality Report

Although the quality of the data is not affected by what follows, users should be aware that:

1) the 50m bottle from cast CD132_001 was reported as leaking by the CTD operator and has therefore been flagged 'L' in the database. However, associated data do not appear to have been affected.

2) For cast CD132_034, the unintentional firing of an extra bottle at 153m was not reported in the CTD log sheet resulting in a mismatch in the attribution of bottle depth to samples collected above 200m. Samples have been re-attributed to their correct depth at BODC prior to loading in the database. The bottle entries that were affected by this problem have been associated with an 'O' flag.

3) Bottle leakage also reported for bottles fired during cast CD132_016 at 298.3m and during cast CD132_028 at 11.9m.

Problem Report

None Reported


Project Information


No Project Information held for the Series

Data Activity or Cruise Information

Data Activity

Start Date (yyyy-mm-dd) 2001-09-26
End Date (yyyy-mm-dd) 2001-09-26
Organization Undertaking ActivityPlymouth Marine Laboratory
Country of OrganizationUnited Kingdom
Originator's Data Activity IdentifierCD132_CTD_CD132_061
Platform Categorylowered unmanned submersible

BODC Sample Metadata Report for CD132_CTD_CD132_061

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
141531   20.00        9.90   10.10    9.90 Niskin bottle No problem reported    
141614   20.00       91.90   92.00   91.30 Niskin bottle No problem reported    
141615   20.00       85.00   85.20   84.50 Niskin bottle No problem reported    
141616   20.00       80.10   80.20   79.60 Niskin bottle No problem reported    
141617   20.00       74.90   75.00   74.40 Niskin bottle No problem reported    
141618   20.00       69.90   70.00   69.50 Niskin bottle No problem reported    
141619   20.00       65.00   65.20   64.70 Niskin bottle No problem reported    
141620   20.00       59.90   60.10   59.60 Niskin bottle No problem reported    
141621   20.00       54.80   54.90   54.50 Niskin bottle No problem reported    
141622   20.00       50.00   50.20   49.80 Niskin bottle No problem reported    
141623   20.00       44.90   45.10   44.70 Niskin bottle No problem reported    
141624   20.00       40.00   40.10   39.80 Niskin bottle No problem reported    
141625   20.00       34.70   34.90   34.60 Niskin bottle No problem reported    
141626   20.00       30.70   30.90   30.60 Niskin bottle No problem reported    
141627   20.00       27.50   27.70   27.40 Niskin bottle No problem reported    
141628   20.00       23.70   23.80   23.60 Niskin bottle No problem reported    
141629   20.00       20.60   20.80   20.60 Niskin bottle No problem reported    
141630   20.00       15.00   15.20   15.00 Niskin bottle No problem reported    
141632   20.00        5.20    5.40    5.30 Niskin bottle No problem reported    
141633   20.00         .70     .80     .70 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 CD132 (AMBITION)
Departure Date 2001-08-30
Arrival Date 2001-09-29
Principal Scientist(s)Peter H Burkill (Plymouth Marine Laboratory)
Ship RRS Charles Darwin

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
Q value below limit of quantification

Appendix 1: CD132_CTD_CD132_061

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
1280747Water sample data2001-09-26 08:28:0026.00157 N, 56.58225 ERRS Charles Darwin CD132 (AMBITION)