Metadata Report for BODC Series Reference Number 1622269

Metadata Summary

Data Description

Data Category Water sample data
Instrument Type
Niskin bottle  discrete water samplers
Instrument Mounting lowered unmanned submersible
Originating Country Netherlands
Originator Dr Micha Rijkenberg
Originating Organization Royal Netherlands Institute for Sea Research
Processing Status banked
Online delivery of data Download available - Ocean Data View (ODV) format
Project(s) GEOTRACES

Data Identifiers

Originator's Identifier JC057_CTD_NUTS_3284:06_02_ROS
BODC Series Reference 1622269

Time Co-ordinates(UT)

Start Time (yyyy-mm-dd hh:mm) 2011-03-11 04:02
End Time (yyyy-mm-dd hh:mm) -
Nominal Cycle Interval -

Spatial Co-ordinates

Latitude 39.96480 S ( 39° 57.9' S )
Longitude 42.42320 W ( 42° 25.4' W )
Positional Uncertainty Unspecified
Minimum Sensor or Sampling Depth 10.0 m
Maximum Sensor or Sampling Depth 5119.0 m
Minimum Sensor or Sampling Height 28.0 m
Maximum Sensor or Sampling Height 5137.0 m
Sea Floor Depth 5147.0 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


BODC CODERankUnitsTitle
ADEPZZ011MetresDepth below surface of the water body
BOTTFLAG1Not applicableSampling process quality flag (BODC C22)
FIRSEQID1DimensionlessBottle firing sequence number
NTRAKGTX1Micromoles per kilogramConcentration of nitrate {NO3- CAS 14797-55-8} per unit mass of the water body [dissolved plus reactive particulate phase] by colorimetric autoanalysis and correction for nitrite
NTRIKGTX1Micromoles per kilogramConcentration of nitrite {NO2- CAS 14797-65-0} per unit mass of the water body [dissolved plus reactive particulate phase] by colorimetric autoanalysis
PHKGAATX1Micromoles per kilogramConcentration of phosphate {PO43- CAS 14265-44-2} per unit mass of the water body [dissolved plus reactive particulate phase] by colorimetric autoanalysis
SAMPRFNM1DimensionlessSample reference number
SLKGAATX1Micromoles per kilogramConcentration of silicate {SiO44- CAS 17181-37-2} per unit mass of the water body [dissolved plus reactive particulate phase] by colorimetric autoanalysis

Definition of BOTTFLAG

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.


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.

Dissolved nutrient data measured on the GEOTRACES cruises JC057 (GA02 leg 3)

Responsible investigator

Dr Micha J A Rijkenberg
Royal Netherlands Institute for Sea Research (NIOZ)
P.O. Box 59 1790 AB Den Burg
The Netherlands

Data contributor

Evaline van Weerlee
Royal Netherlands Institute for Sea Research (NIOZ)
P.O. Box 59 1790 AB Den Burg
The Netherlands

Laboratory of analysis

NIOZ (Shipboard)

Originator's Protocol for Data Acquisition and Analysis

During JC057 more than 1000 samples were analyzed for phosphate, silicate, nitrate and nitrite (912 samples from CTD bottles and 112 samples from the 'underway fish samples') using a Bran en Luebbe trAAcs 800 Auto-analyzer. The different nutrients were determined colorimetrical as described by Grashoff et al. (1983).

Samples were obtained from both CTD's, the large volume CTD rosette sampler and the ultra clean CTD, as well as the tow FISH. All samples were collected directly after the DIC and DOC sampling in 125ml polypropylene bottles and stored in a fridge at 4°C (unfiltered). Fish samples were filtrated over a 0.2 µm filters and collected in 125ml polypropylene bottles and stored at 4 °C prior to analysis.

Calibration Standards were prepared fresh every day diluted from stock solutions of the different nutrients in 0.2 µm filtered low nutrient seawater (LNSW). Stock standards were made by weighing in primary nutrient salts in deionized water (DIW) at the home laboratory. The analytical grade nutrient salts used were: 1) KH2PO4, 2) Na2SiF6, 3) KNO3, 4) NaNO2. The LNSW is surface seawater depleted for most nutrients, and is also used as baseline water for the analysis inbetween the samples. The samples were measured from the lowest to the highest concentration in order to keep the carry over effects as small as possible, so from surface to deep waters. Prior to analysis, all samples and standards were brought to room temperature of 23 °C.

In every run a mixed nutrient standard containing silicate, phosphate and nitrate a so called nutrient-cocktail, was measured in triplicate. Secondly a natural sterilized Reference Nutrient Sample (RMNS Kanso, Japan) containing a known concentration of silicate, phosphate, nitrate and nitrite , was analyzed in triplicate every run. The cocktail and the RMNS were both used to monitor the performance of the analysis. Finally the RMNS was used to adjust all data by means of computing with a factor, to obtain the final data set, so all referred to the same RMNS values for each analysis. This made data international comparable and comparable to the first legs of GEOTRACES.

From every station the deepest sample is sub sampled for nutrients in duplicate, the duplicate sample-vials were all stored dark at 4 °C, and measured again with the next station, for statistics.

The baseline resulted of low nutrient seawater (LNSW) the same water was used as diluents for the nutrient working standards. The back ground level of nutrients within this LNSW was determined by omitting one of the crucial reagents for color forming being: 1) Phosphate; ascorbic acid, 2) Silicate; ascorbic acid, 3) Nitrate; naphtylethylene diamine , 4) Nitrite; naphtylethylene diamine, compared with the same procedure in de-ionised water (MQ-water, Millipore). Taking A = LNSW + all reagents, B = LNSW + reagents - crucial reagent, C = MQ + all reagents, and D = MQ + reagents - crucial reagent, than the concentration of the nutrients of the zero nutrient baseline was determined using equation 1,

[nutrients baseline] = (A-B)-(C-D) * 1/slope of the calibration (1)

To clarify the baseline procedure the below example is given. The 'Baseline Background' procedure determines the amount of nutrient background in the base water being used. This procedure was performed by running the TrAAcs on all reagents and using the LNSW to be determined as the base water. The gain was set on its most sensitive setting and a low PO4 standard solution (0.2 to 0.5uM) was added to set the scale and its concentration measured with the peak height being recorded. Once a steady baseline was observed, a colour reagent line is placed into a reagent which doesn't contain the essential colour reagent, Ascorbic Acid, and then was placed back into the normal colour reagent mix. The process with and without the Ascorbic Acid in the colour reagent is then repeated with fresh Ultra-Pure Water being used as the baseline, see Figure 9. It is important to note that the Ultra-Pure Water needs to be checked for water quality. Therefore, by using the peak height from the added PO4 standard in LNSW and the difference between the baselines with and without the colour chemistry during LNSW and Ultra-Pure Water base waters, the Phosphate concentration in the LNSW can be computed using the following calculation;

µM of PO4 in LNSW = ([PO4] peak/y)*(ΔLNSW- ΔUltra-Pure Water) (2)


[PO4] peak -is the concentration in µM of the low PO4 peak

y -is the peak height of the low concentration PO4 peak to the baseline

Δ LNSW -is the difference in baseline height that is seen with and then without ascorbic acid during LNSW base water

Δ Ultra Pure Water -is the difference in baseline height that is seen with and without ascorbic acid during Ultra-Pure Water baseline

All working standards were prepared by diluting stock standards with the LNSW. The salinity matrix of the working standards were not kept constant. The highest dilution was 1050 µl stock standard added to 98.95 ml LNSW which means an offset in salinity of maximum 0.4. Typically, the concentrations used for the calibration ranged between 0 up till 120% from the highest environmental concentrations that we encountered. Calibrations for all nutrients were always linear and therefore fitted linearly. A calibration was executed for each run of up to 48 samples maximum.

Table 1. Results of Reference material of Nutrients. The reference material of nutrients is deep Pacific Ocean seawater that is filtered, processed and bottled by The General Environment Technos Co., Ltd. 3-1-1, higashikuraji, katano-shi, Osaka, 576-0061 Japan. URL: The manufacturer provides values for concentrations on the basis of their own analyses. This value is not an absolute value, instead it is equivalent in accuracy to the value obtained by another laboratory for the same reference material. Therefore in a recent 2012 intercomparison excercise between laboratories a consensus value was produced, this is the mean of reported values of the X laboratories including NIOZ (Aoyama et al., 2013).

Value provided by manufacturer Kanso (Lot code AX) [micromol/kg] Shipboard value NIOZ [micromol/kg] Consensus mean value (2012) [micromol/kg]
Silicic acid 59.5 58.50 59.41 (n=51)
Nitrate 21.39 21.80 21.62 (n=44)
Phosphate 01.59 01.61 01.62 (n=48)

During the 2010-2012 GEOTRACES cruises of the Netherlands the reproducibility of the Kanso reference standard was typically around 0.6 % of the average value for silicate, phosphate, nitrate. Day-to-day variability of the analyses was monitored and compensated for by 2 approaches. Firstly the Kanso standard was run along with the 24 samples of each station, and at the end of the cruise the mean of these Kanso values was calculated and used to correct the devation of every analytical run station by station. Secondly, the deepest sample analyzed of a station of 24 samples, was also kept and re-analyzed within the next run of the next station of 24 samples as another verification for ruling out variability between runs.


Silicate reacts with ammoniummolybdate to a yellow complex, after reduction with ascorbic acid the obtained blue silica molybdenum complex was measured at 800 nm. Oxalic acid was used to prevent formation of the blue phosphate molybdenum.

Phosphate reacts with ammoniummolybdate at pH 1.0, and potassiumantimonyl tartrate was used as an inhibitor. The yellow phosphate molybdenum complex was reduced by ascorbic acid and measured at 880 nm.

Nitrate plus nitrite (NOx) was mixed with a buffer imidazol at pH 7.5 and reduced by a copperized cadmium column to nitrite. This was diazotated with sulphanylamide and naphtylethylenediamine to a pink coloured complex and measured at 550 nm. After subtracting the nitrite value of the nitrite channel the nitrate value was achieved.

Nitrite was diazotated with sulphanylamide and naphtylethylenediamine to a pink coloured complex and measured at 550 nm.

References Cited

Grasshoff K, Erhardt M, Kremling K., 1983. Methods of seawater analysis, 2nd revised and extended edition. Verlag Chemie, Weinheim

Aoyama, M., and 67 others, 2013. 2012 Interlaboratory Comparison Study of a Reference Material for Nutrients in Seawater. Technical Report of the Meteorological Research Institute No. 70. In press.

BODC Data Processing Procedures

Data were submitted to BODC in Excel spreadsheet format, sample metadata provided (Station, lat, lon, depth, bottle) were checked against information held in the database and the final event log, no discrepancies were found. The mapping between the originator's channels and BODC parameter codes is detailed in the table below, the originators quality control flags were changed to BODC quality control flags no other changes were made.

Originator's Parameter Unit Description BODC Parameter Code BODC Unit Comments
PHSPHT Micromoles per kilogram Concentration of phosphate {PO4} per unit mass of the water body PHKGAATX Micromoles per kilogram n/a
SILCAT Micromoles per kilogram Concentration of silicate {SiO4} per unit mass of the water body SLKGAATX Micromoles per kilogram n/a
NITRIT Micromoles per kilogram Concentration of nitrite {NO2} per unit mass of the water body NTRIKGTX Micromoles per kilogram n/a
NITRAT Micromoles per kilogram Concentration of nitrate {NO3} per unit mass of the water body with correction for nitrite NTRAKGTX Micromoles per kilogram -

Data Quality Report

The nitrite channel has a sinus baseline signal during the cruise due to sensitive adjustment of the system. The detection limit was therefore increased to 0.04 umol/L.

Project Information



GEOTRACES is an international programme sponsored by SCOR which aims to improve our understanding of biogeochemical cycles and large-scale distribution of trace elements and their isotopes (TEIs) in the marine environment. The global field programme started in 2009 and will run for at least a decade. Before the official launch of GEOTRACES, fieldwork was carried out as part of the International Polar Year (IPY)(2007-2009) where 14 cruises were connected to GEOTRACES.

GEOTRACES is expected to become the largest programme to focus on the chemistry of the oceans and will improve our understanding of past, present and future distributions of TEIs and their relationships to important global processes.

This initiative was prompted by the increasing recognition that TEIs are playing a crucial role as regulators and recorders of important biogeochemical and physical processes that control the structure and productivity of marine ecosystems, the dispersion of contaminants in the marine environment, the level of greenhouse gases in the atmosphere, and global climate.

Scientific Objectives

GEOTRACES mission is: To identify processes and quantify fluxes that control the distribution of key trace elements and isotopes in the ocean, and to establish the sensitivity of these distributions to changing environmental conditions.

Three overriding goals support the GEOTRACES mission

These goals will be pursued through complementary research strategies, including observations, experiments and modelling.


The central component of GEOTRACES fieldwork will be a series of cruises spanning all Ocean basins see map below.

BODC image

Three types of cruise are required to meet the goals set out by GEOTRACES. These are


The IPY-GEOTRACES programme comprised of 14 research cruises on ships from 7 nations; Australia, Canada, France, Germany, New Zealand, Japan and Russia. The cruises will not be classified in the same way as the full GEOTRACES programme since the intercalibration protocols and data management protocols had not been established before the start of the IPY. But IPY-GEOTRACES data will still be quality controlled by GDAC and in the majority of cases verified versus Intercalibration standards or protocols.

Key parameters

The key parameters as set out by the GEOTRACES science plan are as follows: Fe, Al, Zn, Mn, Cd, Cu; 15N, 13C; 230Th, 231Pa; Pb isotopes, Nd isotopes; stored sample, particles, aerosols.


Data Activity or Cruise Information

Data Activity

Start Date (yyyy-mm-dd) 2011-03-11
End Date (yyyy-mm-dd) 2011-03-11
Organization Undertaking ActivityRoyal Netherlands Institute for Sea Research
Country of OrganizationNetherlands
Originator's Data Activity IdentifierJC057_CTD_06_02_ROS
Platform Categorylowered unmanned submersible

BODC Sample Metadata Report for JC057_CTD_06_02_ROS

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
636926 25.00   1 5220.90 5221.90 5119.00 Niskin bottle No problem reported 1  
636929 25.00   2 5097.00 5098.00 4999.00 Niskin bottle No problem reported 2  
636932 25.00   3 4581.10 4582.10 4498.00 Niskin bottle No problem reported 3  
636935 25.00   4 4063.50 4064.50 3995.00 Niskin bottle No problem reported 4  
636938 25.00   5 3557.10 3558.10 3501.00 Niskin bottle No problem reported 5  
636941 25.00   6 3044.90 3045.90 3000.00 Niskin bottle No problem reported 6  
636944 25.00   7 3046.20 3047.20 3002.00 Niskin bottle No problem reported 7  
636947 25.00   8 3046.00 3047.00 3001.00 Niskin bottle No problem reported 8  
636950 25.00   9 2026.10 2027.10 2001.00 Niskin bottle No problem reported 9  
636953 25.00   10 1411.40 1412.40 1396.00 Niskin bottle No problem reported 10  
636956 25.00   11 1263.70 1264.70 1251.00 Niskin bottle No problem reported 11  
636959 25.00   12 1009.20 1010.20 1000.00 Niskin bottle No problem reported 12  
636962 25.00   13  755.90  756.90  749.00 Niskin bottle No problem reported 13  
636965 25.00   14  504.10  505.10  500.00 Niskin bottle No problem reported 14  
636968 25.00   15  403.60  404.60  401.00 Niskin bottle No problem reported 15  
636971 25.00   16  301.00  302.00  299.00 Niskin bottle No problem reported 16  
636974 25.00   17  251.20  252.20  250.00 Niskin bottle No problem reported 17  
636977 25.00   18  201.10  202.10  200.00 Niskin bottle No problem reported 18  
636980 25.00   19  149.90  150.90  149.00 Niskin bottle No problem reported 19  
636983 25.00   20  101.20  102.20  101.00 Niskin bottle No problem reported 20  
636986 25.00   21   65.80   66.80   66.00 Niskin bottle No problem reported 21  
636989 25.00   22   50.20   51.20   50.00 Niskin bottle No problem reported 22  
636992 25.00   23   24.80   25.80   25.00 Niskin bottle No problem reported 23  
636995 25.00   24    9.60   10.60   10.00 Niskin bottle No problem reported 24  

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.


Cruise Name JC057 (GA02 Leg3)
Departure Date 2011-03-02
Arrival Date 2011-04-06
Principal Scientist(s)Micha J A Rijkenberg (Royal Netherlands Institute for Sea Research)
Ship RRS James Cook

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