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Metadata Report for BODC Series Reference Number 2108140

Metadata Summary

Data Description

Data Category Water sample data
Instrument Type
Niskin bottle  discrete water samplers
Metrohm 665 Dosimat Burette  Volume measures
Instrument Mounting lowered unmanned submersible
Originating Country United Kingdom
Originator Dr David Sivyer
Originating Organization Centre for Environment, Fisheries and Aquaculture Science Lowestoft Laboratory
Processing Status banked
Online delivery of data Download available - Ocean Data View (ODV) format
Project(s) SSB CaNDyFloSS

Data Identifiers

Originator's Identifier JC105_CTD_DOXY_1203:038
BODC Series Reference 2108140

Time Co-ordinates(UT)

Start Time (yyyy-mm-dd hh:mm) 2014-06-20 14:43
End Time (yyyy-mm-dd hh:mm) -
Nominal Cycle Interval -

Spatial Co-ordinates

Latitude 48.37787 N ( 48° 22.7' N )
Longitude 9.56619 W ( 9° 34.0' W )
Positional Uncertainty 0.0 to 0.01 n.miles
Minimum Sensor or Sampling Depth 26.0 m
Maximum Sensor or Sampling Depth 498.6 m
Minimum Sensor or Sampling Height 27.1 m
Maximum Sensor or Sampling Height 499.7 m
Sea Floor Depth 525.7 m
Sea Floor Depth Source BUDS
Sensor or Sampling Distribution Unspecified -
Sensor or Sampling Depth Datum Unspecified -
Sea Floor Depth Datum Unspecified -


BODC CODERankUnitsTitle
ADEPZZ011MetresDepth (spatial coordinate) relative to water surface in the water body
BOTTFLAG1Not applicableSampling process quality flag (BODC C22)
DOXYWITX1Micromoles per litreConcentration of oxygen {O2 CAS 7782-44-7} per unit volume of the water body [dissolved plus reactive particulate phase] by Winkler titration
FIRSEQID1DimensionlessBottle firing sequence number
ROSPOSID1DimensionlessBottle rosette position identifier
SAMPRFNM1DimensionlessSample reference number
SDOXWITX1Micromoles per litreConcentration standard deviation of oxygen {O2 CAS 7782-44-7} per unit volume of the water body [dissolved plus reactive particulate phase] by Winkler titration

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

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

Metrohm 665 Dosimat Burette

A dispensing instrument for titrating and dosing operations in the laboratory. It is fitted with microprocessor control, for titrating and dosing operations, digital display, automatic stopcock changeover, built-in RS 232C interface for printer connection and remote control of all functions; including push-button cable for manual dispensing control; without exchange unit. Dispensing rates of between 0.001 mL/min and 150 mL/min can be selected alongside pippetting volumes of between 0.001 mL/min and 150 mL/min.

For more information, please see this document:

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 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.

Cruise JC105 Dissolved Oxygen from CTD bottles

Originator's Protocol for Data Acquisition and Analysis

A total of 31 CTD casts were made during cruise JC105 in June 2014 using a stainless steel CTD package. Discrete samples were taken from two to six Niskin bottles from each CTD cast in order to calibrate the optode of the CTDs.

Samples were collected from Niskin bottles using stoppered glass bottles, treated with a strong manganese (II) solution (Manganous sulphate) and a concentrated reagent containing sodium iodide and sodium hydroxide (alkaline iodide). The bottle is then carefully stoppered so as to exclude bubbles of air and shaken. Bottles are stored under water until required for analysis. Stoppered lids are carefully removed and sulphuric acid is added to liberate iodine and the surplus iodide ions combine to generate the I3 - complex. This is then titrated against thiosulphate solution using a Metrohm Dosimat 665 autotitrator with endpoint detection.

For further information please read the cruise report.

The CTD package was configured as follows:

Stainless Steel CTD

BODC Data Processing Procedures

Data were provided in an Excel spreadsheet and archived at BODC. The file contained the water sample data from CTD bottles. Data received were loaded into the BODC database using established BODC data banking procedures.

The data values were submitted as three replicates, a mean and standard deviation in mg L-1. Therefore the replicate values were converted to µmol L-1 and a mean and standard deviation were calculated to be loaded to BODC database.

The originator variables were mapped to appropriate BODC parameter codes as follows:

Originator's Variable Units Description BODC Parameter Code BODC Units Comments
DO2 mg L-1 Concentration of oxygen {O2 CAS 7782-44-7} per unit volume of the water body [dissolved plus reactive particulate phase] by Winkler titration DOXYWITX µmol L-1 Conversion = *31.252
DO2 SD mg L-1 Concentration standard deviation of oxygen {O2 CAS 7782-44-7} per unit volume of the water body [dissolved plus reactive particulate phase] by Winkler titration SDOXYWITX µmol L-1 Conversion = *31.252

Data Quality Report

None (BODC assessment).

Problem Report

None (BODC assessment).

Project Information

Shelf Sea Biogeochemistry (SSB) Programme Work Package 1: CaNDyFloSS

Carbon and Nutrient Dynamics and Fluxes over Shelf Systems (CaNDyFloSS) is a £2.76 million component of the Natural Environment Research Council (NERC) Shelf Sea Biogeochemistry (SSB) research programme, running from 2013 to 2017. It is jointly funded by NERC and the Department for Environment, Food and Rural Affairs (DEFRA). The aim of the research is to perform a comprehensive study of the cycling of nutrients and carbon throughout the water column over the whole north-west European shelf. This will allow the fluxes of nutrients and carbon between the shelf and the deep ocean and atmosphere to be quantified, establishing the role of the north-west European continental shelf in the global carbon cycle.


Shelf seas are the primary regions of human marine resource exploitation, including both renewable and fossil fuel energy sources, recreation, trade and food production. They provide 90% of global fish catches which form an important source of food to much of the global population. They also play an important role in the ecosystem services provided by the oceans as a whole, in particular in storing carbon away from the atmosphere.

Physical and biochemical processes in shelf seas influence the removal of CO2 from the atmosphere and the subsequent storage of carbon in the deep ocean. Biological growth draws carbon out of the water, which is then replaced by carbon in CO2 from the atmosphere. In the shelf seas this growth is supported by terrestrial and open ocean sources of nutrients, implying intimate roles for both the terrestrial biosphere and the open ocean environment in regulating shelf sea climate services. The oceans can also be a major source or sink for other greenhouse gases, including nitrous oxide (N2O), with the shallow shelf sea thought to play a key role.

The spatial extent of the submerged continental shelves varies greatly. The NW European shelf sea is one of the largest and hence is likely to play a significant role in marine biogeochemical cycling, alongside providing a useful model for other systems. However, even in this relatively well studied region, there is a lack of detailed understanding of the principal controls on the cycling of carbon and the major nutrient elements, nitrogen, phosphorus and silicon. Consequently it is also difficult to predict how the cycling of these elements and hence the carbon removal they support may be altered by ongoing and potential future global change. This work package aims to address these uncertainties through a comprehensive study of the cycling of the major nutrients and carbon throughout the water column over the NW European shelf sea system.

Further details are available on the SSB website.


9 different organisations are directly involved in research for SSB Work Package 1. These institutions are

  • Centre for Environment, Fisheries and Aquaculture Science (Cefas)
  • National Oceanography Centre (NOC)
  • Plymouth Marine Laboratory (PML)
  • Scottish Association for Marine Science (SAMS) / Scottish Marine Institute (SMI)
  • University of Aberdeen
  • University of Bangor
  • University of East Anglia (UEA)
  • University of Liverpool
  • University of Southampton

In addition, there are third party institutions carrying out sampling work for SSB Work Package 1, but who are not involved in the programme itself. These are:

  • The Agri-Food and Biosciences Institute (AFBI)
  • Irish Marine Institute (MI)
  • Marine Science Scotland (MSS)


Two overarching objectives are defined for this Work Package.

  • Objective 1: Estimate the size of the continental shelf carbon pump over the whole north-west European shelf.
    This will consist of two principal activities. (1) Over a 12 month period, observations of air-sea CO2 fluxes will be made to provide a synoptic estimate of the magnitude of carbon update by the whole shelf system. (2) Concentrations of carbon (C), nitrogen (N), phosphate (P) and silicate (Si) will be estimated in water flowing on and off the shelf. These estimates will be coupled to estimates of flow and dispersion along the shelf edge, through collaboration with the NERC Fluxes across Sloping Topography of the North East Atlantic (FASTNEt) programme to allow an observational estimate of the net off-shelf transport of C, N, P and Si.

  • Objective 2: Determine the relative importance of external nutrient sources and internal biogeochemical cycling in maintaining the continental shelf pump.
    Estimates of the flux of nutrients and carbon generated in Objective 1 will be used to determine the estimation of any excess of on-shelf nutrient supply, relative to that of carbon. Work Package 1 will then quantify the processes which govern internal biogeochemical cycling by measuring the uptake ratios of N, P, Si and C into phytoplankton and the element and energy balance of organic matter production by autotrophs. Potential modifications to the relative concentrations and uptake of C, N, P and Si in the thermocline and sediment food webs will also be assessed, as will the relative importance of microbial and zooplankton turnover in controlling C, N, P and Si.

Fieldwork and data collection

Data for Objective 1 will be provided using pCO2 systems aboard third party vessels and ferry boxes, along with measurements made through the FASTNEt programme and through the Work Package 1 process cruises detailed below. The third party cruises will be undertaken by Cefas, MI, MSS, University of Bangor and AFBI, spanning the shelf seas and shelf-edges around the United Kingdom and the Republic of Ireland.

The Work Package 1 process cruises will provide data for Objective 1 and Objective 2 and are listed in the table below. The study area is the marine shelf (and shelf-edge) of the Celtic Sea. Work will be carried out on board the NERC research vessels RRS Discovery and RRS James Cook. These cruises will focus on the physics and biogeochemistry of the benthic and pelagic zones of the water column, primarily around four main sampling sites in this area.

Cruise identifier Research ship Cruise dates Work packages
JC105 RRS James Cook June 2014 WP 1, WP 2 and WP 3
DY026 RRS Discovery August 2014 WP1, WP 2 and WP 3
DY018 RRS Discovery November - December 2014 WP 1 and WP 3
DY029 RRS Discovery April 2015 WP 1 and WP 3
DY033 RRS Discovery July 2015 WP 1 and WP 3

Activities will include Conductivity Temperature and Depth (CTD) deployments, Acoustic Doppler Current Profilers (ADCP) surveys, moorings and wire-walker deployments, autonomous gliders and submersible surveys, Marine Snow Catcher particulate matter analysis, plankton net hauls and laboratory incubations with sea water samples.

Data Activity or Cruise Information

Data Activity

Start Date (yyyy-mm-dd) 2014-06-20
End Date (yyyy-mm-dd) 2014-06-20
Organization Undertaking ActivityNational Oceanography Centre, Liverpool
Country of OrganizationUnited Kingdom
Originator's Data Activity IdentifierJC105_CTD_038
Platform Categorylowered unmanned submersible

No Document Information Held for the Series

Related Data Activity activities are detailed in Appendix 1


Cruise Name JC105
Departure Date 2014-06-15
Arrival Date 2014-06-24
Principal Scientist(s)Jo Hopkins (National Oceanography Centre, Liverpool)
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
B nominal value
Q value below limit of quantification

Appendix 1: JC105_CTD_038

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
2103891Water sample data2014-06-20 14:43:0048.37787 N, 9.56619 WRRS James Cook JC105
2143150Water sample data2014-06-20 14:43:0048.37787 N, 9.56619 WRRS James Cook JC105