Metadata Report for BODC Series Reference Number 1132627


Metadata Summary

Data Description

Data Category CTD or STD cast
Instrument Type
NameCategories
Sea-Bird SBE 43 Dissolved Oxygen Sensor  dissolved gas sensors
Sea-Bird SBE 911plus CTD  CTD; water temperature sensor; salinity sensor
Sea-Bird SBE 3plus (SBE 3P) temperature sensor  water temperature sensor
Sea-Bird SBE 4C conductivity sensor  salinity sensor
Chelsea Technologies Group Aquatracka III fluorometer  fluorometers
Chelsea Technologies Group Alphatracka II transmissometer  transmissometers
Instrument Mounting lowered unmanned submersible
Originating Country United Kingdom
Originator Prof Gideon Henderson
Originating Organization University of Oxford Department of Earth Sciences
Processing Status QC in progress
Project(s) GEOTRACES
 

Data Identifiers

Originator's Identifier CTD_JC068_027_2DB
BODC Series Reference 1132627
 

Time Co-ordinates(UT)

Start Time (yyyy-mm-dd hh:mm) 2012-01-12 05:17
End Time (yyyy-mm-dd hh:mm) 2012-01-12 05:51
Nominal Cycle Interval 2.0 decibars
 

Spatial Co-ordinates

Latitude 40.00040 S ( 40° 0.0' S )
Longitude 19.93030 W ( 19° 55.8' W )
Positional Uncertainty Unspecified
Minimum Sensor Depth 2.98 m
Maximum Sensor Depth 1497.95 m
Minimum Sensor Height 2287.05 m
Maximum Sensor Height 3782.02 m
Sea Floor Depth 3785.0 m
Sensor Distribution Variable common depth - All sensors are grouped effectively at the same depth, but this depth varies significantly during the series
Sensor Depth Datum Instantaneous - Depth measured below water line or instantaneous water body surface
Sea Floor Depth Datum Instantaneous - Depth measured below water line or instantaneous water body surface
 

Parameters

BODC CODE Rank Units Short Title Title
ACYCAA01 1 Dimensionless Record_No Sequence number
CNCLCCI1 1 Siemens per metre Cond_ind_cal Electrical conductivity of the water body by in-situ conductivity cell and calibration against independent measurements
CPHLPM01 1 Milligrams per cubic metre chl-a_water_ISfluor_manufctrcal_sensor1 Concentration of chlorophyll-a {chl-a CAS 479-61-8} per unit volume of the water body [particulate >unknown phase] by in-situ chlorophyll fluorometer and manufacturer's calibration applied
DOXMZZXX 1 Micromoles per kilogram DissO2_Mass Concentration of oxygen {O2 CAS 7782-44-7} per unit mass of the water body [dissolved plus reactive particulate phase]
POPTDR01 1 Percent Trans_Red_25cm Transmittance (red light wavelength) per 25cm of the water body by 25cm path length red light transmissometer
POTMCV01 1 Degrees Celsius WC_Potemp Potential temperature of the water body by computation using UNESCO 1983 algorithm
PRESPR01 1 Decibars Pres_Z Pressure (spatial co-ordinate) exerted by the water body by profiling pressure sensor and corrected to read zero at sea level
PSALCC01 1 Dimensionless P_sal_CTD_calib Practical salinity of the water body by CTD and computation using UNESCO 1983 algorithm and calibration against independent measurements
SIGTPR01 1 Kilograms per cubic metre SigTheta Sigma-theta of the water body by CTD and computation from salinity and potential temperature using UNESCO algorithm
TEMPCU01 1 Degrees Celsius Uncal_CTD_Temp Temperature of the water body by CTD and NO verification against independent measurements
 

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

Public domain 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.

The recommended acknowledgment is

"This study uses data from the data source/organisation/programme, provided by the British Oceanographic Data Centre and funded by the funding body."


Narrative Documents

Sea-Bird Dissolved Oxygen Sensor SBE 43 and SBE 43F

The SBE 43 is a dissolved oxygen sensor designed for marine applications. It incorporates a high-performance Clark polarographic membrane with a pump that continuously plumbs water through it, preventing algal growth and the development of anoxic conditions when the sensor is taking measurements.

Two configurations are available: SBE 43 produces a voltage output and can be incorporated with any Sea-Bird CTD that accepts input from a 0-5 volt auxiliary sensor, while the SBE 43F produces a frequency output and can be integrated with an SBE 52-MP (Moored Profiler CTD) or used for OEM applications. The specifications below are common to both.

Specifications

Housing Plastic or titanium
Membrane

0.5 mil- fast response, typical for profile applications

1 mil- slower response, typical for moored applications

Depth rating

600 m (plastic) or 7000 m (titanium)

10500 m titanium housing available on request

Measurement range 120% of surface saturation
Initial accuracy 2% of saturation
Typical stability 0.5% per 1000 h

Further details can be found in the manufacturer's specification sheet .

SS CTD Instrument Description JC068

Standard Rosette CTD Unit and Auxiliary Sensors

A 24-way stainless steel frame with a Sea-Bird 9/11 plus underwater unit (SN 09P-0943) with fin-mounted secondary temperature and conductivity sensors was used throughout the cruise. All other instruments were attached to a Sea-Bird 24 Position carousel (s/n 32- 31240-0423) with Ocean Test Equipment 20 L water samples.

The CTD unit included the following sensors

Sensor Model Serial Number Calibration Comments
Pressure transducer Digiquartz pressure sensor 110557 26 April 2009 -
Conductivity sensor SBE 4C 04C-2450 22 February 2011 Primary sensor
Conductivity sensor SBE 4C 04C-3698 8 February 2011 Secondary sensor fin mounted
Temperature sensor SBE 3 03P-2729 27 August 2010 Primary sensor
Temperature sensor SBE 3 03P - 4105 18 February 2011 Secondary sensor, fin mounted
Dissolved oxygen SBE 43 43-0862 10 March 2009 -
Fluorometer Chelsea Aquatracka Mk III Fluor 88-2960-163 8 September 2010 -
Transmissometer Chelsea Alphatracka Mk II Trans 161048 28 May 2008 -
Backscatter meter Wetlabs BBRTD turbidity sensor BBRTD-759R 18 May 2010 -
Photosynthetically Active Radiation Chelsea DWIRR PAR sensor 10 14 June 2011 -
Photosynthetically Active Radiation Chelsea UWIRR PAR sensor 11 14 June 2011 -

The Stainless Steel CTD system was deployed using a 11.43mm double armored conducting galvanised steel CTD wire. This CTD suite was run in real time at 24Hz using an 11 plus deck unit (s/n 11P-24680-0587).

Sea-Bird Electronics SBE 911 and SBE 917 series CTD profilers

The SBE 911 and SBE 917 series of conductivity-temperature-depth (CTD) units are used to collect hydrographic profiles, including temperature, conductivity and pressure as standard. Each profiler consists of an underwater unit and deck unit or SEARAM. Auxiliary sensors, such as fluorometers, dissolved oxygen sensors and transmissometers, and carousel water samplers are commonly added to the underwater unit.

Underwater unit

The CTD underwater unit (SBE 9 or SBE 9 plus ) comprises a protective cage (usually with a carousel water sampler), including a main pressure housing containing power supplies, acquisition electronics, telemetry circuitry, and a suite of modular sensors. The original SBE 9 incorporated Sea-Bird's standard modular SBE 3 temperature sensor and SBE 4 conductivity sensor, and a Paroscientific Digiquartz pressure sensor. The conductivity cell was connected to a pump-fed plastic tubing circuit that could include auxiliary sensors. Each SBE 9 unit was custom built to individual specification. The SBE 9 was replaced in 1997 by an off-the-shelf version, termed the SBE 9 plus , that incorporated the SBE 3 plus (or SBE 3P) temperature sensor, SBE 4C conductivity sensor and a Paroscientific Digiquartz pressure sensor. Sensors could be connected to a pump-fed plastic tubing circuit or stand-alone.

Temperature, conductivity and pressure sensors

The conductivity, temperature, and pressure sensors supplied with Sea-Bird CTD systems have outputs in the form of variable frequencies, which are measured using high-speed parallel counters. The resulting count totals are converted to numeric representations of the original frequencies, which bear a direct relationship to temperature, conductivity or pressure. Sampling frequencies for these sensors are typically set at 24 Hz.

The temperature sensing element is a glass-coated thermistor bead, pressure-protected inside a stainless steel tube, while the conductivity sensing element is a cylindrical, flow-through, borosilicate glass cell with three internal platinum electrodes. Thermistor resistance or conductivity cell resistance, respectively, is the controlling element in an optimized Wien Bridge oscillator circuit, which produces a frequency output that can be converted to a temperature or conductivity reading. These sensors are available with depth ratings of 6800 m (aluminium housing) or 10500 m (titanium housing). The Paroscientific Digiquartz pressure sensor comprises a quartz crystal resonator that responds to pressure-induced stress, and temperature is measured for thermal compensation of the calculated pressure.

Additional sensors

Optional sensors for dissolved oxygen, pH, light transmission, fluorescence and others do not require the very high levels of resolution needed in the primary CTD channels, nor do these sensors generally offer variable frequency outputs. Accordingly, signals from the auxiliary sensors are acquired using a conventional voltage-input multiplexed A/D converter (optional). Some Sea-Bird CTDs use a strain gauge pressure sensor (Senso-Metrics) in which case their pressure output data is in the same form as that from the auxiliary sensors as described above.

Deck unit or SEARAM

Each underwater unit is connected to a power supply and data logging system: the SBE 11 (or SBE 11 plus ) deck unit allows real-time interfacing between the deck and the underwater unit via a conductive wire, while the submersible SBE 17 (or SBE 17 plus ) SEARAM plugs directly into the underwater unit and data are downloaded on recovery of the CTD. The combination of SBE 9 and SBE 17 or SBE 11 are termed SBE 917 or SBE 911, respectively, while the combinations of SBE 9 plus and SBE 17 plus or SBE 11 plus are termed SBE 917 plus or SBE 911 plus .

Specifications

Specifications for the SBE 9 plus underwater unit are listed below:

Parameter Range Initial accuracy Resolution at 24 Hz Response time
Temperature -5 to 35°C 0.001°C 0.0002°C 0.065 sec
Conductivity 0 to 7 S m -1 0.0003 S m -1 0.00004 S m -1 0.065 sec (pumped)
Pressure 0 to full scale (1400, 2000, 4200, 6800 or 10500 m) 0.015% of full scale 0.001% of full scale 0.015 sec

Further details can be found in the manufacturer's specification sheet .

Chelsea Technologies Group Aquatracka MKIII fluorometer

The Chelsea Technologies Group Aquatracka MKIII is a logarithmic response fluorometer. Filters are available to enable the instrument to measure chlorophyll, rhodamine, fluorescein and turbidity.

It uses a pulsed (5.5 Hz) xenon light source discharging along two signal paths to eliminate variations in the flashlamp intensity. The reference path measures the intensity of the light source whilst the signal path measures the intensity of the light emitted from the specimen under test. The reference signal and the emitted light signals are then applied to a ratiometric circuit. In this circuit, the ratio of returned signal to reference signal is computed and scaled logarithmically to achieve a wide dynamic range. The logarithmic conversion accuracy is maintained at better than one percent of the reading over the full output range of the instrument.

Two variants of the instrument are available, both manufactured in titanium, capable of operating in depths from shallow water down to 2000 m and 6000 m respectively. The optical characteristics of the instrument in its different detection modes are visible below:

Excitation Chlorophyll a Rhodamine Fluorescein Turbidity
Wavelength (nm) 430 500 485 440 *
Bandwidth (nm) 105 70 22 80 *
Emission Chlorophyll a Rhodamine Fluorescein Turbidity
Wavelength (nm) 685 590 530 440 *
Bandwidth (nm) 30 45 30 80 *

* The wavelengths for the turbidity filters are customer selectable but must be in the range 400 to 700 nm. The same wavelength is used in the excitation path and the emission path.

The instrument measures chlorophyll a, rhodamine and fluorescein with a concentration range of 0.01 µg l -1 to 100 µg l -1 . The concentration range for turbidity is 0.01 to 100 FTU (other wavelengths are available on request).

The instrument accuracy is ± 0.02 µg l -1 (or ± 3% of the reading, whichever is greater) for chlorophyll a, rhodamine and fluorescein. The accuracy for turbidity, over a 0 - 10 FTU range, is ± 0.02 FTU (or ± 3% of the reading, whichever is greater).

Further details are available from the Aquatracka MKIII specification sheet .

Chelsea Technologies Group ALPHAtracka and ALPHAtracka II transmissometers

The Chelsea Technologies Group ALPHA tracka (the Mark I) and its successor, the ALPHA tracka II (the Mark II), are both accurate (< 0.3 % fullscale) transmissometers that measure the beam attenuation coefficient at 660 nm. Green (565 nm), yellow (590 nm) and blue (470 nm) wavelength variants are available on special order.

The instrument consists of a Transmitter/Reference Assembly and a Detector Assembly aligned and spaced apart by an open support frame. The housing and frame are both manufactured in titanium and are pressure rated to 6000 m depth.

The Transmitter/Reference housing is sealed by an end cap. Inside the housing an LED light source emits a collimated beam through a sealed window. The Detector housing is also sealed by an end cap. A signal photodiode is placed behind a sealed window to receive the collimated beam from the Transmitter.

The primary difference between the ALPHA tracka and ALPHA tracka II is that the Alphatracka II is implemented with surface-mount technology; this has enabled a much smaller diameter pressure housing to be used while retaining exactly the same optical train as in the Mark I. Data from the Mark II version are thus fully compatible with that already obtained with the Mark I. The performance of the Mark II is further enhanced by two electronic developments from Chelsea Technologies Group - firstly, all items are locked in a signal nulling loop of near infinite gain and, secondly, the signal output linearity is inherently defined by digital circuitry only.

Among other advantages noted above, these features ensure that the optical intensity of the Mark II, indicated by the output voltage, is accurately represented by a straight line interpolation between a reading near full-scale under known conditions and a zero reading when blanked off.

For optimum measurements in a wide range of environmental conditions, the Mark I and Mark II are available in 5 cm, 10 cm and 25 cm path length versions. Output is default factory set to 2.5 volts but can be adjusted to 5 volts on request.

Further details about the Mark II instrument are available from the Chelsea Technologies Group ALPHA tracka II specification sheet .

BODC CTD Processing JC068

Reformatting

The data arrived at BODC as mstar format files representing all of the CTD casts taken during the cruise JC068. The data contained in the files were the downcast data averaged to a 2db pressure grid. The following table shows how the variables within the mstar files were mapped to the appropriate BODC parameter codes. Only the primary data channels were transferred.

Originator's Parameter Name Units Description BODC Parameter Code Units Comments
press dbar Pressure of water body on profiling pressure sensor PRESPR01 dbar Manufacturer's calibration applied.
temp °C Temperature of water column by CTD TEMPCU01 °C This parameter represents the first choice sensor data.
temp1 °C Temperature of water column by CTD (primary sensor) Not transferred - Data available on request.
temp2 °C Temperature of the water column by CTD (secondary sensor) Not transferred - Data available on request.
psal Dimensionless Practical salinity of the water body by CTD PSALCC01 Dimensionless Generated by data originator using primary CTD temperature and calibrated conductivity data.
psal1 - Practical salinity of the water body by CTD Not transferred - Uncalibrated primary salinity data, available on request.
psal2 - Practical salinity of the water body by CTD Not transferred - Uncalibrated secondary salinity data, available on request.
oxygen µmol/Kg Dissolved oxygen concentration per unit mass of the water body, uncalibrated DOXMZZXX µmol/Kg All oxygen data has been left uncalibrated due to large differences in residuals. Discrete O2 sample data is available collected from the stainless steel CTD.
fluor ug/l Concentration of chlorophyll-a from an in-situ chlorophyll fluorometer CPHLPM01 Milligrams per cubic metre Manufacturer's calibration applied. No unit conversion is necessary as µg/l are equivalent to mg/m
transmittance percent Transmittance (red light wavelength- 660nm) per 25cm of the water body by CTD POPTDR01 percent -
depth M Depth of the water column Not transferred - -
potemp °C Potential temperature of the water body POTMCV01 °C Calculated by BODC
Sigma-theta Kilograms per cubic metre Sigma-theta of the water body by CTD and computation from salinity and potential temperature SIGTPR01 Kilograms per cubic metre Calculated by BODC
cond mS/cm Electrical conductivity of the water body by CTD CNCLCCI1 Siemens per metre Calibration against independent measurement. Units conversion applied at BODC
cond1 and cond2 mS/cm Uncalibrated conductivity from the primary and secondary sensors. Not transferred - Data available on request
Par Number Instrument output (voltage) by cosine-collector downwelling PAR radiometer LVLTLD01 Volts -

Screening

Reformatted CTD data were visualised using the in-house graphical editor EDSERPLO. No data values were edited or deleted. Quality control flags were applied to data as necessary.

References

Fofonoff, NP and Millard, RC (1983). Algorithms for computations of fundamental properties of seawater. UNESCO Technical Papers in Marine Science No. 44, 53pp.

UNESCO, 1981. Background papers and supporting data on the International Equation of State of Seawater 1980. UNESCO Technical Papers in Marine Science No. 38, 192pp

Originator's Data Processing JC068

Sampling Strategy

Two CTD frames were used during JC068, a stainless steel frame and a trace-metal clean titanium frame. The titanium frame was deployed using a non-conducting cable with an auto-fire unit to trigger the niskin bottles at pre-programmed depths. In total 62 successful casts were made during the cruise. Of the successful casts, 38 were made using the stainless steel frame and 24 using the trace-metal clean titanium frame (full water column). Water was sampled from all successful casts.

Data Processing

Initial SeaBird Processing

The files output by Seasave have the appendices: .hex, .HDR, .bl and .CON. The .CON files for each cast contain the calibration coefficients for the instrument. The .HDR files contain the information in the header of each cast file. The .hex files are the data files for each cast and are in hex format. The .bl files contain CTD scans that were collected while the water bottle was being closed. Files produced by the autonomous titanium frame unit and the conventional stainless steel frame unit were processed in exactly the same way.

Initial data processing was performed using SeaBird processing software SBE Data Processing version 7.21b. The following options were used in the given order :

Mstar Processing

The main points are summarised here;

Field Calibrations

Discrete salinity and oxygen samples were collected from each cast and used to calibrate the CTD sensor data

Calibration of the oxygen sensor

Residuals for bottle - CTD oxygen was not stable over time. Bottle oxygen and CTD oxygen did not show a clear linear relationship. As a result the oxygen data was left uncalibrated.

Salinity calibration

Upcast salinity from the first choice sensors present at bottle depths was calibrated against salinity derived from bottle samples.

Salinity data was calibrated at NOC by Brian King no calibration information was provided.


Project Information

GEOTRACES

Introduction

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.

Fieldwork

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

IPY-GEOTRACES

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.

Weblink:

http://www.bodc.ac.uk/geotraces/
http://www.geotraces.org/


Data Activity or Cruise Information

Cruise

Cruise Name JC068 (GA10)
Departure Date 2011-12-24
Arrival Date 2012-01-27
Principal Scientist(s)Gideon Henderson (University of Oxford Department of Earth Sciences)
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