Metadata Report for BODC Series Reference Number 756558

• Metadata Summary

• Problem Reports

• Data Access Policy

• Narrative Documents

• Project Information

• Data Activity or Cruise Information

• Fixed Station Information

• BODC Quality Flags

• SeaDataNet Quality Flags

Metadata Summary

Problem Reports

No Problem Report Found in the Database

Data Quality Report

It was concluded after visual inspection at BODC that the altimetry channel did not contain data recorded from this sensor on the titanium CTD unit. The source of the channel was unclear. Since all other sensors were accounted for, the altimetry channel was considered ambiguous and surplus to use. Consequently, the channel was deleted from series obtained with the titanium CTD unit.

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

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

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

Instrument Description

CTD Titanium Unit and Auxiliary Sensors

¹The primary temperature and conductivity sensor pair (described here) are referred to as secondary sensors in all files produced from Sea-Bird Software processing. The names were swapped during NOCS PSTAR processing where the Sea-Bird named, secondary sensors became the primary sensor pair.

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:

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:

* 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 ALPHAtracka (the Mark I) and its successor, the ALPHAtracka 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 ALPHAtracka and ALPHAtracka 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 ALPHAtrackaII specification sheet.

Chelsea Technologies Photosynthetically Active Radiation (PAR) Irradiance Sensor

This sensor was originally designed to assist the study of marine photosynthesis. With the use of logarithmic amplication, the sensor covers a range of 6 orders of magnitude, which avoids setting up the sensor range for the expected signal level for different ambient conditions.

The sensor consists of a hollow PTFE 2-pi collector supported by a clear acetal dome diverting light to a filter and photodiode from which a cosine response is obtained. The sensor can be used in moorings, profiling or deployed in towed vehicles and can measure both upwelling and downwelling light.

Specifications

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

Tritech Digital Precision Altimeter PA200

This altimeter is a sonar ranging device that gives the height above the sea bed when mounted vertically. When mounted in any other attitude the sensor provides a subsea distance. It can be configured to operate on its own or under control from an external unit and can be supplied with simultaneous analogue and digital outputs, allowing them to interface to PC devices, data loggers, telemetry systems and multiplexers.

These instruments can be supplied with different housings, stainless steel, plastic and aluminum, which will limit the depth rating. There are three models available: the PA200-20S, PA200-10L and the PA500-6S, whose transducer options differ slightly.

Specifications

Common specifications are presented below

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

BODC Processing

The data arrived at BODC in PSTAR format files representing all of the titanium CTD casts taken during the cruise. These were reformatted to the internal NetCDF format using BODC standard data banking procedures. The following table shows how the variables within the PSTAR files were mapped to appropriate BODC parameter codes:

Four new channels were generated from the originator's parameters during transfer and are described below:

The reformatted data were visualised using the in-house EDSERPLO software. Suspect data were marked by adding an appropriate quality control flag, missing data by both setting the data to an appropriate value and setting the quality control flag.

This data is also held by ICES, who have chosen to add additional data quality flags to the oxygen data. BODC have not added these flags to the data held at BODC.

References

¹Fofonoff N.P. and Millard R.C., Jr. (1983). Algorithms for computations of fundemental properties of seawater. UNESCO Technical Papers in Marine Science No. 44., 53pp.

²Benson, B.B. and Krause D., Jr. (1984). The concentration and isotopic fractionation of oxygen dissolved in freshwater and seawater in equilibrium with the atmosphere. Limnology and Oceanography, 29:620-632.

Originator's Data Processing

Sampling Strategy

A total of 84 CTD stations¹ were carried out during the cruise in the areas of the Extended Ellett Line and Icelandic Basin. From these, a total of 92 CTD downcast profiles of 2 decibar data were collected², of which, 17 profiles were obtained using the instruments associated to the titanium CTD. Using this unit, a total of 5 profiles of data were collected as part of CTD survey 1 (C1), 2 as part of CTD survey 2 (C2), 4 as part of SeaSoar survey 1 (S1), 6 as part of SeaSoar survey 2 (S2) and 1 profile of data was collected in the area of the Extended Ellett Line. General information regarding CTD sampling strategy can be found in the cruise report from p137.

¹Please note that a total of 84 CTD 'profiles' were reported to have been carried out during the cruise on p137 of the cruise report, however, this actually refers to the number of CTD stations visited during the cruise.

²Please note that the collection of 94 profiles was attempted during the cruise but data were corrupted from cast 16220A and the CTD malfunctioned during cast 16295A. Therefore, only 92 profiles of data were collected.

Data Processing

Raw CTD files were initially processed through Sea-Bird software (SBEDataProcessing-Win32) using a modified protocol used during Discovery cruise D306. The resulting files were then processed through NOCS Unix scripts into PSTAR format using slightly modified versions of execs used on cruise D306. Separate NOCS Unix scripts were used for stainless steel unit casts and titanium unit casts. Full processing details can be found in the cruise report from p138.

Field Calibrations

The titanium CTD unit salinity and oxygen sensors were calibrated against CTD casts obtained using a stainless steel CTD unit. Prior to this, the stainless steel CTD salinity and oxygen were calibrated following the protocol described for salinity in the cruise report (p149, p150-151). Values obtained from the stainless steel CTD were calibrated using independent salinity and oxygen bottles samples, collected via the unit's OTE bottle rosette. Bottle samples were determined using an autosalinometer for salinity and the Winkler titration for oxygen. Further information regarding the collection and measurement of bottle samples can be found in the cruise report from p172 for salinity and p198 for oxygen. Prior to calibration, data points outside 2 standard deviation's of the mean offset (bottle value minus CTD value) were removed. The mean offset was found to vary for different periods of the cruise. Therefore, the cruise was split into two periods of calibration for salinity and three periods for oxygen. These were pre- and post-station 16224 for salinity and stations 16195-16202, 16203-16240 and 16243-16287 for oxygen. Subsequently, the titanium CTD unit was calibrated by comparison to adjacent stainless steel CTD casts (ie. where a titanium cast immediately followed a steel one). Due to time constraints, not all of the independent bottle samples had been processed at the time of writing the cruise report and revised calibrations are as below:

Stainless steel CTD

• Salinity (primary sensor)
calibrated salinity = (-0.0752 + 1.0022) multiplied by raw (for casts 16195A to 16222A)
calibrated salinity = (0.3462 + 0.9904) multiplied by raw (for casts 16224A to 16287A)
where 'raw' is CTD primary salinity

• Salinity (secondary sensor)
calibrated salinity = (-0.1914 + 1.0056) multiplied by raw (for casts 16195A to 16222A)
calibrated salinity = (0.2754 + 0.9926) multiplied by raw (for casts 16224A to 16287A)
where 'raw' is CTD secondary salinity

• Oxygen
calibrated = (-13.0507 + 1.1583) multiplied by raw (for casts 16195A to 16202A)
calibrated oxygen = (-12.4329 + 1.1370) multiplied by raw (for casts 16203A to 16240A)
calibrated oxygen = (-8.6379 + 1.1346) multiplied by raw (for casts 16243A to 16287A)
where 'raw' is CTD oxygen

Titanium CTD

• Salinity (primary sensor)
calibrated salinity = raw + 0.0033
where 'raw' is CTD primary salinity

• Salinity (secondary sensor)
calibrated salinity = raw + 0.0017
where 'raw' is CTD secondary salinity

• Oxygen
calibrated oxygen = (14.1456 + 1.0172) multiplied by raw (for casts 16203B to 16240B)
calibrated oxygen = (-10.3004 + 1.1352) multiplied by raw (for casts 16243B to 16287B)
where 'raw' is CTD oxygen

Project Information

Oceans 2025 Theme 2: Marine Biogeochemical Cycles

Marine biogeochemical cycles are the key processes that control the cycling of climate-active gases within the surface ocean; the main transport mechanisms governing the supply of nutrients from deeper waters across the pycnocline; and the flux of material to deep water via the biological carbon pump. The broad aim of this Theme is to improve knowledge of major biogeochemical processes in the surface layer of the Atlantic Ocean and UK shelf seas in order to develop accurate models of these systems. This strategic research will result in predictions of how the ocean will respond to, and either ameliorate or worsen, climate change and ocean acidification.

Theme 2 comprises three Research Units and ten Work Packages. Theme 2 addresses the following pivotal biogeochemical pathways and processes:

• The oceans and shelf seas as a source and sink of climate-active gases
• The importance of the carbon and nitrogen cycles in the regulation of microbial communities and hence export and biogenic gas cycling
• The biological pump and export of carbon into the ocean's interior
• Processes that introduce nutrients into the euphotic zone
• The direct impact of a high CO₂ world (acidification) on mixed-layer biogeochemical cycles and feedbacks to the atmosphere via sea/air gas fluxes and the biological pump
• The indirect impact of a high CO₂ world (increased stratification and storminess) on the supply of nutrients to the surface layer of the ocean and hence on the biological carbon pump and air-sea gas fluxes
• Cellular processes that mediate calcification in coccolithophores and how these are impacted by environmental change with a focus on elevated CO₂ and ocean acidification
• Inter- and intra-specific genetic diversity and inter-specific physiological plasticity in coccolithophores and the consequences of rapid environmental change

The official Oceans 2025 documentation for this Theme can be found using the following link: Oceans 2025 Theme 2

Oceans 2025 Theme 2, Work Package 2.5: Physical Processes and the Supply of Nutrients to the Euphotic Zone

The emphasis behind this Work Package is to gain a better understanding of the ocean's biological carbon pump (OBP), an important process in the global carbon cycle. Small changes in its magnitude resulting from climate change could have significant effects, both on the ocean's ability to sequester CO₂ and on the natural flux of marine carbon. This work package is concerned with the effect of physical processes and circulation on nutrient supply to the euphotic zone. Many physical pathways influence nutrient supply, such as winter overturning, Ekman pumping, small-scale turbulent mixing and mesoscale ageostrophic circulations, (of which, eddy pumping is but one example). Increased stratification will change patterns of winter overturning and dampen small-scale mixing. Shifts in wind patterns will perturb Ekman pumping. Changes in gradients of ocean heating and wind-forcing will alter the distribution of potential energy released through baroclinic instability of eddies and fronts. The combined effect of change on total nutrient supply will therefore be complex. Such physically-mediated changes, coupled to changes in aeolian dust deposition, may profoundly alter upper ocean plankton communities, biogeochemical cycling and carbon export.

This Work Package will be primarily coordinated by the National Oceanography Centre, Southampton (NOC). Specific objectives are:

• To determine the relative importance of mechanisms affecting nutrient supply to the photic zone by quantifying them in the three major biomes of the North Atlantic
• To establish how representative process studies are for the basin scale and thus define operators to scale up the individual process study results
• To determine the sensitivity to future climate change of the mechanisms sustaining total nutrient supply to the photic zone over the three major biomes of the North Atlantic

Aspects of this work will link to Oceans 2025 Theme 9 and 10, and Theme 2 WP 2.6.

More detailed information on this Work Package is available from pages 13-15 of the official Oceans 2025 Theme 2 document: Oceans 2025 Theme 2

Weblink: http://www.oceans2025.org/

Oceans 2025 - The NERC Marine Centres' Strategic Research Programme 2007-2012

Who funds the programme?

The Natural Environment Research Council (NERC) funds the Oceans 2025 programme, which was originally planned in the context of NERC's 2002-2007 strategy and later realigned to NERC's subsequent strategy (Next Generation Science for Planet Earth; NERC 2007).

Who is involved in the programme?

The Oceans 2025 programme was designed by and is to be implemented through seven leading UK marine centres. The marine centres work together in coordination and are also supported by cooperation and input from government bodies, universities and other partners. The seven marine centres are:

• National Oceanography Centre, Southampton (NOCS)
• Plymouth Marine Laboratory (PML)
• Marine Biological Association (MBA)
• Sir Alister Hardy Foundation for Marine Science (SAHFOS)
• Proudman Oceanographic Laboratory (POL)
• Scottish Association for Marine Science (SAMS)
• Sea Mammal Research Unit (SMRU)

Oceans2025 provides funding to three national marine facilities, which provide services to the wider UK marine community, in addition to the Oceans 2025 community. These facilities are:

• British Oceanographic Data Centre (BODC), hosted at POL
• Permanent Service for Mean Sea Level (PSMSL), hosted at POL
• Culture Collection of Algae and Protozoa (CCAP), hosted at SAMS

The NERC-run Strategic Ocean Funding Initiative (SOFI) provides additional support to the programme by funding additional research projects and studentships that closely complement the Oceans 2025 programme, primarily through universities.

What is the programme about?

Oceans 2025 sets out to address some key challenges that face the UK as a result of a changing marine environment. The research funded through the programme sets out to increase understanding of the size, nature and impacts of these changes, with the aim to:

• improve knowledge of how the seas behave, not just now but in the future;
• help assess what that might mean for the Earth system and for society;
• assist in developing sustainable solutions for the management of marine resources for future generations;
• enhance the research capabilities and facilities available for UK marine science.

In order to address these aims there are nine science themes supported by the Oceans 2025 programme:

• Climate, circulation and sea level (Theme 1)
• Marine biogeochemical cycles (Theme 2)
• Shelf and coastal processes (Theme 3)
• Biodiversity and ecosystem functioning (Theme 4)
• Continental margins and deep ocean (Theme 5)
• Sustainable marine resources (Theme 6)
• Technology development (Theme 8)
• Next generation ocean prediction (Theme 9)
• Integration of sustained observations in the marine environment (Theme 10)

In the original programme proposal there was a theme on health and human impacts (Theme 7). The elements of this Theme have subsequently been included in Themes 3 and 9.

When is the programme active?

The programme started in April 2007 with funding for 5 years.

Brief summary of the programme fieldwork/data

Programme fieldwork and data collection are to be achieved through:

• physical, biological and chemical parameters sampling throughout the North and South Atlantic during collaborative research cruises aboard NERC's research vessels RRS Discovery, RRS James Cook and RRS James Clark Ross;
• the Continuous Plankton Recorder being deployed by SAHFOS in the North Atlantic and North Pacific on 'ships of opportunity';
• physical parameters measured and relayed in near real-time by fixed moorings and ARGO floats;
• coastal and shelf sea observatory data (Liverpool Bay Coastal Observatory (LBCO) and Western Channel Observatory (WCO)) using the RV Prince Madog and RV Quest.

The data is to be fed into models for validation and future projections. Greater detail can be found in the Theme documents.

Data Activity or Cruise Information

Cruise

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:

SeaDataNet Quality Control Flags

The following single character qualifying flags may be associated with one or more individual parameters with a data cycle: