Metadata Report for BODC Series Reference Number 1860372
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
Data Description |
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Data Identifiers |
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Time Co-ordinates(UT) |
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Spatial Co-ordinates | |||||||||||||||||||||||||||||||||
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Parameters |
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Definition of BOTTFLAG | |||||||||||||||||||||||||||||||||
| BOTTFLAG | Definition |
|---|---|
| 0 | The sampling event occurred without any incident being reported to BODC. |
| 1 | The filter in an in-situ sampling pump physically ruptured during sample resulting in an unquantifiable loss of sampled material. |
| 2 | Analytical 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. |
| 3 | The 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. |
| 4 | During 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. |
| 5 | Water was reported to be escaping from the bottle as the rosette was being recovered. |
| 6 | The bottle seals were observed to be incorrectly seated and the bottle was only part full of water on recovery. |
| 7 | Either 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). |
| 8 | There is reason to doubt the accuracy of the sampling depth associated with the sample. |
| 9 | The bottle air vent had not been closed prior to deployment giving rise to a risk of sample contamination through leakage. |
Definition of Rank |
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Problem Reports
No Problem Report Found in the Database
Data Access Policy
Open Data supplied by Natural Environment Research Council (NERC)
You must always use the following attribution statement to acknowledge the source of the information: "Contains data supplied by Natural Environment Research Council."
Narrative Documents
Niskin Bottle
The Niskin bottle is a device used by oceanographers to collect subsurface seawater samples. It is a plastic bottle with caps and rubber seals at each end and is deployed with the caps held open, allowing free-flushing of the bottle as it moves through the water column.
Standard Niskin
The standard version of the bottle includes a plastic-coated metal spring or elastic cord running through the interior of the bottle that joins the two caps, and the caps are held open against the spring by plastic lanyards. When the bottle reaches the desired depth the lanyards are released by a pressure-actuated switch, command signal or messenger weight and the caps are forced shut and sealed, trapping the seawater sample.
Lever Action Niskin
The Lever Action Niskin Bottle differs from the standard version, in that the caps are held open during deployment by externally mounted stainless steel springs rather than an internal spring or cord. Lever Action Niskins are recommended for applications where a completely clear sample chamber is critical or for use in deep cold water.
Clean Sampling
A modified version of the standard Niskin bottle has been developed for clean sampling. This is teflon-coated and uses a latex cord to close the caps rather than a metal spring. The clean version of the Levered Action Niskin bottle is also teflon-coated and uses epoxy covered springs in place of the stainless steel springs. These bottles are specifically designed to minimise metal contamination when sampling trace metals.
Deployment
Bottles may be deployed singly clamped to a wire or in groups of up to 48 on a rosette. Standard bottles 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.
Turner Designs Trilogy Fluorometer
The Trilogy Laboratory Fluorometer is a compact laboratory instrument for making fluorescence, absorbance and turbidity measurements using the appropriate snap-in Application Module.
The following snap-in application modules are available:
| Application | Minimum Detection Limit | Linear Range | Comments | |
|---|---|---|---|---|
| Ammonium | 0.05µmol | 0-50µmol | ||
| CDOM/FDOM | 0.1 ppb | 0 - 1000 ppb | Quinine sulphate | |
| Chlorophyll-a extracted (acidification) | 0.025 µg l-1 | 0-300 µg l-1 | ||
| Chlorophyll-a extracted (non-acidification) | 0.025 µg l-1 | 0-300 µg l-1 | ||
| Chlorophyll in vivo | 0.025 µg l-1 | 0-300 µg l-1 | ||
| Fluorescein dye standard range | 0.01 ppb | 0-200 ppb | ||
| Fluorescein dye extended range | 0.75 ppb | 0-8000 ppb | Minicell adapter P/N 8000-936 and P/N 7000-950 required | |
| Histamine | 0.001 ppm | 0-100 ppm | ||
| Histamine (PTSA) | 0.5 ppm | 0-2,000 ppm | ||
| Nitrate (absorbance) | 0.04 mg l-1 | 0 - 14 mg l-1 | ||
| Crude Oil | 0.2 ppb | 0 - 2,000 ppb | Quinine sulphate | |
| Refined Oil | 0.25 ppb | 0 - 6,000 ppb Napthalene | 1,5 Naphthalene disulfonic disodium salt | |
| Optical Brighteners | 1 ppb | 0 - 10,000 ppb | Quinine sulphate | |
| Phosphate (absorbance) | 1 µg l-1 | 0 - 930 µg l-1 | ||
| Phycocyanin (freshwater) | 150 cells ml-1 | 0 - 150,000 cells ml-1 | ||
| Phycoerythrin (marine) | 150 cells ml-1 | 0 - 150,000 cells ml-1 | ||
| Pyrene tetra sulfonic acid (PTSA) | 0.1 ppb | >10,000 ppb | ||
| Rhodamine WT | 0.01 ppb | 0 - 500 ppb | ||
| Silicate (absorbance) | 3 µg l-1 | 0 - 3000 µg l-1 | ||
| Turbidity | 0.05 NTU | 0 - 1000 NTU |
For extracted chlorophyll measurements using EPA 445, Trilogy automatically calculates the concentration using the filtered and solvent volumes. The turbidity modules use an IRLED with a wavelength of 860nm to meet ISO 7027 standards for turbidity water quality measurements.
Specifications
| Power | 100 to 240VAC Universal Power Supply, Output 12VDC 0.84A Max |
|---|---|
| Operating Temperature | 15-40 °C |
| Size | 32.82 cm depth, 26.52 cm width, 21.39 height |
| Weight | 3.65 kg |
| Readout | Direct concentration (µg l-1, ppb etc.) |
| Light source and detector | Light emitting diode and photodiode |
| Data output | 100% ASCII format through a 9-pin RS-232 serial cable at 9600 baud |
| PC operating system | Windows 98 or later |
Further details can be found in the manufacturer's specification sheet.
UKOA JR20120601/JR271 chlorophyll-a (total and size-fractionated) concentrations from CTD bottle samples
Originator's Protocol for Data Acquisition and Analysis
Aliquots of 100 mL from 6 depths were filtered onto 25 mm Glass Fiber (GF/F) filters. In addition 100 mL was filtered from one depth (corresponding to the one chosen for primary production measurement) on 10 µm pore size polycarbonate filters. All filters were extracted in 90% acetone for 24 h, and chlorophyll a quantified with a Turner Designs Trilogy fluorometer according to Welschmeyer (1994) . Final chlorophyll a concentrations were obtained via calibration against a solid standard as referenced against dilutions of a solution of pure chlorophyll a (Sigma, UK) in 90% acetone.
References
Welschmeyer, N.A. 1994. Fluorometric analysis of chlorophyll a in the presence of chlorophyll b and pheopigments. Limnology and Oceanography, 39 (8), p. 1985-1992.
Instrumentation Description
Turner Designs Trilogy fluorometer
BODC Data Processing Procedures
Data were submitted via email in an Excel spreadsheet archived under BODC's accession number SOC140014. Sample metadata (CTD cast, depth and Niskin number) were checked against information held in the database. There were no discrepancies.
The concentration data were provided in micrograms per litre. These units are equivalent to the BODC parameter code units (milligrams per cubic metre) so no unit conversion was applied.
The data were reformatted and loaded in BODC's samples database under Oracle Relational Database Management System. Data were marked up with BODC parameter codes and loaded into the database.
A parameter mapping table is provided below;
| Originator's Parameter | Units | Description | BODC Parameter Code | Units | Comments |
|---|---|---|---|---|---|
| Chl-a (total) | µg l-1 | Concentration of chlorophyll-a {chl-a} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and fluorometry | CPHLFLP1 | mg m-3 | n/a |
| Chl-a (total) standard deviation | µg l-1 | Concentration standard deviation of chlorophyll-a {chl-a} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and fluorometry | CLSDFLP1 | mg m-3 | n/a |
| Chl-a (>10) | µg l-1 | Concentration of chlorophyll-a {chl-a} per unit volume of the water body [particulate >10µm phase] by filtration, acetone extraction and fluorometry | SCHLFLPO | mg m-3 | n/a |
Data Quality Report
There were no comments provided on the data quality.
Problem Report
Not relevant to this data set.
Project Information
UKOARP Theme B: Ocean acidification impacts on sea surface biology, biogeochemistry and climate
The overall aim of this theme is to obtain a quantitative understanding of the impact of ocean acidification (OA) on the surface ocean biology and ecosystem and on the role of the surface ocean within the overall Earth System.
The aims of the theme are:
- To ascertain the impact of OA on planktonic organisms (in terms of physiological impacts, morphology, population abundances and community composition).
- To quantify the impacts of OA on biogeochemical processes affecting the ocean carbon cycle (both directly and indirectly, such as via availability of bio-limiting nutrients).
- To quantify the impacts of OA on the air-sea flux of climate active gases (DMS and N2O in particular).
The main consortium activities will consist of in-situ measurements on three dedicated cruises, as well as on-deck bioassay experiments probing the response of the in-situ community to elevated CO2. Most of the planned work will be carried out on the three cruises to locations with strong gradients in seawater carbon chemistry and pH; the Arctic Ocean, around the British Isles and the Southern Ocean.
Weblink: http://www.oceanacidification.org.uk/research_programme/surface_ocean.aspx
Data Activity or Cruise Information
Data Activity
| Start Date (yyyy-mm-dd) | 2012-06-22 |
| End Date (yyyy-mm-dd) | 2012-06-22 |
| Organization Undertaking Activity | Scottish Association for Marine Science |
| Country of Organization | United Kingdom |
| Originator's Data Activity Identifier | JR20120601_CTD_CTD045s |
| Platform Category | lowered unmanned submersible |
BODC Sample Metadata Report for JR20120601_CTD_CTD045s
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|
| 760100 | 20.00 | 1 | 1 | 506.70 | 507.40 | 500.40 | Niskin bottle | No problem reported | ||
| 760103 | 20.00 | 2 | 2 | 506.70 | 507.40 | 500.40 | Niskin bottle | No problem reported | ||
| 760106 | 20.00 | 3 | 3 | 354.10 | 354.40 | 349.50 | Niskin bottle | No problem reported | ||
| 760109 | 20.00 | 4 | 4 | 354.00 | 354.60 | 349.60 | Niskin bottle | No problem reported | ||
| 760112 | 20.00 | 5 | 5 | 152.20 | 152.60 | 150.00 | Niskin bottle | No problem reported | ||
| 760115 | 20.00 | 6 | 6 | 151.80 | 152.70 | 149.90 | Niskin bottle | No problem reported | ||
| 760118 | 20.00 | 7 | 7 | 91.10 | 92.20 | 89.90 | Niskin bottle | No problem reported | ||
| 760121 | 20.00 | 8 | 8 | 91.30 | 91.80 | 89.80 | Niskin bottle | No problem reported | ||
| 760124 | 20.00 | 9 | 9 | 60.90 | 61.70 | 59.90 | Niskin bottle | No problem reported | ||
| 760127 | 20.00 | 10 | 10 | 61.20 | 61.60 | 60.00 | Niskin bottle | No problem reported | ||
| 760130 | 20.00 | 11 | 11 | 37.00 | 37.40 | 36.10 | Niskin bottle | No problem reported | ||
| 760133 | 20.00 | 12 | 12 | 37.00 | 37.60 | 36.20 | Niskin bottle | No problem reported | ||
| 760136 | 20.00 | 13 | 13 | 37.20 | 37.50 | 36.20 | Niskin bottle | No problem reported | ||
| 760139 | 20.00 | 14 | 14 | 36.90 | 37.60 | 36.10 | Niskin bottle | No problem reported | ||
| 760142 | 20.00 | 15 | 15 | 20.70 | 21.30 | 20.00 | Niskin bottle | No problem reported | ||
| 760145 | 20.00 | 16 | 16 | 20.70 | 21.30 | 20.00 | Niskin bottle | No problem reported | ||
| 760148 | 20.00 | 17 | 17 | 20.70 | 21.20 | 20.00 | Niskin bottle | No problem reported | ||
| 760151 | 20.00 | 18 | 18 | 20.80 | 21.20 | 20.00 | Niskin bottle | No problem reported | ||
| 760154 | 20.00 | 19 | 19 | 15.80 | 16.70 | 15.30 | Niskin bottle | No problem reported | ||
| 760157 | 20.00 | 20 | 20 | 16.00 | 16.20 | 15.20 | Niskin bottle | No problem reported | ||
| 760160 | 20.00 | 21 | 21 | 15.90 | 16.20 | 15.10 | Niskin bottle | No problem reported | ||
| 760163 | 20.00 | 22 | 22 | 15.90 | 16.20 | 15.10 | Niskin bottle | No problem reported | ||
| 760166 | 20.00 | 23 | 23 | 5.20 | 6.30 | 4.90 | Niskin bottle | No problem reported | ||
| 760169 | 20.00 | 24 | 24 | 5.70 | 6.30 | 5.20 | Niskin bottle | No problem reported |
Please note:the supplied parameters may not have been sampled from all the bottle firings described in the table above. Cross-match the Sample Reference Number above against the SAMPRFNM value in the data file to identify the relevant metadata.
Cruise
| Cruise Name | JR20120601 (JR271) |
| Departure Date | 2012-06-01 |
| Arrival Date | 2012-07-02 |
| Principal Scientist(s) | Ray Leakey (Scottish Association for Marine Science) |
| Ship | RRS James Clark Ross |
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 |
