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Metadata Report for BODC Series Reference Number 2138485


Metadata Summary

Data Description

Data Category Water sample data
Instrument Type
NameCategories
Niskin bottle  discrete water samplers
Turner Designs Trilogy fluorometer  bench fluorometers
Instrument Mounting lowered unmanned submersible
Originating Country United Kingdom
Originator Ms Anna Rumyantseva
Originating Organization University of Southampton School of Ocean and Earth Science
Processing Status banked
Online delivery of data Download available - Ocean Data View (ODV) format
Project(s) OSMOSIS
 

Data Identifiers

Originator's Identifier JC090_CTD_PIGX_4341:JC090_002
BODC Series Reference 2138485
 

Time Co-ordinates(UT)

Start Time (yyyy-mm-dd hh:mm) 2013-09-03 19:50
End Time (yyyy-mm-dd hh:mm) -
Nominal Cycle Interval -
 

Spatial Co-ordinates

Latitude 48.68029 N ( 48° 40.8' N )
Longitude 16.19081 W ( 16° 11.4' W )
Positional Uncertainty 0.05 to 0.1 n.miles
Minimum Sensor or Sampling Depth 5.7 m
Maximum Sensor or Sampling Depth 100.0 m
Minimum Sensor or Sampling Height 4713.4 m
Maximum Sensor or Sampling Height 4807.7 m
Sea Floor Depth 4813.4 m
Sea Floor Depth Source BUDS
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
 

Parameters

BODC CODERankUnitsTitle
ADEPZZ011MetresDepth (spatial coordinate) relative to water surface in the water body
BOTTFLAG1Not applicableSampling process quality flag (BODC C22)
CPHLFLP11Milligrams per cubic metreConcentration of chlorophyll-a {chl-a CAS 479-61-8} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and fluorometry
CPHLFLP61Milligrams per cubic metreConcentration of chlorophyll-a {chl-a CAS 479-61-8} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and fluorometry and summation of size-fractionated values
FIRSEQID1DimensionlessBottle firing sequence number
ROSPOSID1DimensionlessBottle rosette position identifier
SAMPRFNM1DimensionlessSample reference number
SCHLFLPO1Milligrams per cubic metreConcentration of chlorophyll-a {chl-a CAS 479-61-8} per unit volume of the water body [particulate >10um phase] by filtration, acetone extraction and fluorometry

Definition of BOTTFLAG

BOTTFLAGDefinition
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

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.

JC090 chlorophyll a sampling document

Originator's protocol for data acquisition

The following contains extracts from the JC090 cruise report.

The RRS James Cook 090 cruise was the concluding phase of the fieldwork for the Ocean Surface Mixing, Ocean Sub-mesoscale Interaction Study (OSMOSIS) consortium and sought to recover 9 moorings and 2 gliders to conduct hydrographic and biogeochemical measurements for mooring and glider calibration, and to obtain opportunistic measurements of upper-ocean microstructure and air-sea CO2 fluxes. The cruise departed on the 30 August 2013 from the port of Vigo, Spain and returned on the 17 September 2013 at the port of Santander, Spain.

Sample collection

A CTD rosette was used for collecting water samples from various depths between the surface and 200 m. The rosette had 24 Niskin bottles with a 20 litre capacity. Samples were also collected from the ships underway system (~ 5 m depth) approximately every 6 hours starting at 11:00 hours (GMT) on 02 Sep 2013 and finishing at 17:00 hours (GMT) on 13 Sep 2013.

Onboard analysis was conducted for chlorophyll samples only.

Chlorophyll a samples were collected from Niskin bottles. These were fired at depths between 100 m and the surface. Chlorophyll a samples were also taken from the ships underway. Water samples collected were always analysed for estimation of total chlorophyll concentration and community size fractionation. Size fractionation of chlorophyll samples was conducted in order to determine the ratio between microphytoplankton (> 10 µm) as well as pico- and nano phytoplankton (< 10 µm).

Chlorophyll a greater than 10 µm.

A 25 mm 10 µm polycarbonate filter was placed into a filtration unit and 250 ml wass measured and poured into the filtration unit. The polycarbonate filter was gently removed and placed sample side up in a 20 ml glass vial. 8 ml of 90% acetone was added and left in a fridge for 18-20 hours.

Chlorophyll a less than 10 µm.

The samples were filtered through a 25 mm GF/F filter using the 6-port filtration rig. The filter was then gently removed and placed sample side up in a 20 ml glass vial. 8 ml of 90% acetone was added and left in a fridge for 18-20 hours.

Total Chlorophyll a

A 25 mm filter was placed into a 6-port chlorophyll rig and 250 ml of seawater was measured and filtered under gentle vacuum. The filter was then gently removed and placed in a 20 ml glass vial. 8 ml of 90% acetone was added and left in a fridge at 4°C for 18-20 hours in a dark box.

Sample analysis

After 18-20 hours of refrigeration the chlorophyll samples were analysed with a fluorometer.

BODC data processing procedures

The chlorophyll data were supplied to BODC in Microsoft Excel format and values were extracted for loading into BODC's ocean database under the ORACLE Relational Database Management System. Data that were considered unrealistic were flagged suspect.

Content of data series

Originator's Parameter Unit Description BODC Parameter code BODC Unit Comments
Total Chlorophyll a (CTD and underway samples) mg/m3 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/m3 N/A
>10 µm Chlorophyll-a mg/m3 Concentration of chlorophyll-a {chl-a} per unit volume of the water body [particulate >10 µm phase] by filtration, acetone extraction and fluorometry SCHLFLPO mg/m3 N/A
<10 µm Chlorophyll-a mg/m3 Concentration of chlorophyll-a {chl-a} per unit volume of the water body [particulate >GF/F phase] by filtration, acetone extraction and fluorometry and summation of size-fractionated values CPHLFLP6 mg/m3 N/A

Data quality report

No problems reported and no significant issues encountered during BODC data banking procedures.

References

Naveira-Garabato A. et al. (2013). 'Ocean Surface Mixing, Ocean Sub-mesoscale Interaction Study (OSMOSIS)'. Cruise Report No. 25 National Oceanography Centre, Southampton.


Project Information

Ocean Surface Mixing, Ocean Sub-mesoscale Interaction Study (OSMOSIS)

Background

The Ocean Surface Mixing, Ocean Sub-mesoscale Interaction Study (OSMOSIS) consortium was funded to deliver NERC's Ocean Surface Boundary Layer (OSBL) programme. Commencing in 2011, this multiple year study will combine traditional observational techniques, such as moorings and CTDs, with the latest autonomous sampling technologies (including ocean gliders), capable of delivering near real-time scientific measurements through the water column.

The OSMOSIS consortium aims to improve understanding of the OSBL, the interface between the atmosphere and the deeper ocean. This layer of the water column is thought to play a pivotal role in global climate and the productivity of our oceans.

OSMOSIS involves collaborations between scientists at various universities (Reading, Oxford, Bangor, Southampton and East Anglia) together with researchers at the National Oceanography Centre (NOC), Scottish Association for Marine Science (SAMS) and Plymouth Marine Laboratory (PML). In addition, there are a number of project partners linked to the consortium.

Scientific Objectives

  • The primary goal of the fieldwork component of OSMOSIS is to obtain a year-long time series of the properties of the OSBL and its controlling 3D physical processes. This is achieved with an array of moorings (two nested clusters of 4 moorings, each centred around a central mooring) and gliders deployed near the Porcupine Abyssal Plain (PAP) observatory. Data obtained from this campaign will help with the understanding of these processes and subsequent development of associated parameterisations.
  • OSMOSIS will attempt to create parameterisations for the processes which determine the evolving stratification and potential vorticity budgets of the OSBL.
  • The overall legacy of OSMOSIS will be to develop new (physically based and observationally supported) parameterisations of processes that deepen and shoal the OSBL, and to implement and evaluate these parameterisations in a state-of-the-art global coupled climate model, facilitating improved weather and climate predictions.

Fieldwork

Three cruises are directly associated with the OSMOSIS consortium. Preliminary exploratory work in the Clyde Sea (September 2011) to hone techniques and strategies, followed by a mooring deployment and recovery cruise in the vicinity of the Porcupine Abyssal Plain (PAP) observatory (in late Summer 2012 and 2013 respectively). Additional opportunist ship time being factored in to support the ambitious glider operations associated with OSMOSIS.

Instrumentation

Types of instrumentation and measurements associated with the OSMOSIS observational campaign:

  • Ocean gliders
  • Wave rider buoys
  • Towed SeaSoar surveys
  • Microshear measurements
  • Moored current meters, conductivity-temperature sensors and ADCPs
  • Traditional shipboard measurements (including CTD, underway, discrete nutrients, LADCP, ADCP).

Contacts

Collaborator Organisation
Prof. Stephen Belcher University of Reading, U.K
Dr. Alberto C Naveira Garabato University of Southampton, U.K

Data Activity or Cruise Information

Data Activity

Start Date (yyyy-mm-dd) 2013-09-03
End Date (yyyy-mm-dd) 2013-09-03
Organization Undertaking ActivityUniversity of Southampton School of Ocean and Earth Science
Country of OrganizationUnited Kingdom
Originator's Data Activity IdentifierJC090_CTD_JC090_002
Platform Categorylowered unmanned submersible

BODC Sample Metadata Report for JC090_CTD_JC090_002

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
886811   20.00 1 1  200.70  201.70  199.40 Niskin bottle No problem reported    
886814   20.00 3 3  151.50  152.50  150.70 Niskin bottle No problem reported    
886817   20.00 4 4  101.10  102.10  100.70 Niskin bottle No problem reported    
886820   20.00 5 5  100.40  101.40  100.00 Niskin bottle No problem reported    
886823   20.00 6 6   75.80   76.80   75.60 Niskin bottle No problem reported    
886826   20.00 7 7   75.80   76.80   75.60 Niskin bottle No problem reported    
886829   20.00 8 8   60.40   61.40   60.40 Niskin bottle No problem reported    
886907   20.00 9 9   60.00   61.00   60.00 Niskin bottle No problem reported    
886910   20.00 10 10   50.50   51.50   50.60 Niskin bottle No problem reported    
886913   20.00 11 11   50.50   51.50   50.60 Niskin bottle No problem reported    
886916   20.00 13 13   43.80   44.80   43.90 Niskin bottle No problem reported    
886919   20.00 17 17   30.40   31.40   30.60 Niskin bottle No problem reported    
886922   20.00 21 21   10.00   11.00   10.40 Niskin bottle No problem reported    
886925   20.00 23 23    5.10    6.10    5.60 Niskin bottle No problem reported    
906887   20.00 2 2  151.10  152.10  150.30 Niskin bottle No problem reported    
906890   20.00 12 12   50.30   51.30   50.40 Niskin bottle No problem reported    
906893   20.00 14 14   43.50   44.50   43.60 Niskin bottle Bottle misfire    
906896   20.00 15 15   43.40   44.40   43.50 Niskin bottle No problem reported    
906899   20.00 16 16   30.10   31.10   30.30 Niskin bottle No problem reported    
906902   20.00 18 18   30.30   31.30   30.50 Niskin bottle No problem reported    
906905   20.00 19 19   20.40   21.40   20.70 Niskin bottle No problem reported    
906908   20.00 20 20   19.90   20.90   20.20 Niskin bottle No problem reported    
906911   20.00 22 22   10.50   11.50   10.90 Niskin bottle No problem reported    
906914   20.00 24 24    5.20    6.20    5.70 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.

Related Data Activity activities are detailed in Appendix 1

Cruise

Cruise Name JC090
Departure Date 2013-08-31
Arrival Date 2013-09-16
Principal Scientist(s)Alberto C Naveira Garabato (University of Southampton School of Ocean and Earth Science)
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: JC090_CTD_JC090_002

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
2138577Water sample data2013-09-03 19:50:1648.68029 N, 16.19081 WRRS James Cook JC090
2138621Water sample data2013-09-03 19:50:1648.68029 N, 16.19081 WRRS James Cook JC090