You are viewing an old version of this page. View the current version.

Compare with Current View Page History

« Previous Version 11 Next »

Introduction


The principles of spectroscopic analysis rely on Beer's law. The principle of Beer's law is that passing light of a known wavelength through a sample of known thickness and measuring how much of the light is absorbed at that wavelength will provide the concentration of the unknown, provided that the unknown is in a complex that absorbs significantly at the chosen wavelength.
Beer's law, expressed for liquids, can be represented as an equation, where A = absorbance, k = an experimentally determined constant, b = path length, and c = concentration:
A = kbc.
Thus, concentration can be determined.
IODP's Agilent Cary 100 double-beam UV-Vis (ultraviolet–visible) spectrophotometer is ideal for shipboard routine and research laboratory work. The system measures analytes in interstitial water obtained from sediment cores using standard colorimetric methodology.


Hardware and Materials


The Varian Cary 100 is a double-beam, dual-chopper, monochromator UV-Vis spectrophotometer, centrally controlled by a PC. It has a high-performance R928 photomultiplier tube, tungsten halogen visible source with quartz window, and deuterium arc ultraviolet source (Figure 1). More details can be found below.


Name

Agilent Technologies Cary UV-Vis Spectrophotometer

Model

Cary-100

Serial number

UV1110M021

Dimensions

26 × 26 × 13 in (unpacked)

Weight

99 lb (unpacked)

Monochromator

Czerny-Turner 0.28 m

Grating

30 × 35 mm, 1200 lines/mm, blaze angle 8.6° at 240 nm

Beam Splitting System

Chopper (30 Hz)

Detectors

R928 PMT

UV-Vis Limiting Resolution (nm)

0.189

Wavelength Range (nm)

190–900

Wavelength Accuracy (nm)

0.02 at 656.1 nm; 0.04 at 486.0 nm

Wavelength Reproducibility (nm)

0.008

Signal Averaging (s)

0.033–999

Spectral Bandwidth (nm)

0.20–4.00 nm, 0.1 nm steps, motor driven

Spectral Bandwidth Accuracy (nm)

@ 0.2: 0.193; @ 2.0: 2.03

Photometric Accuracy (Abs)

@ 0.3 Abs (Double Aperture method): 0.00016

Photometric Range (Abs)

3.7

Photometric Display

(Abs) ± 9.9999; (%T) ± 200.00

Photometric Reproducibility

(Abs; NIST 930D filters)

2 s signal averaging time @ 590 nm, 2 nm SBW
Maximum deviation at 1 Abs
Std dev for 10 measurements


<0.0008
<0.00016

2 s signal averaging time @ 546.1 nm, 2 nm SBW
Maximum deviation at 0.5 Abs
Std dev for 10 measurements


<0.0004
<0.00008

Photometric Stability (Abs/hr)
500 nm, 1 s signal averaging time

2 h warmup
<0.0003

Photometric Noise (Abs, RMS)
500 nm, 1 s signal averaging time

2 nm SBW
0.000030 at 0 Abs; 0.00014 at 3 Abs, 1.5 Abs RBA

Baseline Flatness (Abs)
200–850 nm, smoothing = 21, baseline corrected

0.00022

Sample Compartment Beam Separation (mm)

110





Figure 1. Schematic of Cary Spectrophotometer.


Electrical


Power supply (VAC)

100, 120, 220, or 240 ± 10%

Frequency (Hz)

50 or 60 ± 1 with 400 VA power consumption

Fuses (100–120 VAC)

T5 AH 250 V, IEC 127 sheet 5, 5 × 20 mm ceramic

COM port (rear)

IEEE 488

PC port

USB




Replacement Parts


Item

Part number

Instrument fuse, 5 A time lag, ceramic, M205

1910009100

Peristaltic pump tubing replacement kit

9910052900

Visible source lamp

5610021700

Deuterium lamp

5610021800

Dissolution cell, 715 µL, 10 mm

6610015200

Thumbscrew kit

9910064100

Spares kit: accessory locating pin, accessory fastening screws, instrument feet, instrument cover snap cap washer, snap cap, ACB cover plate, socket covers for ACB

9910064300




Pumps


A double-action peristaltic pump services the feed and waste (Figure 2).

Figure 2. Peristaltic pump. (1) plastic sleeve. (2) metal hook tubing. (3) waste outlet.


Computer Control


An external computer workstation provides control, communication, and data analysis.


Software


Agilent provides a full suite of applications for various user requirements; for our needs we use the Simple Reads application. Simple Reads is used to perform simple absorbance readings of single samples. There is, however, a built-in programming language, Applications Development Language (ADL), which allows complete customization of Cary WinUV to specific applications.


Methods


The described methods are based on ODP Technical Note 15, Chemical Methods for Interstitial Water Analysis Aboard the JOIDES Resolution, Aug 1991; J.M. Gieskes, T. Gamo, and H. Brumsack.


Ammonium


Determination of ammonium concentration is of importance because this constituent is an indicator of diagenesis of organic matter in the sediments. The onset of sulfate reduction coincides with initiation of ammonium ion production. Ammonium production increases strongly in the zone of methanogenesis, presumably as a result of associated deammonification reactions. The large potential variation in ammonium concentrations, therefore, suggests that a few preliminary ammonium concentrations should be run in order to set limits to the sample dilution and range of standards to be used. Suggestions for this follow below.
The methodology is based on Solorzano (1969), originally developed to detect very small NH4+ concentrations in seawater. Although background contamination problems in seawater are enormous, the relatively high concentrations of ammonium in pore fluids (as high as 85 mM in ODP Leg 112 samples; Kastner et al., 1990) minimizes this problem when matrix blanks are run along with the samples. In areas of low sedimentation, however, very low ammonium concentrations require careful sample handling to avoid this problem.
Laboratory contamination of ammonium samples can also be problematic, and the use or storage of NH4OH or ammonitated compounds near samples or ammonium method reagents should be done with due caution.
The ammonium method is based on diazotization of phenol and subsequent oxidation of the diazo compound by Chlorox™ to yield a blue color, measured spectrophotometrically at 640 nm.


Reagent Solutions


A: 95% Ethanol (100 mL) – make fresh daily


B: Phenol solution (100 mL) – make fresh daily


Dissolve 1 mL of liquefied phenol (equivalent to ~800 mg crystalline phenol) in 100 mL of 95% ethanol (Reagent A). If working with crystalline phenol, warm the phenol and deliver 1 mL of liquefied phenol to 100 mL Reagent A. Note: phenol is highly toxic and appropriate care should be taken.


C: Sodium Nitroprusside/Sodium Nitroferricyanide solution (1200 mL) – make fresh daily





D: Alkaline solution (500 mL) – make fresh monthly


Dissolve 7.5 g trisodium citrate (Na3C6H5O7) and 0.4 g sodium hydroxide (NaOH) in 500 mL nanopure water.


E: Oxidizing solution (50 mL) – make fresh daily


Dissolve 1 mL fresh sodium hypochlorite (4% available chlorine) in 50 mL alkaline solution (Reagent D). Note: Use sodium hypochlorite or regular strength Chlorox™ bleach. DO NOT use Chlorox that contains NaOH, fragrances, or other agents, and do not use another brand of bleach.


F: Ammonium standard: 0.10 M Ammonium (1000 mL) – make fresh monthly


a.

Dry ammonium chloride (NH4Cl) in oven overnight, then dissolve 5.345 g dried NH4Cl in nanopure water; bring to 1000 mL in a volumetric flask.

b.

Alternatively, use non-dried NH4Cl and determine the chloride content of the standard solution by means of chloride titration. For reasonable accuracy, use a 500 µL aliquot (Cl = 0.1 NM) to obtain almost the same concentration of Cl as in IAPSO reference standard seawater.




Standards


50 mL batches are stable for 1 month. (Note that the 50 µM solution is prepared from the 1000 µM standard, and the rest of the standards are made from the 100 mM primary stock standard.)


concentration
(µM)

volume of nanopure water
(mL)

volume of standard
(mL)

note

0

50.00

0

 

50

47.50

2.50

(dilute from 1000 µM std)

100

49.95

0.05

(dilute from 100 mM std)

200

49.90

0.10

(dilute from 100 mM std)

400

49.80

0.20

(dilute from 100 mM std)

600

49.70

0.30

(dilute from 100 mM std)

800

49.60

0.40

(dilute from 100 mM std)

1000

49.50

0.50

(dilute from 100 mM std)

1500

49.25

0.75

(dilute from 100 mM std)

2000

49.00

1.00

(dilute from 100 mM std)

3000

48.50

1.50

(dilute from 100 mM std)




Procedure


Concentrations of ammonium may differ occur at different sites. Typically in areas with strong evidence of organic carbon diagenesis (e.g., organic carbon–rich sediments), high concentrations of NH4+ can be expected. In that case, sample aliquots must be made appropriately small or sample dilution may be required. The range can be established by using a sample near the alkalinity maximum. Once the range has been determined, prepare standards that cover this range. In this manner, samples and standards are treated in a similar way.
The high range of the instrument is 3.0 Absorbance units (Abs). The results are linear up to this point. If the readings are expected to be higher than 3.0 Abs, use a sample volume of 30 µL instead of 100 µL and divide measured concentrations by 0.3 to arrive at the final sample concentration.
Care should be taken to use clean vials, preferably not those used for Si and PO4 determinations, in which ammonium molybdate is used as a reagent. Note: The order of dilution matters, so do not change this order. Shake samples after EACH addition.


1.

Transfer 200 µL of sample to an 8 mL glass vial.

2.

Add 2 mL of nanopure water to each vial and shake.

3.

Add 1 mL phenol-alcohol solution to each vial and shake.

4.

Add 1 mL sodium nitroprusside to each vial and shake.

5.

Add 2 mL of oxidizing solution to each vial and shake.

6.

Let the color develop (in a dark place) for 6.5 hr* and then determine the absorbance at 640 nm wavelength.


*(from a series of measurements over 8 h, it was found that results stabilized after 6.5 hr.)


Phosphate


Determination of dissolved phosphate, particularly in rapidly deposited organic carbon–rich sediments, is important in the shipboard analytical program. Phosphate concentrations may vary considerably, and it is therefore advisable to obtain a preliminary idea of the concentration ranges to be expected. This can most easily be accomplished by taking samples in the region of maximum alkalinities. Typically if alkalinities are >30 mM, dissolved phosphate concentrations may be >100 µM; thus, only very small sample aliquots will be needed to establish the concentration range.
This method is, in essence, the colorimetric method from Strickland and Parsons (1968) as modified by Presley (1971) for DSDP pore fluids. Orthophosphate reacts with Mo(VI) and Sb(III) in an acidic solution to form an antimony-phosphomolybdate complex. Ascorbic acid reduces this complex to form a blue color, and absorbance is measured spectrophotometrically at 885 nm.
It is important to note that the concentrations in the final test solution cannot exceed ~10 µM. Thus, for open-ocean (low sedimentation rate, low organic carbon) sediments, one might need to do the determination on 2 mL of sample (expected range 0–10 µM), but in typical continental margin settings, where concentrations can exceed 100–200 µM, a 0.1 or 0.2 mL sample aliquot must be used. The concentration range must be established prior to running samples, and it is highly advisable to make standards that cover the range of concentrations to be expected.
Note: Samples with high silica concentrations may give a false increase in measured concentration of phosphate (http://dx.doi.org/10.1007/BF02071829; S. Noriki, Silicate correction in the colorimetric determination of phosphate in seawater, 1983).


Reagent Solutions


A: Sulfuric Acid solution (1000 mL) – stable indefinitely


While stirring, carefully add 10 mL concentrated H2SO4 to 600 mL nanopure water in a 1000 mL volumetric flask. (Caution: Mixing sulfuric acid (H2SO4{~}) and water produces heat. Take appropriate precautions.) Allow to cool to room temperature before diluting to 1000 mL with reagent water.


B. Antimony Potassium Tartrate solution (1000 mL) – make fresh every two months; store in amber glass @ 4°C

In a 1000 mL volumetric flask, dissolve 0.102 g of antimony potassium tartrate trihydrate (KSbC4H4O7- 3H2O) in ~600 mL of nanopure water. (If using antimony potassium tartrate hemihydrate [KSbC4H4O7- ½H2O], dissolve 0.09 g.) Dilute to 1000 mL with reagent water.



C. Ammonium Molybdate solution (1000 mL) – stable indefinitely; store in polyethylene @ 4°C

In a 1000 mL volumetric flask, dissolve 2 g of ammonium molybdate tetrahydrate ([NH4]6Mo7O24- 4H2O) in ~600 mL of nanopure water. Dilute to 1000 mL with reagent water.


D. Ascorbic Acid solution (1000 mL) – make fresh every week; store in amber glass @ 4°C
In a 1000 mL volumetric flask, dissolve 3.5 g of ascorbic acid (C6H8O6) in ~600 mL nanopure water. Dilute to 1000 mL with nanopure water. Note: If the reagent is discolored upon creation, the dry ascorbic acid is probably oxidized and must be replaced.


E. Mixed reagent (250 mL) – make fresh every 6 hours


Add the following solutions to an appropriate container. Do not add the ascorbic acid reagent until immediately before use. Mix well after each addition to prevent the solution from darkening.


solution

volume (mL)

Ammonium molybdate

50

Sulfuric acid

125

Antimony potassium tartrate

25

Ascorbic acid (immediately before use)

50




F. Primary standard: 0.01 M Phosphorus (1000 mL) – make fresh every 4 weeks; store @ 4°C


Dry monobasic potassium phosphate monobasic (KH2PO4) in oven at 100°C for two hours; keep in a desiccator while it cools before weighing.
In a 1000 mL volumetric flask, dissolve 1.361 g oven-dried KH2PO4 in ~600 mL nanopure water, then dilute this solution to 1000 mL with nanopure water.


Standards


concentration (µM)

volume of primary standard (mL)

volume of reagent water
(mL)

0

0

100

5.0

0.050

99.95

10.0

0.100

99.90

15.0

0.150

99.85

20.0

0.100

49.90

40.0

0.200

49.80

60.0

0.300

49.70

80.0

0.400

49.60

100

0.500

49.50

200

1.000

49.00

300

1.500

48.50




Procedure


1.

Add 2 mL nanopure water to an 8 mL glass vial.

2.

Add 600 µL sample or standard.

3.

Add 4 mL mixed reagent.

4.

Shake well.

5.

After a few minutes a blue color develops, which remains stable for a few hours. It is best to make the readings at 885 nm ~30 min after addition of the mixed reagent.

Note:

Use a smaller aliquot of sample if the result exceeds the linear range of the spectrophotometer, making up the volume with nanopure water. (For example, for a 300 µL aliquot of a sample, add 300 µL nanopure water.)




Silica


Note: Silicon is routinely measured on the ICP, so measurement by spectroscopic analysis can be considered an alternate method.
Dissolved silica determinations are of great importance in interstitial waters. Often they represent the lithology of the sediments, and the concentrations can vary substantially, especially if highly dissolvable phases such as biogenic opal-A, volcanic ash, or smectite are present. Thus, a wide range of concentrations can be expected, typically from 50 to 1200 µM or higher (especially in hydrothermally affected sediments). The method below usually covers the range, although greater dilutions may be appropriate if sediments or sample sizes necessitate this.
This method is based on the production of a yellow silicomolybdate complex. The complex is reduced by ascorbic acid to form molybdenum blue, measured at 812 nm. The blue complex is very stable, which will enable delayed reading of the samples.


Reagent Solutions


A: Sulfuric Acid stock solution (500 mL) – make fresh every month; store in polyethylene


Slowly pour 250 mL of concentrated analytical-grade sulfuric acid into a 500 mL volumetric flask containing 300 200 mL of nanopure water. (Caution: Mixing concentrated sulfuric acid (H2SO4{~}) and water produces heat. Take appropriate precautions.)
Allow to cool to room temperature before diluting to 500 mL with nanopure water.


B. Ammonium Molybdate Tetrahydrate solution (500 mL) – make fresh every month; store in dark polyethylene @ 4°C


In a 500 mL volumetric flask, dissolve 4 g of ammonium molybdate tetrahydrate ((NH4)6Mo7O24·4H2O) in ~300 mL of nanopurewater. Add 12 mL of concentrated (12 N) hydrochloric (HCl) acid, mix, and make up to 500 mL with nanopure water. Note: If a white precipitate forms, make fresh reagent.


C: Metol Sulfite solution (500 mL) – make fresh every month; store in amber glass, tightly sealed @ 4°C

Dissolve 6.0 g anhydrous sodium sulfite, Na2SO3, in a 500 mL volumetric flask. Add 10 g Metol (p-methylaminophenol sulfate [(C7H10NO)2SO4]) and then nanopure water to make the volume to 500 mL. When the Metol has dissolved, filter the solution through a Whatman No. 1 filter paper. Note: This solution may deteriorate quite rapidly and erratically.





D: Oxalic Acid solution (500 mL) – make fresh every month; store in glass

In a 500 mL volumetric flask, shake 50 g of analytical-grade oxalic acid dihydrate [(C2H4O2)- 2H2O] in 500 mL of nanopure water and allow to stand overnight. Let stand overnight. Decant saturated solution of oxalic acid from crystals before use.





E: Reducing solution (150 mL) – make fresh daily


Mix 50 mL reagent C (Metol solution) with 30 mL reagent D supernatant fluid (oxalic acid solution). Add slowly, with mixing, 30 mL reagent A (50% sulfuric acid solution) and bring volume to 150 mL with nanopure water.


F: Synthetic seawater (1000 mL) – make fresh monthly; store in polyethylene


In a 1000 mL volumetric flask dissolve 25 g sodium chloride in 800 mL nanopure water, then add 8 g magnesium sulfate heptahydrate (MgSO4·7H2{~}O). Dilute to 1000 mL with nanopure water.


G. 3000 µM Silica primary standard (1000 mL) – make fresh every 2 months; store in polyethylene


Note: When sodium silicofluoride (Na2SiF6) is dissolved in water, it hydrolyzes to form reactive dissolved silica. Place 1 g of Na2SiF6~ in an open vial and place in a vacuum desiccator overnight to remove excess water. Do not heat.
In a 1000 mL polyethylene volumetric flask, dissolve 0.5642 g dried sodium silicofluoride in ~800 mL nanopure water. Dissolution is slow; allow at least 3 minutes. Dilute the solution to 1000 mL with nanopure water.


Standards


Using a 50 mL volumetric flask, add the following amounts of primary standard to approximately 30 mL of nanopure water and then bring to a total of 50 mL. Store in polyethylene containers.


concentration(µM)

volume of primary standard (mL)

volume of nanopure water (mL)

30

0.5

49.5

60

1.0

49.0

120

2

48.0

240

4

46.0

360

6

44.0

480

8

42.0

600

10

40.0

900

15

35.0

1200

20

30.0




Procedure


Make sure that all reagents are prepared ahead of time. The method has a time factor built in, and therefore it is of great importance to have all necessary reagents ready to go.


1.

Measure 48 mL of nanopure water into the vials (7.63.8 mL for standards and blanks).

2.

For standards and blanks (nanopure), pipette 2400 µL of synthetic seawater into the vials.

3.

Pipette 4200 µL of sample/standard/blank into the vials.

4.

Record time.

5.

Add 24 mL of molybdate solution (reagent B) to the vials. A yellow color will develop; allow to mature for exactly 15 minutes (± 15 s).

6.

Add 36 mL of the reducing solution (reagent E).

7.

Cap the vials and let stand for at least 3 hours.

8.

Read absorbances on the spectrophotometer at 812 nm.


Procedure notes


Do not handle more than about thirty samples at a time in order to ensure that the 15 min time limit can be adhered to. Make sure that there are no large fluctuations in room temperature.

Do not use synthetic seawater in dilutions of the primary standard. This could cause the decrease in reactive silica in a few hours as a result of polymerization reactions.

The reason for adding 400 µL of synthetic seawater to the standards is to maintain a reasonably uniform salt content in relation to the samples, this suppressing a potential salt effect on the method.

It is important to wait at least three hours for the blue color to develop; the higher the concentration, the longer the time. The color remains stable for many hours, and reading after 4–5 hours may, in fact, be a good idea. Again, consistency in time limits is advisable.


Sulfide
The sulfide method is based off a method developed by Cline in 1969. This method called for very large volumes of water (50mL). This method was modified on the BONUS Baltic Gas expedition in 2011 to work with sample volumes in the 1-5mL range.
The method is a bit tricky in that the reagent concentrations change depending on what concentration range your samples fall in:

  • High range: 6-80 uM
  • Low range: 1-10 uM.

All samples need to be preserved during splitting with a 1% Zinc Acetate Solution. It can require a relatively large amount of sample in order to do this analysis.
The high range method uses less sample (~500 µL), but if the sulfide level is below 6 µM, it won't be enough. It may still be worth screening samples with the high-range method in order to conserve interstitial water (IW) sample volume. The low-range method requires 4 mL (8x the amount of sample) but is sensitive down to 1 µM. The scientist will have to determine if consumption of 4 mL, possibly 4.5 mL, of sample is worth obtaining the sulfide concentration.
Reagent Solutions


A: 1% zinc acetate (w/v)
For Standard: Prepare 1 L of 1% zinc acetate by dissolving 10 g zinc acetate dehydrate into about 600 mL DI water in a 1 L volumetric flask. Add 1 mL of concentrated acetic acid, bring up to volume, and mix well.
For Splits: Prepare 100 mL of 1% zinc acetate by dissolving 1.0 g zinc acetate dehydrate into about 60 mL DI water in a 100 mL volumetric flask. Add 100 µL of concentrated acetic acid, bring up to volume, and mix well. Set aside for use on the splits.


B: 1 mM zinc-sulfide standard suspension


Before weighing the sodium sulfide nonahydrate, wash the crystals off with DI water and dry with a clean Kim Wipe to remove the oxidation products from the crystal before weighing. Try to select very small crystals (or break them up) to facilitate accurate weighing. Dissolve 0.20 g of Na2S·9H2O in 1 L of 1% zinc acetate solution (Reagent A). Store in plastic and cool. Shake vigorously each time before using.

Note: It is very difficult to weigh 0.20 g of this reagent accurately because of the size of the crystals. Weigh 0.20 g within 5 mg and then record the mass used on the bottle. The Baltic Gas methods paper (Ferdelman et al., 2011) describes the use of sodium thiosulfate to standardize the Zn-S suspension, but this has not been the standard practice.


C: 100 µM zinc-sulfide standard


Dilute 10 mL of 1 mM zinc-sulfide standard suspension (Reagent B) up to 100 mL with DI water. This is the stock standard for the dilution of the standard curve.


D: High-Range Sulfide Diamine Reagent


For the high-range (6-80 µM) method, add 500 mL of concentrated HCl to 500 mL of DI water. Mix thoroughly and allow to cool to room temperature. Add 4.0 g of N,N-dimethyl-p-phenylenediamine sulfate and 6.0 g iron chloride hexahydrate (FeCl3·6H2O), mix well, and refrigerate in an amber Nalgene bottle.


E: Low-Range Sulfide Diamine Reagent


For the low-range (1-10 µM) method, add 250 mL of concentrated HCl to 250 mL of DI water. Mix thoroughly and allow to cool to room temperature. Add 0.50 g of N,N-dimethyl-p-phenylenediamine sulfate and 0.75 g iron chloride hexahydrate (FeCl3·6H2O), mix well, and refrigerate in an amber Nalgene bottle.


F: Dilution Reagent


This reagent is used to dilute too-dark samples into the range of color covered by the standard curve, while keeping a constant concentration of the diamine reagent. Create this reagent as appropriate for the high-range or low-range method:
For the high-range method, add 800 µL of Reagent D to 10 mL of DI water (total volume ~10.8 mL)
For the low-range method, add 4 mL of Reagent E to 50 mL of DI water (total volume ~54 mL)


Sample Preservation


The IW splits for sulfide should be preserved immediately with the 1% zinc acetate solution (Reagent A) to prevent the loss of dissolved sulfide. For 0.5 mL aliquots (high range method), fix the sulfide with 40 µL of 1% zinc acetate. For 4.0 mL aliquots (low-range method), fix the sulfide with 800 µL of 1% zinc acetate solution.


High-Range Method


Make dilutions of the 100 µM zinc-sulfide standard (Reagent C) for the standards to create 0.5 mL of standard at each level. Add the specified volume of Reagent C and DI water as shown in the table below to create the standards.



Standard Level

µL 100 µM
zinc-sulfide


µL DI Water

Concentration (µM)

Blank

0

500

0.0

6

30

470

6.0

20

100

400

20

40

200

300

40

60

300

200

60

80

400

100

80


Shake the zinc acetate-preserved sample well before pipetting into it. For this method, the sample volume should be 0.5 mL. Add 40 µL of the high-range diamine reagent (Reagent D) to the sample, blank, and standards, and shake each vial. Place the samples, blank, and standards, into the dark for 30 minutes; the standards should turn blue. If the visual appearance of any of the samples is darker blue than the highest standard, dilute the sample in the dilution reagent (Reagent F) until it is within the color range of the standards.


Low-Range Method


Make dilutions of the 100 µM zinc-sulfide standard (Reagent C) for the standards to create 4 mL of standard at each level. Add the specified volume of Reagent C and DI water as shown in the table below to create the standards.



Standard Level

µL 100 µM
zinc-sulfide


µL DI Water

Concentration (µM)

Blank

0

4000

0.0

1

40

3960

1.0

2.5

100

3900

2.5

5

200

3800

5.0

7.5

300

3700

7.5

10

400

3600

10


Shake the zinc acetate-preserved sample well before pipetting into it. For this method, the sample volume should be 4 mL. Add 320 µL of the low-range diamine reagent (Reagent E) to the sample, blank, and standards, and shake each vial. Place the samples, blank, and standards into the dark for 30 minutes; the standards should turn blue. If the visual appearance of any of the samples is darker blue than the highest standard, dilute the sample in the dilution reagent (Reagent F) until it is within the color range of the standards.



From the Exp. 366 Methods Chapter
Hydrogen sulfide (expected to be HS- at the pH of most IW samples) concentrations were analyzed following the method of Cline (1969) with modifications as adapted for small volumes of pore fluids by Ferdelman et al., 2011. Initially, 500 uL sample was fixed with 40 ¿L of a 1% zinc acetate solution, and reagents used were for a range of 6 to 80 ¿M. However, because most samples were below detection for the first set of samples, 4 ml sample was fixed with 800 ¿L zinc acetate solution, and the analyses were conducted following the lowest range (1 to 3 ¿M) outlined in Cline (1969), which had a linear range for the calibration curve at least up to 10 ¿M. The zinc acetate fixed sample was vigorously shaken and 320 ¿L of a diamine solution consisting of 0.5 g N,N-dimethyl-p-phenylenediamine sulfate and 0.75 g ferric chloride (FeCl3 * 6H2O) per 500 ml DI water, was added. The solution was shaken, and left for 30 minutes in the dark, then measured by spectrophotometry at 670 nm. If the blue color of the sample was visually darker than that of the highest calibration standard (10 ¿M), the sample was diluted with DI water until a lighter color was observed.


Analyzing Samples


Preparing the Instrument


1.

Engage the tubing on the peristaltic pump. Make sure that the waste line goes into a receptacle.

2.

Turn on the unit and let it warm up for at least three hours.

3.

Confirm that the instrument Beam Mode is correctly configured. This shouldn't change, but to confirm, in Varian > Cary WinUV start the Advanced Read application. Click the Setup button and select the Options tab. Confirm in the Beam Mode area that Double Beam is selected and Normal is also selected. (Figure 3)

4.

To start the measuring computer application, select Varian > Cary WinUV > Simple Reads.

5.

Clean the 'fill' tubing with a Kimwipe and aspirate nanopure water about six times, without returning. This is done by depressing the fill button on the front of the Cary unit. (Figure 4)


Note: The Simple Reads application must be running to be able to operate the fill/return features on the Cary unit.



Figure 3. Setup Screen.




Figure 4. Peristaltic Pump.


Running Samples


Preparing Samples


Prepare samples according to the requirements outlined in the appropriate analyte method.


Setting up Instrument Parameters


1.

Click the Setup button to display the Setup dialog box (Figure 5).

2.

Select Read at Wavelength and enter the wavelength for the analysis along with 1 s measurement time.

2.

Click OK. The new wavelength is shown in the Abscissa status display at the top right of the application window.

3.

To zero the current ordinate value, click the Zero button at the left side of the screen. This is best done after aspirating with nanopure water a few times. Do not re-zero the instrument during a measurement batch run.

4.

In the Y Mode group, select the ordinate mode required (Abs).

5.

To clear the contents (text) of the Report area, click on the Clear report button.




Figure 5. Setup Dialog Box.


Measuring the Samples


1.

Insert the aspiration tube completely into the sample vial.

2.

Depress the fill button on the front of the Cary. Make sure that the peristaltic pump aspirates the liquid. Do this a second time.

3.

Monitor the absorbance value in the top left (above the Setup button) of the application window. When the value stabilizes, or wait at least 5 to 8 seconds, CONSISTENTLY, click the Read button to measure the sample at the specified wavelength.

4.

The result of the sample read appears in the Report area and includes the ordinate reading obtained and the wavelength at which the reading was measured (Figure 6).

5.

Depress the return button on the front of the unit to return the aspirated sample to the sample container for further analysis if required.

6.

Remove the aspiration tubing from the sample vial and wipe clean with a Kimwipe.

7.

Aspirate nanopure water in between samples to flush out the line.

8.

Continue sample readings. Once all samples have been read, the data can be saved and/or printed.
Check each uptake for consistent/inconsistent liquid volume extractions. Also check for bubbles in the lines and worn peristaltic tubing. This could lead to carry-over or tube voids in the view window. Replace pump tubing immediately.

10.

Click on the Print… button to display the Windows Print dialog box to choose the printer and pages to print of the current displayed report (Figure 7).

11.

To save data, select Save Data As… from the top File menu option. Save the data in an RTF format.

12.

This file may be opened in Excel, using space-delimited option, and formatted per the requirements of the
LIMS Integration section (i.e., text ids, analytes, and concentrations will have to be added).




READ button
Figure 6. Measuring Samples.


Figure 7. Print/Save Samples.


Data Analysis


Using the results from the reads of the standards, create a calibration curve from the plot of the concentration vs. absorbance values. Use this equation to extrapolate the sample concentrations from their corresponding absorbance value. This can be done in the same spreadsheet as created above in the Simple Reads application. This sheet can be loaded into the LIMS Spreadsheet Loader application as outlined in the LIMS Integration section.


Shutting down the Instrument


Aspirate approximately eight cycles of nanopure water, release the tubing on the peristaltic pump, turn off power to the unit and exit from the software. Clean any spills that may have occurred.
Empty the waste container and rinse with tap water.


QAQC


QA/QC for analysis consists of calibration verification using check standards, blanks and replicate samples.


QA/QC Samples


Check Standard


A check standard for each set of analytes is run every 20 – 30 analyses depending on batch size. Check standards consist of a standard from approximately the midpoint of the calibration curve.
The check standard result is evaluated against the threshold for % variance limits for calibration verification standard against true value:
Within ±10%: calibration is verified and sample analysis can continue.
Outside of ±10%: check reagent solutions and rerun all samples in the corresponding analytical batch.


Blank


A blank is run with every batch to determine if high background levels are interfering with accurate sample results.


Replicate Samples


During each batch, a single sample should be run in duplicate and the variation of the results compared.


Control Limits


Each QA/QC sample has one the following results:
In control
Exceeds warning limit
Out of control (exceeds control limit)
For a system to be considered in control, all QA/QC samples (blank, calibration verification, and replicate samples) must be in control.


In Control


A QA/QC sample is in control when the sample analysis result is within a certain tolerance of acceptable limits (usually 1 standard deviation from the mean). Calibration verification samples should be within acceptable limits of the actual value of the check standard, blanks should be within acceptable limits of background levels of the particular analyte, and replicate samples should be within acceptable limits of duplicate results. When the system is in control, as indicated by acceptable results on QA/QC samples, analytical results for unknown samples are considered to be reliable.


Warning Limit


When QA/QC samples exceed the warning limits (generally 2 standard deviations from the mean), the system is considered to be in danger of being "out of control" (but is not yet out of control). The operator can continue the analysis if he or she does not think that the control limit will be exceeded.


Out of Control


If the control limits are exceeded (generally 3 standard deviations from the mean), the instrument system is considered out of control and all samples in the current analytical batch are invalid and must be rerun after the system is proved to be in control.


LIMS Integration


Results are stored in the LIMS database associated with an analysis code and an analysis component.


Analysis

Component Name

Component value

Unit

SPEC

analyte

ammonium

 

 

phosphate

 

 

 

silica

 

 

concentration

concentration of analyte

µM



Data collected is transferred to the LIMS database using IODP's Spreadsheet Loader application. This is best done by entering the results into an Excel spreadsheet in a format similar to the pattern below, keeping the appropriate number of columns blank, and omitting the column headers. Then run the Spreadsheet Loader application. Go to File > Load and it should import something like below. To upload into the database, go to Lims > Upload and status messages will appear in the blank window (Figure 8).



Figure 8. Spreadsheet uploader.


Maintenance and Troubleshooting


Cleaning


Any spills in the sample compartment should be immediately wiped up and any deposits on the sample compartment windows should also be removed.
The exterior surfaces should be cleaned with a soft cloth and, if necessary, this cloth can be dampened with water or a mild detergent.


Source Lamps


Instructions for how to change and align both the visible and UV lamps are included in the Help provided with the software.
Care must be taken when removing lamps. Touching the glass envelope will reduce its efficiency. NEVER touch the glass surface of a new lamp. Always handle a lamp by its base, using a soft cloth.


Fuses


To replace a fuse, disconnect the unit from the power supply, and replace the blown fuse with one of the type and rating as outlined in the hardware specifications section.


1.

Disconnect the instrument from the power supply.

2.

Undo the fuse cap by pressing the cap and turning it counter-clockwise.

3.

Carefully pull out the cap. The fuse should be held in the fuse cap.

4.

Check that the fuse is the correct type and is not damaged. If necessary, replace it.

5.

Place the fuse into the cap, push the cap in and then turn the cap clockwise.

6.

Reconnect the instrument to the power supply.


Cary Win UV Help


Varian provides extensive help resources, available from the software CD. After installing the help utilities, go to START > All Programs > Varian > Cary WinUV > Cary Help.
Cary Help offers troubleshooting information, maintenance information like how to replace lamps, aligning lamps and mirrors, and replacing fuses and cleaning the flowcells.


Contact Information


Sales and ServiceVarian Instruments2700 Mitchell Dr.Walnut Creek, CA 94598 Phone:1 800 926 3000 E-mail: customer.service@varianinc.com


Health & Safety


Ultraviolet Radiation


The deuterium in the instrument emits hazardous ultraviolet radiation that can cause serious damage to eyes. NEVER look directly at the lamp.
Ozone can be generated by radiation from the source lamp. Exposure to ozone can result in irritation to exposed severe radiation damage to the skin, eyes, and upper respiratory system. The maximum permissible exposure level is 0.1 ppm. Be sure to work with the deuterium lamp using adequate ventilation.


Electrical Hazards


The Cary instrument contains electrical circuits, devices, and components operating at dangerous voltages. Contact with these circuits, devices, and components can cause death, serious injury, or painful electrical shock.
Operators are permitted access only to the lamp compartment and the sample compartment. Always switch the unit off before changing a lamp.
Good grounding is essential to avoid a potentially serious electric shock hazard. Ensure that there is an integral ground connection between the metal base and the three pin earth-grounded receptacle.
Do not connect the instrument to the mains supply until you have made sure that the slide switch at the rear of the unit is correctly set for the mains power supply in the specific outlet in the lab to which the equipment will be connected.
Replace blown fuses with fuses of the size and rating as stipulated in the text adjacent to the fuse holder or in the manual.
Note: The safety classification is given as Equipment Class I.


Other


Both the deuterium and visible lamps operate at high temperatures and touching either of these lamps may result in burns. Before replacing a lamp that has been lit, switch off the unit and either ensure that the lamp has cooled or protect your fingers from burns.
Do not block the ventilation grills on the spectrophotometer.


Chemical Safety


Note: Before working with any of these chemicals, read and become familiar with the MSDS.


Ammonium Chloride


Health effects


Inhalation:

irritant

Ingestion

irritant

Contact:

irritant


Incompatible materials


Concentrated acids, strong bases, silver salts, potassium chlorate, ammonium nitrate, hydrogen cyanide


Ammonium Molybdate Tetrahydrate


Health effects


Inhalation:

irritant

Ingestion:

irritant

Contact:

irritant


Incompatible materials


Alkali metals


Antimony Potassium Tartrate


Hazards


Poison


Health effects


Inhalation:

irritant

Ingestion:

toxic

Contact:

irritant


Incompatible materials


Alkali metals and their carbonates, perchloric acid, reducing agents


Ascorbic Acid


Health effects


Inhalation:

mild irritant

Ingestion:

mild irritant

Contact:

mild irritant


Incompatible materials


Strong oxidizers, alkalis and alkali hydroxides, iron, copper


Bleach (Sodium Hypochlorite)


Health effects


Inhalation:

irritant

Ingestion:

irritant

Contact:

irritant


Stability


Decomposes in air and sunlight


Incompatible materials


Ammonia, amines, ammonium salts, methanol, cellulose, oxidizable metals, acids, soaps, bisulfates


Disposal


Dilute and flush down drain


Ethanol


Hazards


Flammable


Health effects


Inhalation:

irritant

Ingestion:

irritant

Contact:

irritant


Incompatible materials


Oxidizing agents, acids, alkali metals, ammonia, peroxides, silver nitrate


Hydrochloric Acid


Hazards


Poison, corrosive


Health effects


Inhalation:

corrosive, may be fatal

Ingestion:

corrosive, may be fatal

Contact:

corrosive, may cause permanent damage


Incompatible materials


Strong bases, metals, metal oxides, hydroxides, amines, carbonates, alkaline materials and strong nitric acid.


Environmental hazard


Toxic to aquatic life


Disposal


Neutralize


Magnesium Sulfate heptahydrate


Health effects


Inhalation:

minor irritant

Ingestion:

minor irritant

Contact:

minor irritant


Stability


Stable but loses some moisture on exposure to dry air at room temperatures


Incompatible materials


Ethoxy ethyl alcohols, arsenates, phosphates, tartrates, lead, barium, strontium, calcium


Metol (p-Methylaminophenolsulfate)


Hazards


Combustable, toxic, possible sensitizer


Health effects


Inhalation:

harmful

Ingestion:

harmful

Contact:

harmful


Incompatible materials


Strong oxidizing agents, acids, acid halides


Disposal


Very toxic to aquatic organisms, moderately biodegradable in soil and water


Oxalic Acid


Hazards


Poison, corrosive


Health effects


Inhalation:

may cause severe burns

Ingestion:

toxic, may be fatal

Contact:

may cause severe burns


Stability


May become unstable under heat


Incompatible materials


Alkalis, hypochlorites, oxidizers, silver compounds


Phenol


Hazards


Carcinogen


Health effects


Inhalation:

slightly hazardous, non-corrosive for lungs

Ingestion:

VERY hazardous

Contact:

VERY hazardous

Skin contact:

corrosive, sensitizer, permeator

Eye contact:

corrosive


Stability


Stable but air and light sensitive


Incompatible materials


Oxidizing agents, metals, acids, alkalis


Potassium Phosphate, Monobasic


Health effects


Inhalation:

irritant

Ingestion:

irritant

Contact:

irritant


Sodium Chloride


Health effects


Inhalation:

mild irritant

Ingestion:

mild irritant in large doses

Contact:

irritant with eye contact




Incompatible materials


Lithium, bromine trifluoride


Sodium Sulfite


Health effects


Inhalation:

mild, cough, sore throat

Ingestion:

mild

Contact:

mild


Stability


Stable


Incompatible materials


Strong acids and oxidants


Sodium Nitroprusside


Hazards


Toxic


Health effects


Inhalation:

toxic

Ingestion:

toxic, may be lethal

Contact:

irritant


Stability


Hygroscopic


Incompatible materials


Strong oxidizers, strong acids


Sodium Silicofluoride


Hazards


Toxic


Health effects


Inhalation:

toxic

Ingestion:

toxic

Contact:

irritant


Incompatible materials


Metals


Environmental hazard


Highly toxic to foliage


Sulfuric Acid


Hazards


Poison, danger, corrosive


Health effects


Inhalation:

strong irritant

Ingestion:

corrosive, may be fatal

Contact:

corrosive, may cause severe burns


Stability


Reacts violently with water


Incompatible materials


Water, potassium chlorate, potassium perchlorate, potassium permanganate, sodium, lithium, bases, organics, halogens, metals, strong oxidizers, reducers


Environmental hazard


May be toxic to aquatic life


Disposal


Neutralize


Trisodium Citrate


Health effects


Inhalation:

irritant

Ingestion:

irritant

Contact:

irritant


Incompatible materials


Strong oxidizers


Guidelines for Handling Chemicals


Wear gloves to protect from specific hazards.

Wash hands immediately after removing gloves, after handling chemical agents, and before leaving the laboratory area.

Wear laboratory coats and gloves only in the laboratory area.

Confine long hair and loose clothing.

Wear close-toed shoes.

Do not store or prepare food, eat, drink, chew gum, apply lip balm or cosmetics, or handle contact lenses in areas where chemicals are handled.

Label all chemical containers and reagent solution bottles.

Keep laboratory work areas clean and uncluttered.

Consult the MSDS before using any chemical.

Know the emergency procedures for handling chemicals used.

Vent into local exhaust devices vapors, fumes, mists, dusts, or gases.


Waste Management


Waste management includes proper handling or reaction byproducts, surplus and waste chemicals, and contaminated materials. Each worker is responsible for ensuring wastes are handled in a manner that minimizes personal exposure and the potential for environmental contamination.
Dispose of cleaning solutions properly.
Dispose of surplus and expended reagents properly.
Select the least hazardous chemical for the job and use only in quantities needed. Minimize waste whenever possible by reducing both the volume and physical hazard or toxicity of the material.


References


Gieskes, J.M., Gamo, T., and Brumsack, H., 1991. Chemical methods for interstitial water analysis aboard JOIDES Resolution, ODP Tech. Note, 15. doi:10.2973/odp.tn.15.1991.
Kastner, M., Elderfield, H., Martin, J.B., Suess, E., Kvenvolden, K.A., and Garrison, R.E., 1990. Diagenesis and interstitial water chemistry at the Peruvian margin—major constituents and strontium isotopes. In Suess, E., von Huene, R., et al., Proc. ODP, Sci. Results, 112: College Station, TX (Ocean Drilling Program), 413–440. doi:10.2973/odp.proc.sr.112.144.1990
Noriki, S. 1983. Silicate correction in the colorimetric determination of phosphate in seawater. J. Oceanograph. Soc. Japan, 39(6):324–326. doi:10.1007/BF02071829
Presley, B.J., 1971. Techniques for analyzing interstitial water samples: Appendix Part 1: determination of selected minor and major inorganic constituents. In Winterer, E.L., et al., Init. Repts. DSDP, 7(2): Washington, DC (U.S. Govt. Printing Office), 1749–1755. doi:10.2973/dsdp.proc.7.app1.1971
Solorzano, L., 1969. Determination of ammonia in natural waters by phenol-hypochlorite method. Limno. Oceanogr., 14:799–801.
Strickland, J.D.H., and Parsons, T.R., 1968. A manual for sea water analysis. Bull. Fish. Res. Board Can., 167.


Appendix


Reagent Cheat Sheet


Ammonium

 

 

 

 

 

reagent

total volume (mL)

solute

amountadded

solvent

when

A

100

95% ethanol

100 mL

NA

daily

B

101

phenol

1 mL

reagent A

daily

C

100

sodium nitroprusside

75 mg

nanopure

daily

D

500

trisodium citrate /
sodium hydroxide

7.5 g /0.4 g

nanopure

monthly

E

50

Sodium hypochlorite (bleach)

1 mL

reagent D

daily

F

1000

ammonium chloride (dried)

5.345 g

nanopure

monthly

Phosphate

 

 

 

 

 

Reagent

Total volume (mL)

Solute(s)

Amountadded

Solvent

When

A

1000

sulfuric acid

10 mL

nanopure

anytime

B

1000

antimony potassium tartrate trihydrate

0.102 g

nanopure

every two months

C

1000

ammonium molybdate tetrahydrate

2 g

nanopure

anytime

D

1000

ascorbic acid

3.5 g

nanopure

weekly

E

250

reagent Creagent Areagent Dreagent B

50 mL125 mL50 mL25 mL

 

6 hours

F

1000

potassium phosphate monobasic (dried)

1.361 g

nanopure

monthly

Silica

 

 

 

 

 

Reagent

Total volume (mL)

Solute(s)

Amountadded

Solvent

When

A

500

sulfuric acid

250 mL

nanopure

monthly

B

500

ammonium molybdate tetrahydrate

4 g

nanopure

monthly

C

500

anhydrous sodium sulfite Metol

6.0 g10 g

nanopure

monthly

D

500

oxalic acid dihydrate

50 g

nanopure

monthly

E

150

reagent Creagent D

50 mL30 mL

nanopure

daily

F

1000

sodium chloridemagnesium sulfate heptahydrate

25 g8 g

nanopure

monthly

G

1000

sodium silicofluoride (dried)

0.564 g

nanopure

bi-monthly

Credits

  • original authors are Eric Moortgat and David Houpt (20111212)

Archive

  • No labels