Sampling and Pretreatment of Tooth Enamel Carbonate for Stable Carbon and Oxygen Isotope Analysis

Summary

Stable carbon and oxygen isotope analysis of human and animal tooth enamel carbonate has been used as a proxy for individual diet and environmental reconstruction. Here, we provide a detailed description and visual documentation of bulk and sequential tooth enamel sampling as well as pretreatment of archaeological and paleontological samples.

Abstract

Stable carbon and oxygen isotope analysis of human and animal tooth enamel carbonate has been applied in paleodietary, paleoecological, and paleoenvironmental research from recent historical periods back to over 10 million years ago. Bulk approaches provide a representative sample for the period of enamel mineralization, while sequential samples within a tooth can track dietary and environmental changes during this period. While these methodologies have been widely applied and described in archaeology, ecology, and paleontology, there have been no explicit guidelines to aid in the selection of necessary lab equipment and to thoroughly describe detailed laboratory sampling and protocols. In this article, we document textually and visually, the entire process from sampling through pretreatment and diagenetic screening to make the methodology more widely available to researchers considering its application in a variety of laboratory settings.

Introduction

Stable carbon and oxygen isotope analyses of tooth enamel carbonate has been used to study past human dietary intake, weaning, and mobility, as well as faunal reliance on vegetation, the movement of animals, and livestock foddering. These applications have been comprehensively discussed and reviewed for a variety of environmental conditions indicating the effects of local aridity, temperature, water sources, and vegetation compositions^1,2,3,4,5,6. The diversity of potential applications in archaeology and paleontology, as well as the good preservation of tooth enamel carbonate, has made it an attractive material for stable isotope work³. Methods of sampling, pretreatment, and diagenesis screening are briefly described in a number of previous publications^1,7. However, thorough verbal and visual demonstrations remain largely unavailable, particularly to people outside of archaeological science laboratories and among laboratory groups with limited funding where the interest in the use of this technique is increasing⁵.

Tooth enamel is primarily made up of hydroxyapatite (bioapatite) crystallites⁸ larger than those in bone, making it more resistant to post-mortem diagenetic ionic substitutions and contamination³. Modern studies have demonstrated that stable carbon isotope (δ¹³C) measurements of faunal tooth enamel reliably record animal diet and behavior^9,10. The stable oxygen isotope (δ¹⁸O) value of tooth enamel is determined by the oxygen isotopic composition of ingested water, which includes water in plant and animal foods, drinking water, respiration, as well as various environmental impacts on the water which can lead to further isotopic fractionation (e.g., aridity, temperature, altitude, rainfall amount, continental location)¹¹. This has made it a popular method for dietary and environmental reconstruction in archeological, paleoecological, and paleontological research.

The period of tooth enamel formation is relatively short (years) and differs depending on the tooth being sampled. For humans, first molar enamel mineralizes between birth and 3 years of age, premolars mineralize between 1.5 and 7 years of age, second molars mineralize between 2.5 and 8 years of age, and third molars mineralize during adolescence, between 7 and 16 years¹². Given that tooth enamel forms incrementally over its period of formation, it can be sampled in bulk along the entire growth axis or sampled sequentially in order to investigate the changes in diet and environment that have occurred during the formation period¹³. Chronologically-ordered dietary change within a given tooth is observable for humans and other animals^1,14, providing information regarding inter-annual seasonal and dietary variation.

While enamel is usually resistant to diagenesis, isotopic modifications resulting from the burial environment are possible and have been observed^15,16, making experimental checks and pretreatment choices useful. While it is not the only available method, Fourier transform infrared spectroscopy (FTIR), particularly in Attenuated Transmission Mode, has emerged as a quick, inexpensive, and relatively accessible method for assessing taphonomic alteration in tooth enamel, particularly in paleontological contexts^17,18,19,20. However, detailed protocols and recording standards remain relatively inaccessible to many people outside the fields of geochemistry or material science.

Reaction times and the chemicals employed by researchers in the pretreatment of tooth enamel also vary considerably in the literature, often with limited consideration as to what this variability may do to stable carbon and oxygen isotope values of the sample^21,22. Here, we report an approach that uses dilute acetic acid (0.1 M) for the pretreatment of enamel powder samples. However, given that the differences in isotopic measurements resulting from pretreatment are relatively minor for tooth enamel, it is best for the researchers to follow the protocols for datasets with which they wish to compare their data to¹¹. Furthermore, where small sequential samples are taken, particularly on Holocene samples, no pretreatment may be chosen (following pilot diagenetic tests) to avoid sample wastage.

Although the methods we report here are by no means new, to our knowledge, this is the first time that a thorough written and visual documentation of bulk and sequential sampling, pretreatment choices, and diagenetic check methods (in the form of FTIR) for tooth enamel have been made widely available to a varied academic audience. While we hope our efforts will make this approach more easily accessible to a wider number of individuals and laboratories, researchers who want to apply and publish this technique must be aware of minimum reporting standards, diagenetic considerations, and presentation requirements overviewed elsewhere²⁰, as well as potential interpretive complexities that will be unique to their study region, taxa analyzed, and time period⁵.

Protocol

The following protocol follows the guidelines of the Light Isotope Mass Spectrometry Laboratory at the Max Planck Institute for the Science of Human History. Appropriate ethics permissions from national and international committees should be sought for analyses involving endangered modern or historical faunal specimens, and for the use of archaeological and faunal material of interest to contemporary stakeholders. In this paper, the samples used were archaeological and fossil specimens. No living humans were used in this study and full ethical, institutional, and governmental permissions have been gained for any destructive analysis.

1. Bulk Sampling

Note: For humans and animals, the basic method of bulk tooth enamel sampling is the application of a drill to the buccal edge of the tooth.

1. Clean the outer surface of the tooth (~0.1 mm) using an aluminum shot blaster or by gentle abrasion using the drill set-up. Use a hand-held drill with a clean diamond-tipped drill bit (see below), of even shape, attached via a chuck to the drill set-up. Ensure that gentle and even abrasion is performed as a groove parallel to the entire growth axis (Figure 1 and Figure 2).
2. Attempt, where possible, to apply the method to the same tooth portion for each human or animal sampled.
   Note: In human paleodietary research, third molars are generally favored as representative of late juvenile/adult diet while first molars are avoided due to weaning effects²³. The preferred tooth for each taxon, and the period of life represented, will vary with the available samples and question under study.
3. Drill in a well-ventilated room while wearing a mask to avoid the inhalation of tooth enamel powder. Wear goggles to protect eyes. Be aware that the amount of sample powder drilled will vary depending on the equipment used for analysis, pretreatment protocol, and size of the tooth. Drill at low speed in order to prevent heating the sample.
   Note: Approximately, 4-8 mg of sample powder is an appropriate goal for multiple analyses using an online gas preparation and introduction system for isotope ratio mass spectrometry and diagenetic testing. Be aware that the chosen drill speed will depend on the fragility of the sample and will require some level of trial and error. In general, on a hand-held drill, two out of five bars of strength are sufficient. Drill the tooth powder over a piece of clean aluminum foil or weighing paper.
4. Collect the resulting enamel powder and transfer it into a 1.5 mL micro-centrifuge tube that has been tared on an appropriately accurate balance prior to drilling. Label each tube with the sample designation (Figure 3). Record the sample numbers and enamel weight in a laboratory notebook as well as an electronic database.
5. Before drilling each new tooth, clean the utilized drill bits first using 0.5 M HCl on a robust tissue. Then wash the drill bit with an organic solvent (such as acetone, methanol, or ethanol) using a robust tissue.
6. Following a drilling sitting, clean the workspace thoroughly using a dedicated vacuum cleaner, or a dustpan and brush. Wipe the sampling space with methanol. Vacuum or lightly spray the drill with compressed air to remove dust and sample powder between samples.

2. Sequential Sampling

Note: Sequential sampling can be approached in a variety of forms and will depend on the taxon being sampled, the size of the tooth, as well as the desired temporal resolution.

1. Clean the surface of the tooth being sampled by removing a very thin (~0.1 mm) layer of outer tooth enamel.
2. Drill the samples along the buccal surface perpendicular to the growth axis of the tooth, running from the enamel root junction to the top of the crown. Drill horizontal bands perpendicular to the growth axis, with each sample resulting in a 1-2 mm wide groove across the enamel layer (Figure 1 and Figure 4). Take care to avoid drilling through the enamel into the dentine as it would contaminate the sample and the resulting measurement.
   Note: The number of samples taken will vary depending on the resolution desired but c. 10 represents an appropriate goal to study seasonal changes in δ¹³C and δ¹⁸O values for a hypsodont the size of domesticated cattle.
3. Choose the appropriate drill bit for each sample, as the width of the sampling line is determined by the diameter of the drill bit.
4. Use a rig set-up for more delicate teeth requiring a greater number of incremental samples (Figure 2) (e.g., human teeth), as well as for more stable drilling. Set up the rig stand that holds the drill securely, with the drill bit pointing downwards.
   Note: While four samples can easily be obtained from a permanent human molar using a hand-held approach²⁴, more refined sampling requires a rig or CO₂ laser ablation approach that will not be discussed here¹⁴. Another common approach is to use a semi-automated microsampling²⁵.
5. Hold the tooth or attach to a clamp. Press the tooth enamel against the drill bit and apply pressure. Samples are drilled incrementally along the buccal surface from the apex (occlusal surface) to the base of the crown at the location of the enamel-root junction (ERJ). Replicate the same sample drilling strategy multiple times drilling each consecutive line parallel to the previous sample line. Use a small cylindrical diamond drill bit for delicate teeth, such as sheep molars, with a diameter of 1 mm (Figure 1C).
6. Measure the distance of each sampling line from the ERJ using calipers and record this distance for comparison.
7. Follow steps 1.3-1.6 above.
   Note: If small, delicate teeth are being analyzed and pretreatment and diagenetic check methods are not applied, samples as small as 1-4 mg will produce reliable results on an on-line gas preparation and introduction set-up for carbonate analysis. Modified automated-peripheral systems can facilitate the use of even lower sample weights, but are inevitably limited by the proportion of carbonate in the studied enamel (4 to 5 wt%)^26,27. Researchers should consult with the laboratory where samples are going to be measured to determine the amount of sample required.

3. Fourier Transform Infrared Spectrometry/Attenuated Total Reflectance method

1. For the Attenuated Total Reflectance method, establish a sample chamber background, either under vacuum or in normal atmospheric conditions.
2. Place approximately 1 mg of tooth enamel over the diamond crystal in the sample chamber using a spatula. Lower and secure the sample post until there is a firm connection between the post, the sample, and the diamond plate. Close the sample chamber, with or without a vacuum being established, depending on the set-up or availability.
3. Measure the FTIR spectra of the sample 64 times for the wavenumber ranging between 400 and 4,000 cm^-1. The desired number of replicates will vary based on the goals of the study, though the analysis of three replicates, ideally with different aliquots being taken and then returned to the microcentrifuge tube housing the sample, will ensure robust results.
4. Clean the spatula with methanol between each aliquot and between each sample.
5. Perform a baseline correction using the available software. The software automatically subtracts the sample chamber background from the resulting FTIR profile. To ensure better reproducibility, only enamel spectra with a minimum absorbance of 0.06 for the highest phosphate band at ~1035 cm^-1 should be taken into account.
6. Monitor the presence of the common secondary contaminant carbonate calcite in all samples by checking for a peak at 711 cm^-1.
7. Following the analysis, carefully return the samples to their microcentrifuge tubes using a spatula or suction device and take onto the next stage of pretreatment or analysis.
8. Export the raw wavelength and intensity data as a .csv file (or similar) and use to calculate the indices of interest (commonly used indices include A-site Phosphate Index, B-site Phosphate Index, Phosphate Crystallinity Index, Water-Amide on Phosphate Index, and CO₃/PO₄ index^17,18,19) (Table 1).
9. Compare the FTIR results from the fossil or archaeological samples to growing datasets of modern faunal tooth enamel now available in the literature^19,20 to determine the nature and extent of diagenetic alteration to the enamel sampled.

4. Simple Acetic Acid (0.1 M) Pretreatment

1. Weigh the enamel powder for each sample in a microcentrifuge tube using a balance as appropriate. Label the tube accordingly. Enamel powder must be ground to the same degree, with particles of a similar size.
   Note: Many researchers utilize an oxidizing agent, such as dilute bleach (NaClO) or 30% hydrogen peroxide (H₂O₂) to remove organics from a sample and this should be added at this point. However, not only may these reagents alter the stable carbon and oxygen isotope values of a sample, but spectra of bone collagen samples in an on-line gas preparation and introduction system demonstrate that the 100% phosphoric acid utilized in carbonate measurement does not react with organic samples (Figure 5), suggesting that this step is unnecessary.
2. Add 0.1 mL of 0.1 M acetic acid (per 1 mg of enamel) to each sample using a pipette. Avoid touching the samples with the pipette. If the sample and pipette come into contact, use a new pipette for the next sample to avoid cross contamination.
3. Agitate, either through shaking or an electronic agitator (Figure 3) and then leave the samples to sit for 10 min. Enamel powder should not be left in acetic acid for an extended period of time (>4 h).
4. Place the samples in a microcentrifuge for 2 min at 13,700 x g.
   Note: A low-cost alternative is the use of a mini-centrifuge for 4 min at 3,500 x g, which holds fewer samples but is less time consuming when dealing with large sample sets.
5. When the microcentrifuge program stops, replace the acetic acid with 2 mL of ultrapure water using a clean pipette, then microcentrifuge the samples for 2 min at 13,700 x g.
6. Change the ultrapure water two more times, as before, and test for neutrality. Remove the remaining fluid using a pipette (without disturbing the supernatant).
   Note: A total of three washes with ultrapure water is the standard procedure to get to neutrality. The sample should be washed until neutrality is reached.
7. Cut sheets of Parafilm (1 cm × 1 cm) and place over each microcentrifuge tube. Make a small hole in the center using a sharp object so that the sample dries appropriately.
8. Place the tubes in a freeze drier to remove any remaining fluid.
   Note: If a freeze drier is not available, gentle oven drying (40 °C) is also a possibility and should not have any adverse effects on the stable carbon and oxygen isotope data.
9. Once dry, remove the Parafilm and close the microcentrifuge lids. Make sure that the tube labeling is correct and re-write if necessary.
   Note: This is the final stage prior to storage for weighing out, which in labs with limited funds may be the final stage prior to the distribution of the samples for analysis elsewhere.

5. Weighing and Measuring Samples and Standards

1. Using a spatula, weigh out approximately 2 mg of enamel powder onto a tin disc on a balance sensitive to 0.001 mg (Figure 6). Then carefully transfer the sample into a phosphoric acid-resistant borosilicate glass vial. This amount of enamel is required to yield reliable results due to the relatively small proportion of carbonate in tooth enamel.
2. Clean the spatula between samples using methanol and use a fresh, clean disc or weighing vessel for each sample.
3. Weigh out 0.2 mg of an international standard such as IAEA NBS18, IAEA 603, IAEA CO8, or Merck CaCO₃. An in-house standard made from the homogenized enamel of a large tooth can be used as well²⁰. For a full run of 76 samples and standards, use 61 samples and 15 standards, which should be evenly distributed over the whole run. Several studies have reported appropriate numbers of standards and details in archaeological research^20,28.
   Note: The repeated pretreatment and analysis of an enamel in house standard, across a number of runs of archaeological samples, is also likely to provide an appropriate measure of accuracy for the samples being studied²⁰.
4. Tighten the specially-designed lids, accessible to the needle until the septum is tight but not sucked into the vial. Do not over tighten the lid as the pressure on the septum will get too strong and can ultimately result in a broken needle during analysis. Place the vials in a listed order within a heating block at 70 °C. The order and weights of samples must be reliably recorded for entry into the computer software.
5. Measure the samples by following three steps: 1) flush fill the samples with pure Helium, 2) add phosphoric acid, 3) measure the sample.
   1. Flush the samples with pure helium (grade 5.0) with a flow of 100 mL/min for 5 min to flush out ambient air.
   2. Add 4-5 drops of phosphoric acid (99%, density 1.85 g/mL) to the carbonate-containing sample. Reaction between the sample and H₃PO₄ begins. During the reaction, CO₂ is released which carries the isotopic value of the carbonate ion CO₃^2- of the sample.
   3. Wait 1 h per sample until the equilibration of CO₂ is reached. After 1 h, the samples should be measured to obtain reliable results. During the acquisition, a mixture of sample gas and He passes to the device. A drying stage removes water from the sample gas mixture.
   4. Measure the sample by starting with three peaks of CO₂ reference gas with a known isotopic composition. Peak intensity should be 4000 mV to match the intensity of the sample peaks (between 4000 to 8000 mV). The three reference gas peaks should be 20 s long and 30 s apart. Follow with defining the measurement interval of the sample. Measure the sample 10 times for 5 s each and 55 s apart. Ensure that peak height decreases over time indicating proper transport of the sample/helium mixture (Figure 5).
      Note: During measurement, the software calculates the isotopic composition of the sample by comparing the known isotopic value, the peak height, and area of the peak of the reference gas with the peak height and area of the peaks of the samples. The raw ¹³C/¹²C and ¹⁸O/¹⁶O composition of the sample is calculated.
6. Normalize the samples after measurement.
   Note: This is important because the reference gas does not undergo the same chemical and physical path as the sample gas when introduced into the mass spectrometer. Therefore, it is essential that the samples are additionally calibrated to international standards (step 5.3) that undergo the same physical and chemical treatment within a run as the sample itself²⁰. These international carbonate standards enable the two-point calibration of samples onto the international delta measurement scale and the assessment of precision and repeatability throughout a given run.

Results

Using the sampling procedure presented above, incremental enamel bioapatite samples were prepared. The analysis of bioapatite in enamel depends on the accuracy of sampling, whether bulk or incremental. In this case, we have chosen to present the results of archaeological samples (two sheep) from different climatic zones. Incremental samples were analyzed from sheep second molars and labelled starting at the ERJ (Figure 4). Incremental sample locations were nu...

Discussion

The challenges of successful sampling (bulk and incremental) of dentition relies on the access to knowledge regarding drilling techniques and sample preparation, alongside the investment in relatively inexpensive equipment. These challenges are easily surmountable when clear instructions are available concerning sampling and pretreatment approaches. In this article, we hope to have disseminated these in a clear, concise fashion for researchers new to these methods. Scholars applying these methods for the first time ...

Materials

List of materials used in this article

Name	Company	Catalog Number	Comments
Dremel Micro	Dremel		https://www.dremel.com/en_US/products/-/show-product/tools/8050-micro
Diamond-tipped drill bit	Dremel		https://www.dremel.com/en_US/products/-/show-product/accessories/7122-diamond-wheel-point
1.5 mL micro-centrifuge tube	Sigma Aldrich		https://www.sigmaaldrich.com/catalog/product/sigma/t2422?lang=de®ion=DE&gclid=EAIaIQ obChMI7pHRpauW2QIV77ftCh1p1 wjhEAAYASAAEgKzkvD_BwE
Methanol			Linear Formula: CH3OH
Acetic Acid			Linear Formula: CH3CO2H
Dremel rig set-up (workstation)	Dremel		https://www.dremel.com/en_US/products/-/show-product/tools/220-01-workstation
Microcentrifuge	Thermo Scientific		http://www.thermofisher.com/order/catalog/product/75002401
Mini-centrifuge	Sprout		http://www.heathrowscientific.com/sprout-mini-centrifuge-4
Freeze drier	Zirbus Technology		http://www.zirbus.com