Claire A.
Murray§
*a,
Project M
Scientists
,
Laura
Holland
b,
Rebecca
O'Brien
c,
Alice
Richards
a,
Annabelle R.
Baker
a,
Mark
Basham
b,
David
Bond
a,
Leigh D.
Connor
a,
Sarah J.
Day
a,
Jacob
Filik
a,
Stuart
Fisher
d,
Peter
Holloway
a,
Karl
Levik
a,
Ronaldo
Mercado
a,
Jonathan
Potter
a,
Chiu C.
Tang
a,
Stephen P.
Thompson
a and
Julia E.
Parker§
*a
aDiamond Light Source, Harwell Science and Innovation Campus, Didcot OX11 0DE, UK. E-mail: drclairemurray@gmail.com; julia.parker@diamond.ac.uk
bRosalind Franklin Institute, Harwell Science and Innovation Campus, Didcot OX11 0QS, UK
cWellcome Trust, Gibbs Building, 215 Euston Road, London NW1 2BE, UK
dEuropean Synchrotron Radiation Facility, 71 Avenue des Martyrs, 38043 Grenoble, France
First published on 29th January 2024
Calcite and vaterite crystallisation is strongly influenced by the presence of additives during the reaction process, as demonstrated by organic molecules in biogenic calcium carbonate formation. The effect of additives on the lattice parameters of calcite and vaterite in syntheses are frequently reported, but only as discrete studies discussing a single polymorph. The intertwined nature of these polymorphs, due to their shared reaction pathway, is rarely discussed. In this work we report the results of a large scale citizen science project to explore the influence of amino acids and related additives on both polymorphs, highlighting their differences and commonalities in terms of the effect on the lattice parameters and polymorph selectivity.
Calcium carbonate can exist in several different polymorphic forms: calcite, aragonite and vaterite.3 There are also hydrated forms: ikaite (CaCO3·6H2O) and monohydrocalcite (CaCO3·H2O). Vaterite is described as metastable, yet is frequently stabilised in biomineral form.4 Organisms exhibit fine control over both the polymorph of calcium carbonate precipitated, and the crystal morphology via a matrix of proteins and macromolecules, frequently involving (multiple) amorphous and crystalline states as well as several polymorphs.5–7 For example, mollusc shells consist of approximately 95% CaCO3 and 1–5% organic components.8 This matrix also increases the strength of the calcium carbonate biomineral, in a similar way to a composite material, providing high fracture toughness.9,10 There is much interest in exploring the mechanism by which biominerals are formed and exploiting biomineralisation to produce improved engineering and structural materials and to control crystal growth. However, even after many diffraction, spectroscopy and imaging characterisation studies, the detailed role of the organic scaffold in directing biomineralisation is still not fully understood.1,2,11
Microstructures of biogenically different nanocrystals have been shown to exhibit anisotropic lattice distortions, attributed to the influence of macromolecules during biomineralisation.12–15 Given the complexity and large number of factors involved, it is not possible to replicate the overall effect of an organic matrix on biomineral formation in the laboratory. Instead, simplified systems are chosen – with limited variables (e.g., solution pH, additive, concentration) to try to isolate, understand and predict individual effects. ‘Doping’ crystals or using additives to tune crystal properties has therefore been widely explored in the literature,10,16–20 with much interest directed towards amino acids as simplified analogues for the protein sequences directing the organic matrix. The impact of additives on the final crystals is evident; from observations of polymorph formation and crystallisation kinetics right through to anisotropic lattice distortions on a similar scale to those observed in biogenic calcium carbonates.12,21,22
The focus on anisotropic lattice distortions in the context of amino acid-directed syntheses of calcium carbonate has raised many questions about the occlusion or incorporation of additives into the CaCO3 crystal structure(s). The reaction pathways for these polymorphs are clearly interwoven; for example, in this work the synthesis method used leads to rapid vaterite formation, via an amorphous calcium carbonate phase, followed by slower transformation to calcite.23 The question of how the additive affects polymorph selectivity is therefore pertinent. The kinetics of formation and transformation will also have implications for how the additive is distributed in the structure.24 However, these synthesis efforts have generally focused on targeting individual polymorphs with little discussion about the presence or lack of additional polymorphs. Indeed, some of these syntheses' conditions were intentionally selected to avoid vaterite formation.
The interesting question of how various amino acids and related additives differ in their ability to be occluded in calcite compared to vaterite is addressed in this work. The corresponding effects on the polymorph lattice in terms of lattice distortions can be determined using powder diffraction techniques. Mapping a large parameter space, in terms of additive and concentration, requires the synthesis of a large number of samples and the provision of high throughput analysis techniques. Synchrotron high resolution powder diffraction beamlines are well equipped for high sample throughput with fast detectors, robotic sample changers and automated data collection. The bottle neck then becomes the sample synthesis and preparation. In some cases, this can be addressed by the development of laboratory scale automated sample preparation systems, however this can be expensive and is often a tailored solution for a specific reaction of sample condition that is not always more generally applicable to other syntheses. Here we chose to view the sample bottleneck problem as an exciting opportunity for citizen science.
This study was carried out as part of Project M,25,26 a large-scale citizen science project with over 1000 scientists synthesising calcium carbonate samples. The prepared samples were then analysed using X-ray powder diffraction at Diamond Light Source using beamline I11.27 This is a high resolution powder diffraction beamline, that was used to measure all of the samples in a 24 hour period. This highlighted the beamline's high throughput capability,28 as well as the role citizen science projects can play in both chemistry and synchrotron contexts.
Chemistry projects are underrepresented in the citizen science space, which is a particular concern given the role these projects can play in developing the pathways to the United Nations sustainable development goals.29 The contribution that student citizen scientists can make to scientific research should not be underestimated and these projects frequently provide a powerful way for researchers to access volumes of data they might struggle to collect otherwise, as well as inspiring future generations of scientists.30
The key scientific results are discussed, demonstrating how the additives differently occlude in the calcite and vaterite polymorphs, in terms of the effect on the lattice. We highlight the role that citizen science projects can play in a synchrotron context, whilst discussing the importance of careful experimental design and framing of the scientific aims for such projects.
• A simple method that could safely and easily be reproduced by secondary school students in a standard classroom environment, minimising the variables highlighted in Fig. 1.
• A method that would produce a combination of vaterite and calcite polymorphs to study the effect of the additives on the crystal structure of each phase.
• A route to achieve statistical significance for each sample, aiming for 4 repeats per sample.
The use of calcium chloride and sodium carbonate were chosen due to the familiarity of schools with these chemicals and the low risk level attached. All syntheses were carried out at room temperature (see Methods in ESI‡).
The selected additives include 19 of the most common amino acids (excluding tyrosine due to its poor solubility12,31), as well as a series of long chain carboxylic acids (CH2)n(CO2H)2 (where n = 1–5) with various concentrations. Instead of using an additive, some schools made samples with varying mixing times. The additive concentrations were selected to reflect the fact that most secondary schools only had balances to two decimal places, which corresponded to a ratio range of 0.5–2. The amino acids are commonly classified by their functional groups on their side chains and chemical properties as: hydrophobic, negatively charged, positively charged, polar uncharged and special cases. The carboxylic acids were chosen due to having similar chain lengths as the amino acids, without the amino functional group. Individual additives are coded according to Table 1.
Additive | Abbreviation | Classification |
---|---|---|
a There were not enough samples with glutaric acid to be included in the analysis that follows, but the Controls from these experiments were included. | ||
Adipic acid | AdiAci | Dicarboxylic acid |
L-Alanine | Ala | Hydrophobic |
L-Arginine | Arg | Positively charged |
L-Asparagine | Asn | Polar uncharged |
L-Aspartic acid | Asp | Negatively charged |
L-Cysteine | Cys | Special case |
L-Glutamine | Gln | Polar uncharged |
L-Glutamic acid | Glu | Negatively charged |
Glutaric acid | GltAcia | Dicarboxylic acid |
Glycine | Gly | Special case |
L-Histidine | His | Positively charged |
L-Isoleucine | Ile | Hydrophobic |
L-Leucine | Leu | Hydrophobic |
L-Lysine | Lys | Positively charged |
Malonic acid | MalAci | Dicarboxylic acid |
L-Methionine | Met | Hydrophobic |
Mixing time | Mixing | |
L-Phenylalanine | Phe | Hydrophobic |
Pimelic acid | PimAci | Dicarboxylic acid |
L-Proline | Pro | Special case |
L-Serine | Ser | Polar uncharged |
Succinic acid | SucAci | Dicarboxylic acid |
L-Threonine | Thr | Polar uncharged |
L-Tryptophan | Trp | Hydrophobic |
L-Valine | Val | Hydrophobic |
As the X-ray diffraction patterns of the samples were collected over a 24 hour period, the data were live tweeted via the Twitter account @DLSProjectMLive, to share the status of the experiment. The data were then shared directly with the Project M Scientists via a web interface. They could carry out initial analyses of the X-ray diffraction patterns using a custom online version of the DAWN software suite,32 and this showed that the samples were either calcite, or a mixture of both calcite and vaterite phases. A representative diffraction pattern and fit from LeBail analysis are shown in Fig. 2. Small fluctuations in temperature, timings and mixing speeds were known in advance to influence the final product polymorph23 hence the ratio of calcite to vaterite in an individual sample is not necessarily representative of the effect of additive on the crystallisation process. A systematic quantification of the ratio of polymorphs was not carried out in this work due to the variety of packing densities (e.g., due to transit) and sample crystallinities (e.g., varying amorphous contributions).
Fig. 2 (a) Crystal structures of calcite (left) and vaterite (right), where green is calcium, black is carbon and red is oxygen. Both crystal structures are orientated in the same direction to highlight the difference between the a and c lattice parameters. The vaterite structure shown is a simplified version of the Kamhi structure,33 removing the disorder to facilitate comparison. (b) Diffraction pattern for sample 68–08 with the observed and calculated data and the difference. |
However, the influence of the amino acids on the polymorphs was determinable via the difference in the lattice parameters and the samples were self-consistent within each series. Accordingly, in the following analysis trends and standard deviations of the lattice parameters of the crystalline materials are discussed, and this puts less weight on the error of any specific point or individual sample.
Fig. 3 Standard deviations of the a and c lattice parameters for calcite and vaterite for the controls, all additives, mixing only, literature synthetic35–42 and literature biogenic13,41,43–46 samples. |
The small spread of the vaterite crystal structure between the vaterite control and the vaterite with additives datasets presents an interesting insight into the (lack of) interactions of vaterite with additives (Fig. 4). The vaterite structure itself has been widely debated in the literature, with multiple structural interpretations reported.33,47–49 In order to test whether the choice of structural model was the dominating factor in these results, a selection of the most frequently used models were tested against all of the vaterite datasets and these all show the same trend (reported in the ESI‡). The Kamhi cell33 was selected for use in this work as it had the smallest standard deviations and the best fits across both polymorphs in the LeBail analysis of the control samples.
The high supersaturation reaction conditions used here promote the rapid formation of usually nanocrystalline vaterite. This polycrystalline nature of vaterite on fast precipitation is thought to hinder occlusion of the additive within the crystal structure. However, it is not clear how polycrystallinity would stop or impede occlusion. Trapping of the additives between crystalline blocks is reported,19 whereas calcite has been widely characterised as occluding additives (mainly amino acids) within and/or between crystallites.10,12,22 In this work under the reaction conditions reported, we see very little difference between the reactions with and without additives in terms of the standard deviations for vaterite lattice parameters, leading to questions about how available the metastable vaterite structure is for interactions with the additives.
The calcite lattice parameters are more affected, and have greater elasticity, which aligns with work published elsewhere where the lattice parameters of synthetic35–42 and biogenic13,41,43–46 calcite with additives, (including Mg, amino, polyelectrolytes) are larger. Importantly, this work also reveals the simultaneous reduced influence of additives on the vaterite structure. The first observations of lattice distortions in biogenic crystals,13,50–52 compared to synthetic and geological samples, was attributed to the occlusion of organic materials within the crystal structure. Further investigations, using heating experiments, demonstrated the loss of the organic material and relaxation of the lattice strain.13,51 Much work has followed using additives in precipitation and the observation of similar lattice distortions to biogenic crystals therefore suggested a similar occlusion method.12 While this occlusion has previously been quantified in the literature using chemical analysis, the important factor considered here is that lattice parameter changes can be attributed to additive occlusion. The lack of lattice distortions for the vaterite samples observed here could suggest that the additive is not occluded in the vaterite structure. This has implications for the role of additives during the crystallisation pathway, how and when they may be occluded into the calcite structure, and the mechanism of vaterite stabilisation, as discussed below.
Fig. 5 The polymorph indicator for the controls, individual additives and for all the samples with additives. |
The reduction in the polymorph indicator beneath the controls highlights the stabilisation of the metastable vaterite via a range of additives, particularly for the polar amino acids (Asn, Gln, Ser, Thr) which have a higher number of vaterite-containing samples. In contrast, only Lys, PimAci and SucAci are all dominated by calcite relative to the controls. Indeed, out of 659 samples, just one sample contained only the vaterite polymorph – this was a Ser sample. Note that the Ser additive series as a whole generally contain both vaterite and calcite, as indicated by a polymorph indicator of 1.06667. The remaining 658 samples all contained either a mixture of both polymorphs or only the calcite polymorph. The stabilisation of vaterite can happen in several ways: the surface absorption of additive on the vaterite lattice planes may prevent vaterite dissolution and subsequent reprecipitation into calcite or alternatively the additive could be inhibiting calcite formation.
Aspartic acid and glutamic acid are widely studied additives in the context of calcium carbonate crystallisation. This is due to the frequency of Asp and Glu residues found in biological matrices. Aspartic acid was found to have a greater influence on the calcite c lattice parameter than glutamic acid in other CaCO3 crystallisations reported. The mean standard deviation in Fig. 7 is around 50% larger for glutamic acid as for aspartic acid, which is the inverse of the trends reported elsewhere. For example Borukhin et al. found that Asp was incorporated at higher concentration into calcite crystals than Glu, giving rise to a larger lattice distortion.12 Variations in experimental parameters might explain these differences, including concentration of additives and solutions,61 pH and the method (e.g. direct mixing versus vapour diffusion or titration). There is up to 100 times more additive in our reaction solutions compared to others in the literature. This will directly influence the kinetics through the availability of the calcium ions for reaction with the carbonates due to competing binding interactions with the additive functional groups.
Fig. 7 Standard deviations for calcite c for controls, individual additives, and all samples with additives. |
The polar amino acids give rise to a relatively large calcite c standard deviation but also have a higher polymorph indicator, as discussed above. This raises questions about whether polar additives may strongly affect the energetics of the reaction by destabilising the calcite structure. The transformation of vaterite to calcite would therefore be less favourable, which would result in a larger number of vaterite containing samples.
Fig. 8 Standard deviations for vaterite a for controls, individual additives, and all samples with additives. |
This work identifies a few exceptions to this trend, including some additives with negatively charged (Asp and Glu) and positively charged (Arg) side chains. All have standard deviations that are greater than the standard deviation of the Controls, but these differences are 30 times smaller than for calcite c. Electrostatic interactions have been highlighted as playing a role in the occlusion of additives in calcite and this result indicates they are also important in vaterite formation. There is little literature about the impact of negatively/positively charged amino acid side chains on vaterite, apart from aspartic acid,62 although amine side-groups have been reported to stabilise vaterite through interactions with certain vaterite crystallographic planes.63–65 This would directly affect the crystal structure, although clearly these interactions are much weaker for vaterite than calcite.
The smaller deviations for the hydrophobic side chains (excluding Trp) are evident here for both polymorphs, suggesting that occlusion for this grouping of additives is overall lower than for other groups. For the hydrophobic additives, Ile and Val especially show a relatively small standard deviation for calcite c and vaterite a, suggesting less variability in the structure compared to the controls. Interestingly Val samples, and to some extent Ile samples, have a lower number of vaterite samples, demonstrated by a high polymorph indicator (Fig. 5). Previous work on Val indicates that it has minimal interaction with the growth process of the calcite crystallites.12,19,22,66 However, the chemical parameters for the other hydrophobic additives are very similar, which leaves questions as to why the also hydrophobic Trp and Ala have more variability in the structure compared to Ile and Val. Areas for further investigation in this could include exploring the effect of additive size or reaction enthalpies.
There are many stages where the additive can shape the reaction pathway and become occluded in the structure(s).55,59 However, given that the reaction is occurring in water, hydrophobic additives would have less favourable interaction with ions in solution or forming solid crystal planes. This contrasts with the polar uncharged series, where the polar nature of the additive could lead to electrostatic interactions. This is reflected in the larger standard deviation for calcite c in this series.
For vaterite, the electrically charged additives (particularly Arg, Asp and Glu) have the greatest influence on vaterite a, whilst also influencing calcite c. This is perhaps highlighting the nature of the sites available in the vaterite structures for additive binding. Interestingly the dicarboxylic acid series (MalAci and SucAci) has a similar trend to the electrically charged series, suggesting the additive interactions could be similar in both cases, and the importance of charged interactions.
Additive concentration was intentionally selected in this work to give a range of additive: calcium in ratios from 0:1 up to 2:1, and to ensure the additive was soluble in the solution. As discussed above, the standard deviations cover all the concentrations of a given additive and were used in this analysis as they summarise a large number of samples compared to only using the lattice parameters for the maximum concentration (Fig. 6 above). However, the question remains about the effect of concentration. In plotting the lattice parameter mean for each polymorph for each additive (Fig. 10), this can be compared to the size of the standard deviation. This indicates the range of lattice parameter change due to different concentrations, represented by the error bars in Fig. 10. This highlights that in this range of concentrations, the individual additive has more of an effect than the concentration. Overall, changes across additive type are bigger than changes in the concentration of the same additive. For example, changing from Lys to Asp under these conditions would have more of an impact on the lattice parameter than changing concentration of Lys.
Fig. 10 The mean lattice parameter of calcite c (top) and vaterite a (below), presented on the same relative scale and categorised according to the additive groupings. The error bars represent the range of lattice parameter for all concentrations of a given additive. A plot with expanded y-axis for vaterite is available in the ESI.‡ |
What is clear from the results here, and in the extremely wide body of literature studies, is that the effect an additive, such as an amino acid, has on the crystal polymorph and lattice spacing is complex and depends on many interrelated factors. Nonetheless, studies such as this continue to provide important information in terms of the role of different additive functional groups on the crystal structure and help build towards a predictive model of the influence of additives, essential for being able to design and tailor material properties using biomimetic approaches.
Here we have highlighted the importance of comparing the influence of the additive on both the vaterite and calcite polymorphs to determine the nature of its role in the crystallisation process. The large sample set investigated here was extremely useful for a more statistical analysis of the datasets, and these samples were made possible through a citizen science approach. It is also important to continue to investigate the influence of the additives at different time points during the process, for example through in situ studies, to better elucidate the interactions of the additive with the solutions and forming crystals and determine how and when the occlusion into the structure occurs.
Here the high throughput capabilities of the robotic sample changing system, and fast data collection ability, of Beamline I11 at Diamond Light Source was showcased by collecting the diffraction patterns of 800 samples of calcium carbonate in 24 hours. The citizen science project to carry out this study provides a successful demonstration of the potential benefits of these types of approach to areas of synchrotron science. Rigorous analysis of citizen science produced samples has also enabled meaningful scientific conclusions to be drawn regarding the effect of amino acids on the lattice parameters of calcite and vaterite. This ability to explore a wide parameter space in sample conditions, whilst providing continued educational and scientific engagement benefits for the students and teachers involved, can we hope in future be applied to other materials synthesis investigations.
Footnotes |
† The full diffraction dataset is available on Zenodo: https://doi.org/10.5281/zenodo.7871450 |
‡ Electronic supplementary information (ESI) available: Methods, tables of structural data, data for the additional vaterite cells, plots of the mean values for calcite a and vaterite c, the Project M Scientist's Methodology, alternative text for the figures and the full list of Project M Scientist names are available as supplementary material. See DOI: https://doi.org/10.1039/d3ce01173a |
§ Both authors contributed equally to the manuscript. |
This journal is © The Royal Society of Chemistry 2024 |