Abstract
Introduction:
Foraminiferal shells are extensively used to reconstruct the marine environment in the geological past. The foraminifera test-bound organic material (FBOM), sheltered by the test from potential diagenetic alteration and contamination, has great feasibility to improve our understanding of carbon and nitrogen cycling. The FBOM δ13C has been proposed as a proxy for reconstructing past environmental conditions. However, to fully exploit the proxy potential of FBOM, its molecular composition and the influence of the latter on the FBOM δ13C need to be assessed.
Method:
Here we use a novel combination of gas chromatography-mass spectrometry, flame ionization detection (GC-MS/FID) and liquid chromatography organic carbon and nitrogen detection (LC-OCD/ OND) analyses to study the FBOM chemical composition.
Results:
Our results indicate that polysaccharides and proteins dominate FBOM, as proposed by earlier studies, with no evidence of detectable lipids (alkyl lipids, trimethylsilyl ethers of fatty alcohols, trimethylsilyl esters of fatty acids and steranes derivatives were targeted).
Discussion:
Previous studies suggested that FBOM δ13C may be used to reconstruct past atmospheric CO2 concentrations. However, our results indicate that the use of FBOM δ13C to reconstruct CO2 carries an approximate uncertainty of ±21 ppm for past atmospheric CO2 abundance. We suggest that FBOM δ13C can be used as a novel proxy to reconstruct particulate organic material (POM) δ13C. This is also supported by the recently confirmed minor fractionation between POM and FBOM δ13C.
1 Introduction
The calcite making up foraminifera hard shells (called the ‘test’) has been extensively used to study biogeochemical cycling in the oceans. The carbon isotopic composition of foraminifera calcite tests (δ13C) has been widely applied to infer changes in carbon cycling between the oceans and land/atmosphere reservoirs, as well as ocean circulation (; ; ; ). Foraminifera grow in size by adding consecutive chambers, that are connected to previous chambers through the foramen. Calcification of these chambers takes place through precipitation of calcite on the inner and outer side of a thin organic sheet, that has been called organic primary envelope, primary organic lining, anlage, or primary organic membrane (e.g., ; ). This organic template is not technically a membrane, and therefore we will refer to it as primary organic sheet (POS), following the suggestion of and the recommendation of . With every new chamber added, a layer of calcite is also precipitated upon previous chambers, and the entire test is then covered by an outer organic layer (). The POS and much of the outer organic layer, excluding the last chamber, will be sheltered by the calcite test, giving them a chance of being preserved in fossil foraminifera tests. We assume that the inner organic layer, which separates the foraminifera chambers from the cytoplasm, has a lower preservation potential since it is not entirely protected by the calcium carbonate test (Figure 1).
Figure 1
Foraminifera test-bound organic material (FBOM), represented by the POS and the outer organic layer, is not widely utilized for molecular organic geochemical analysis. Current applications of FBOM include the analysis of nitrogen isotopes to study the past nitrogen cycle (; ; ; ; ; ). A few studies have looked at the possibility of FBOM δ13C values as a proxy to reconstruct atmospheric CO2 concentrations (; ; ). All these studies have in common that FBOM δ13C appears 4.5 to 7 ‰ 13C-depleted (more negative δ13C values) compared to that of regional particulate organic matter (POM), contrary to trophic inferences (; ). argue that their depleted FBOM δ13C values compared with that of POM is due to a substantial amount of lipids contained within planktonic foraminifera organic matter. This explanation contrasts with other studies suggesting that FBOM is predominantly composed of polysaccharides and proteins (; ; ; ; ; ; ; ).
To assess whether FBOM has a significant lipid content, we analyzed its composition through gas and liquid chromatography. Gas chromatography–flame ionization detection (GC-FID) is used for separating and analyzing compounds that can be vaporized without decomposition and allows detection of trace amounts of organic carbon containing compounds (; ). Gas chromatography–mass spectrometry (GC-MS) is an analytical technique used to identify organic substances within complex and heterogenous sample mixtures (; ). Liquid chromatography with organic carbon and nitrogen detection (LC-OCD/OND) is a separation analytical technique for the identification and quantification of natural organic matter constituents in aquatic environments and water-soluble synthetic organic matter in waters (; ).
2 Materials and methods
2.1 Material
The sample material used in this study was collected from Ocean Drilling Program (ODP) Site 1088C () (Figure 2). The samples were obtained from 0-1 (1.57 ka) and 3-4 cm depth (2.93 ka), as represented in Table 1. The age model for ODP Site 1088 is based on oxygen isotope (δ18O) stratigraphy, aligning the planktonic foraminifera species Globigerina bulloides δ18O record of to that of the nearby ODP Site 1090 of (Appendix Figure S1). For the δ18O analysis ~40 specimens of G. bulloides were picked from the >300 μm size fraction and analyzed using a VG Prism (isotope ratio mass spectrometer) at the Department of Earth Sciences (University of Oxford). Calibration was to Vienna Pee Dee Belemnite via NBS19 standards (precision 0.07 ‰).
Figure 2
Table 1
| Analysis | Top (cm) | Bot (cm) | Depth (mbsf) | Age (ka) | δ18O‰ G. bulloides | Species |
|---|---|---|---|---|---|---|
| GC-FID | ||||||
| 3 | 4 | 0.03 | 2.93 | 2.09 | G. inflata | |
| GC-MS | ||||||
| 0 | 1 | 0.01 | 1.57 | 2.20 | Mixed G. inflata and G. bulloides | |
| LC-OCD/OND | ||||||
| 0 | 1 | 0.01 | 1.57 | 2.20 | Mixed G. inflata and G. bulloides | |
Details of sediment sample used from Site 1088, Leg 177, Hole C Section 1, Core 1.
The organic carbon content of fossil foraminifera is very low, with FBOM content ranging between 0.04% and 0.1% (; ). To allow meaningful analyses, we collected a minimum of 50 mg material per sample, following the example of .
2.2 Foraminifera cleaning procedure
Bulk sediment samples were sieved over a 63 μm sieve using distilled water. Sieved samples were dried in an oven at a maximum temperature of 40°C and individual planktonic foraminifera species were picked under a binocular microscope using a picking brush. Foraminifera species picked include Globorotalia inflata and G. bulloides.
For the steps that followed the picking, all glassware used was combusted in an oven at 450°C for at least 4 hours. Before preparing the samples for both GC and LC analyses, samples were cleaned using the following steps:
1) Planktonic foraminifera were gently crushed between two glass plates.
2) Crushed samples were transferred to 33 ml glass test-tubes. 2 ml of 18.2 MΩ•cm deionized water that passed through a UV oxidizer (DI Water), was added, and the tubes were placed in an ultrasonic bath (room temperature) for 30 seconds to disaggregate clays and other small, adhered particles. Then, crushed foraminiferal shells were allowed to settle at the bottom of the test-tube, and the supernatant fraction containing the disaggregated clays and other small particles, was pipetted out. This procedure was repeated until there were no more visible dispersed particles (a minimum of four repetitions were needed) (; ).
3) Following the ultrasonication step, a bleach treatment was executed to oxidize the remaining organic material attached to the foraminifera tests and further reduce the chance of potential contamination. Samples were soaked in 20 ml of 12% sodium hypochlorite (NaOCl) for 4 hours and agitated for 30 seconds every half hour using an ultrasonic bath (under a fume hood). The planktonic foraminifera in our analyzed samples contain between 0.02% and 0.03% of organic carbon (C). show that in 5 to 10 mg of sample material there is 10 μmol/g organic N, which would represent 0.007 to 0.014% of the total sample. Taking into consideration the average Redfield ratio of C:N of 163:22, under the same circumstances, the amount of organic C would be around 0.04 to 0.08%. Our lower values suggest that all adhered organic C was removed (). Following this treatment NaOCl was removed, and the samples were rinsed with DI Water six times. A final ultrasonic treatment was carried out before the last rinse to ensure all NaOCl was removed. Samples were oven dried at 40°C.
2.3 Gas chromatography
First, we carried out a GC-FID analysis on a monospecific sample of G. inflata to assess the presence of detectable non-halogenated organic carbon. As can be seen from the results section, lipids were not detected. To save time on picking samples, we subsequently used mixed species samples (G. bulloides and G. inflata) for our GC-MS analyses.
2.3.1 Total lipid extraction for GC-MS/FID analysis
Inorganic carbon was removed using a hydrochloric acid vapor treatment (HCl, ~37% [12 M]) executed at room temperature (). HCl was added to the lower part of a glass desiccator, and the samples were left to interact with the acid for 48 hours. Thereafter, if there were still bubbles, indicating that the reaction was still in progress, samples were left in the desiccator for an additional 24 hours (i.e., 72 hr total). After each 24-hour interval, the samples were gently dried at 40°C for at least two hours and the acid inside the desiccator was replaced.
Total lipid extraction [TLE] was carried out using a modified Bligh-Dyer approach () by adding ~1 ml of 2:1 dichloromethane:methanol (DCM : MeOH) before ultrasonicating the samples for 30 seconds, stirring and transferring into new 2 ml vials. This process was repeated two times. Sparged, solvent-extracted DI Water (1 ml) was added to react with the more polar compounds. The solvent containing the extracted lipids was transferred into high recovery 2 ml vials using glass Pasteur pipettes. Sample extracts were left in a fume hood for 24 hours to air dry completely. Before initial analysis of TLE, the samples were derivatized with 25 μl N, O-Bistrifluoroacetamide (BSTFA) to detect more polar compounds viz. fatty alcohols and acids ().
2.3.2 GC-MS/FID analysis
10 μl of hexane was added and the samples were analyzed via a standalone Trace 1310 GC (GC-FID) fitted with a programmable temperature vaporizer (PTV) injector and 30 m DB-5SilMS low-bleed column and a Single Quadrupole (ISQ) MS coupled with a Trace 1300 GC (GC/MS). 1 μl injections were used for both the GC-FID and GC-MS analyses (Table 1). Injector temperature was 310°C and GC ovens were ramped from 60°C to 320°C at 6°C/min. The resulting chromatographs of the two experiments were analyzed using Chromeleon™ Chromatography Data System (CDS) Software. In our GC-MS analysis two samples were analyzed for m/z 85, whilst three samples were analyzed for m/z 103, m/z 117 and m/z 207 (Appendix, Figures S3-S6).
Gas chromatographic analyses were carried out to assess the lipid content of FBOM. FID provides maximum sensitivity and linearity for non-halogenated organic carbon detection, suitable for identifying compounds with very low concentrations (detection limit: 10 pg organic carbon on-column). In fact, the detection limit of FID is about 10 times better than the MS (; ), this is because FID uses a flame rather than electron impact for ionization. In contrast, MS is ideal for compound identification (assuming the compounds are at high enough concentration to be identified). MS can focus on individual ion fragments (so-called ‘selected ion monitoring’ [SIM] mode), whereas FID turns all the organic carbon into CO2. MS ion fragments allow a strategic way to check the FID results because we can target diagnostic ions (for instance, m/z 85 is representative of the C6H13+ ion that derives from all alkyl lipids with six or more carbons in them). The use of target ions also increases the signal/noise ratio of selected peaks relative to using total ion counts (TIC, that sums all the ion fragments comprising a peak) or FID (because all the carbon is turned into undifferentiable CO2). With our GC-MS analysis we targeted ion m/z 85, m/z 103, m/z 117 and m/z 207 to assess the presence of alkyl lipids, trimethylsilyl (TMS) ethers of fatty alcohols, TMS esters of fatty acids and sterane derivatives, respectively, in the analyzed FBOM (). We targeted ion m/z 207 also to highlight the presence of column degradation derived siloxanes.
2.4 Liquid chromatography
Three new Holocene planktonic foraminifera samples were analyzed in triplicate using liquid chromatography. For the same reason as the GC-MS analyses we chose to use samples that were composed of the two dominant species G. inflata and G. bulloides. To assess whether different sample treatments could impact our liquid chromatography analyses, we split the samples into three:1- an untreated sample, 2 an ultrasonicated sample, and 3- an acidified sample.
2.4.1 Sample preparation for LC analysis
The three sample sets were initially crushed into a powder and 2 ml of DI Water was added before shaking them for 24 h at 160 revolutions per minute (rpm). The first sample did not undergo any further treatment. The second sample was ultrasonicated for 30 minutes. The third sample was dried, and acid vaporized, so that only the organic material remained, and then 2 ml of DI Water was added to the acidified sample. The third sample did not receive an ultrasonication. For the first two samples, the liquid fraction was used, whilst for the third sample both the liquid fraction and the decarbonated sample were used. 1 ml of DI Water was added to all three samples to make up the injection volume.
2.4.2 LC-OCD/OND analysis
Samples were filtered (0.45 µm, polyethersulfone) and analyzed for dissolved organic matter (DOM). This was done using liquid chromatography with an organic carbon detector (OCD), a UV detector (UVD) measuring at 254 nm, and an organic nitrogen detector (OND) (for details see ). The detection limit for organic carbon is 0.5-50 μg/L as specified in the operational manual. LC-OCD-UVD-OND, allows ~1 ml of sample volume to be injected onto a size exclusion column (SEC, HW50S, Tosoh, Japan, 2 ml/min) with a phosphate buffer (potassium dihydrogen phosphate 1.2 g/L plus 2 g/L di-sodium hydrogen phosphate x 2 H2O, pH 6.58). This sample is then separated into five “compound-group specific” natural organic matter (NOM) fractions according to molecular size. Larger molecules elute earlier as they are excluded from the column gel and small molecules elute later as they have a longer flow path through the column gel. NOM fractions include: (i) biopolymers (likely hydrophobic, high molecular weight, largely non-UV absorbing extracellular polymers (>20 kDa)), (ii) “humic substances” (HS) (lower molecular weight, UV absorbing (~1000 Da)), (iii) “building blocks” (lower molecular weight, UV absorbing HS (300-500 Da)), (iv) low molecular weight acids (LMW acids) (<350 Da), and (v) low molecular weight “neutrals” (LMW neutrals) (hydro- or amphiphilic, non-UV absorbing (<350Da)) as described by . For the calibration of molecular weights, two Suwannee River standards III (Humic and Fulvic acids) from the International Humic Substance Society (IHSS) were used. Identification of HS in environmental samples is based on retention times and hydrophobicity (UV signal). For the calibration of the detectors and quantification of compounds, potassium hydrogenphthalate and potassium nitrate were used. All peaks were identified and quantified using DOC-Labor ChromCALC.
3 Results
3.1 Gas chromatography
GC-FID results of derivatized TLEs are shown in Figure 3, and GC-MS results are shown in Figure 4 instead. We also analyzed a paleo sample from the last glacial maximum, which we compared with our modern sample (Appendix Figure S2). Both Holocene (Figure 3) and glacial GC-FID chromatograms look similar to the blank indicating that no major lipid-related peaks were identified in the samples analyzed and suggesting that lipids do not tend to make up the FBOM at this location. In the GC-MS chromatograms (Figure 4) the only detectable peaks were the ones related to siloxanes derived from column degradation (diagnosed through m/z 207 traces and NIST library). The influence of siloxanes is also highlighted by the “plateau” shown in the GC-FID analysis after minute 45 and the isolated peak (~minute 9) (Figure 3). No peaks representing alkyl lipids (including alkanes, alcohols and fatty acids) (m/z 85), TMS ethers of hydroxyacids or alcohols (m/z 103), TMS esters of fatty acids (m/z 117) or sterane derivatives (m/z 207) were detected in our GC-MS analysis (Figure 4).
Figure 3
Figure 4
3.2 Liquid chromatography
The liquid chromatograms are shown in Figure 5. All three samples show three distinct fractions corresponding to HS, building blocks and LMW neutrals, whilst peaks representing LMW acids and biopolymers were not detected ().
Figure 5
For the chromatograms related to the untreated sample, the average total amount of carbon in the HS fraction was 178 µg/l (20% of the total dissolved organic carbon (DOC)), whilst the DOC related to the building blocks peak was 197 µg/l (22%), and the total amount of DOC represented by the LMW neutrals was 519 µg/l (58%). For the chromatograms of the ultrasonicated sample, the average total amount of DOC in the HS fraction was 136 µg/l (13%), whereas building blocks and LMW neutrals corresponded to 159 µg/l (16%) and 723 µg/l (71%), respectively. Finally, in the chromatograms of the acidified sample, it is noted that the average total amount of DOC in the HS fraction was 1888 µg/l (25%), whilst the building blocks fraction accounted for 1628 µg/l (21%) and LMW neutrals was 4156 µg/l (54%) (Figures 5,6A). LMW neutrals represented the main fraction in all samples. In the acidified sample the total DOC concentration was approximately eight times higher in comparison to the other two samples (Figure 5D). This is likely due to the acid vapour treatment releasing the organic carbon that was previously bound to the calcite test and facilitated the dissolution of labile organic material into the acid but full remineralisation to CO2.
Figure 6

(A) Summary of relative contributions to DOC of planktonic foraminifera. (B) Dissolved Nitrogen (green) and Carbon (black) fractions of planktonic foraminifera dissolved organic matter.
The dissolved organic nitrogen (DON) signal showes three distinct peaks in all the chromatograms, related to nitrate, urea and ammonium (Figures 5A–C) and, similarly to the DOC signal, there was an increase in DON detected in relation to the acidified sample. The mol C: mol N ratio was calculated based on the integrated and quantified areas of both organic carbon and nitrogen individual fractions. C:N ratios of the samples were very similar, ratios of 6.29, 5.81 and 6.92 were obtained for the untreated sample, the ultrasonically treated sample and the acidified sample, respectively (percentages of C and N are shown in Figure 6B).
4 Discussion
4.1 Absence of lipids in FBOM
Typical deep-sea sediment samples contain abundant long-chain n-alkyl lipid homologues that provide evidence for input of organic matter from both marine and terrestrial sources. Compounds such as alkenones, n-alcohols and fatty acids are commonly present in deep-sea sediments’ lipid extracts (
The hypothesis of a substantial lipids’ contribution to FBOM was recently suggested by
The presence of symbionts could represent another possible explanation for depleted FBOM δ13C values (compared to POM). Foraminifera can be characterized as symbiont bearing, facultative symbiont bearing and symbiont barren species.
In a recent study,
Furthermore, in the study of
4.2 Composition of labile FBOM
Organic material can be split into labile and recalcitrant components. Labile compounds, such as carbohydrates and proteins, are highly reactive and easily degradable. On the contrary, recalcitrant compounds, such as fats, are more stable and difficult to degrade or dissolve. In this study size-exclusion liquid chromatography was used to assess the composition of the organic compounds associated with FBOM which can be dissolved in water and detected by the LC-OCD.
Our results reveal that the soluble FBOM contains HS, building blocks and LMW neutrals (Figure 5) and the relative proportion of these three groups did not seem to vary significantly between the untreated (sample 1), ultrasonicated (sample 2) and acidified (sample 3) samples (Figure 6). The absence of biopolymers such as polysaccharides and proteins (which have a relatively high molecular weight) (Figure 5) contrasts with previous works that assessed that these are the main constituents of FBOM (
Seawater HS are defined as high molecular weight organic substances. They are major constituents of oceanic sediments, and they are thought to be mostly of phytoplankton origin (
An important difference between the first two samples (Figures 5A, B) and the acidified sample (Figure 5C) is that the amount of organic carbon detected in the latter is 8 times higher (Figure 5D). However, a second difference between the samples is the fact that the acidified sample displays two LMW neutral peaks, which are absent in the first two samples. This important difference may be attributed to acidification causing the dissolution and potential break-down of organic substances that do not easily dissolve in water. This could be other proteins, polysaccharides, or lipids (less likely), that are acid soluble.
Whilst HS could be composed of smaller lipid components, LMW neutrals, which represent the smaller constituents of lower molecular weight proteins and polysaccharides/monosaccharides, are significantly more abundant (Figure 6). If the dissolved organic matter we analyzed with the LC-OCD were to mainly represent the chemical composition of FBOM, then these results would also suggest that FBOM is mainly composed of lower molecular weight polysaccharides/monosaccharides and proteins, and not lipids.
As shown in Figure 6A, ultrasonication treatment resulted in a slight change in ratio related to FBOM composition compared to the untreated sample.
It is thought that samples that contain substantial lipids have a high C:N ratio (
4.3 Proxy potential of FBOM δ13C
FBOM δ13C has been proposed as a potential proxy to reconstruct past atmospheric CO2 (
Furthermore, the choice of the foraminifera species and the methodology might not be the main factors impacting the potential of FBOM δ13C as a past atmospheric CO2 proxy. Knowing the past sea-surface temperatures (SSTs) and atmospheric CO2 concentrations, the δ13C of POM (δ13Corg-POM) and the δ13C of dissolved inorganic carbon (δ13Cin) of the last 20,000 years, we can assess the uncertainties associated with the reconstruction of atmospheric CO2 concentrations in the past. We obtained the δ13Cin from
5 Conclusions
Here we use a combination of LC-OCD/OND and GC-MS/FID analyses to determine the FBOM molecular composition. The LC-OCD/OND results presented here indicate that our foraminiferal sample material mainly consists of HS, building blocks and LMW neutrals, which are mainly representative of monosaccharides, lower molecular weight polysaccharides and proteins. This is also supported by the relatively low C:N ratio obtained which indicates that the DOM analyzed contains relative high quantities of proteins. Furthermore, no alkanes, alcohols or fatty acids peaks were detected by our GC-MS/FID analyses, highlighting the absence of lipid compounds inside the analyzed FBOM. Additionally, FBOM δ13C appears to be ideally suited to reconstruct δ13C of particulate organic material from the surface ocean, which would help improving our understanding of carbon cycling.
Statements
Data availability statement
The original contributions presented in the study are included in the article/Supplementary Material. Further inquiries can be directed to the corresponding authors.
Author contributions
TP and BH created the concept and design of the study. TP and CM conducted the GC-MS analysis. TP, AN, and RP conducted the LC-OCD/OND analysis. TP prepared the figures and managed the data. TP and BH contributed to the writing of the first draft of the manuscript. AN, RP, EM, LJ, and CM commented on the first draft of the manuscript. BH provided the sample material (foraminifera) for the analyses. LJ provided the Brazilian Margin GC 04 sample material. All authors contributed to the article and approved the submitted version.
Funding
This work was funded by a Philip Leverhulme Prize and a UKRI FLF to BH (Grant Ref: MR/S034293/1). RP acknowledges financial support to the European Research Council BOOGIE project under the European Union’s Horizon 2020 research and innovation program (grant number 949495). LJ is supported by the Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP project 16/24946–9). EM acknowledges financial support from the Leverhulme Trust (Grant Ref: RL-2019-023).
Acknowledgments
This work benefitted from discussion with Kate Darling, Clare Bird, Catherine Davis, Jennifer Fehrenbacher and Karen Fung. Figure 1 was made by Emanuela Caponi. This research used samples and/or data provided by the Ocean Drilling Program (ODP). ODP is sponsored by the US National Science Foundation and participating countries (Natural Environment Research Council in the UK) under the management of the Joint Oceanographic Institutions (JOI).
Conflict of interest
The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.
Publisher’s note
All claims expressed in this article are solely those of the authors and do not necessarily represent those of their affiliated organizations, or those of the publisher, the editors and the reviewers. Any product that may be evaluated in this article, or claim that may be made by its manufacturer, is not guaranteed or endorsed by the publisher.
Supplementary material
The Supplementary Material for this article can be found online at: https://www.frontiersin.org/articles/10.3389/fmars.2023.1237440/full#supplementary-material
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Summary
Keywords
organic matter, planktonic foraminfera, gas chromatography, liquid chromatography, lipids, particulate organic matter proxy
Citation
Paoloni T, Hoogakker B, Navarro Rodriguez A, Pereira R, McClymont EL, Jovane L and Magill C (2023) Composition of planktonic foraminifera test-bound organic material and implications for carbon cycle reconstructions. Front. Mar. Sci. 10:1237440. doi: 10.3389/fmars.2023.1237440
Received
09 June 2023
Accepted
08 September 2023
Published
26 September 2023
Volume
10 - 2023
Edited by
Renato S. Carreira, Pontifical Catholic University of Rio de Janeiro, Brazil
Reviewed by
Angela Vogts, Leibniz Institute for Baltic Sea Research (LG), Germany; Stergios D. Zarkogiannis, University of Oxford, United Kingdom
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© 2023 Paoloni, Hoogakker, Navarro Rodriguez, Pereira, McClymont, Jovane and Magill.
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*Correspondence: Tommaso Paoloni, tommasopaoloni1@gmail.com; Babette Hoogakker, b.hoogakker@hw.ac.uk
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