The paper by Brown & Lewis [1] presents an approach to measure seasonal mobility and subsistence practices. In order to do so, the paper proposes a Bayesian mixture model to estimate the annual distribution of shellfish harvesting activity. Following the recommendations of the two reviewers, the paper presents a clear and innovative method to assess seasonal mobility for prehistoric groups, although it could benefit from additional references regarding isotopic literature.

While the adequacy of isotope analysis for estimating mobility patterns in Archaeology has been extensively proven by now, work on specific seasonal mobility is not that much abundant. However, this is a key issue, since seasonal mobility is one of the main social components defining the differences between groups both considering farming vs hunting and gathering or even among hunter-gatherer groups themselves. In this regard, the paper brings a valuable methodological resources that can be used for further research in this issue.

One of its greatest values is the fact that it can quantify the uncertainty present in previous isotope studies in seasonal mobility. As stated by the authors, the model can still undergo several optimisation aspects, but as it stands, it is already providing a valuable asset regarding the quantification of uncertainy in the isotopic studies of seasonal mobility.

Reference

[1] Brown, J. and Lewis, G. (2024). Inferring shellfishing seasonality from the isotopic composition of biogenic carbonate: A Bayesian approach. Zenodo, 7949547, ver. 3 peer-reviewed and recommended by Peer Community in Archaeology. https://doi.org/10.5281/zenodo.7949547

This recommended paper on the IUENNA project (Hagmann and Reiner 2023) is not a paper in the traditional sense, but it is a reworked version of a project proposal. It is refreshing to read about a project that has just started and see what the aims of the project are. This ties in with several open science ideas and standards (e.g. Brinkman et al. 2023). I am looking forward to see in a few years how the authors managed to reach the aims and goals of the project.

The IUENNA project deals with the legacy data and old excavations on the Hemmaberg and in the Jauntal. Archaeological research in this small, but important region, has taken place for more than a century, revealing material from over 2000 years of human history. The Hemmaberg is well known for its late antique and early medieval structures, such as roads, villas and the various churches. The wider Jauntal reveals archaeological finds and features dating from the Iron Age to the recent past. The authors of the paper show the need to make sure that the documentation and data of these past archaeological studies and projects will be accessible in the future, or in their own words: "Acute action is needed to systematically transition these datasets from physical filing cabinets to a sustainable, networked virtual environment for long-term use" (Hagmann and Reiner 2023: 5).

The papers clearly shows how this initiative fits within larger developments in both Digital Archaeology and the Digital Humanities. In addition, the project is well grounded within Austrian archaeology. While the project ties in with various international standards and initiatives, such as Ariadne (https://ariadne-infrastructure.eu/) and FAIR-data standards (Wilkinson et al. 2016, 2019), it would benefit from the long experience institutes as the ADS (https://archaeologydataservice.ac.uk/) and DANS (see Data Station Archaeology: https://dans.knaw.nl/en/data-stations/archaeology/) have on the storage of archaeological data. I would also like to suggest to have a look at the Dutch SIKB0102 standard (https://www.sikb.nl/datastandaarden/richtlijnen/sikb0102) for the exchange of archaeological data. The documentation is all in Dutch, but we wrote an English paper a few years back that explains the various concepts (Boasson and Visser 2017). However, these are a minor details or improvements compared to what the authors show in their project proposal. The integration of many standards in the project and the use of open software in a well-defined process is recommendable.

The IUENNA project is an ambitious project, which will hopefully lead to better insights, guidelines and workflows on dealing with legacy data or documentation. These lessons will hopefully benefit archaeology as a discipline. This is important, because various (European) countries are dealing with similar problem, since many excavations of the past have never been properly published, digitalized or deposited. In the Netherlands, for example, various projects dealt with publication of legacy excavations in the Odyssee-project (https://www.nwo.nl/onderzoeksprogrammas/odyssee). This has led to the publication of various books and datasets (24) (https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:34359), but there are still many datasets (8) missing from the various projects. In addition, each project followed their own standards in creating digital data, while IUENNA will make an effort to standardize this. There are still more than 1000 Dutch legacy excavations still waiting to be published and made into a modern dataset (Kleijne 2010) and this is probably the case in many other countries. I sincerely hope that a successful end of IUENNA will be an inspiration for other regions and countries for future safekeeping of legacy data.

References

Boasson, W and Visser, RM. 2017 SIKB0102: Synchronizing Excavation Data for Preservation and Re-Use. Studies in Digital Heritage 1(2): 206–224. https://doi.org/10.14434/sdh.v1i2.23262

Brinkman, L, Dijk, E, Jonge, H de, Loorbach, N and Rutten, D. 2023 Open Science: A Practical Guide for Early-Career Researchers https://doi.org/10.5281/zenodo.7716153

Hagmann, D and Reiner, F. 2023 IUENNA – openIng the soUthErn jauNtal as a micro-regioN for future Archaeology: A ‘para-description’. https://doi.org/10.31219/osf.io/5vwg8

Kleijne, JP. 2010. Odysee in de breedte. Verslag van het NWO Odyssee programma, kortlopend onderzoek: ‘Odyssee, een oplossing in de breedte: de 1000 onuitgewerkte sites, die tot een substantiële kennisvermeerdering kunnen leiden, digitaal beschikbaar!’ ‐ ODYK‐09‐13. Den Haag: E‐depot Nederlandse Archeologie (EDNA). https://doi.org/10.17026/dans-z25-g4jw

Wilkinson, MD, Dumontier, M, Aalbersberg, IjJ, Appleton, G, Axton, M, Baak, A, Blomberg, N, Boiten, J-W, da Silva Santos, LB, Bourne, PE, Bouwman, J, Brookes, AJ, Clark, T, Crosas, M, Dillo, I, Dumon, O, Edmunds, S, Evelo, CT, Finkers, R, Gonzalez-Beltran, A, Gray, AJG, Groth, P, Goble, C, Grethe, JS, Heringa, J, ’t Hoen, PAC, Hooft, R, Kuhn, T, Kok, R, Kok, J, Lusher, SJ, Martone, ME, Mons, A, Packer, AL, Persson, B, Rocca-Serra, P, Roos, M, van Schaik, R, Sansone, S-A, Schultes, E, Sengstag, T, Slater, T, Strawn, G, Swertz, MA, Thompson, M, van der Lei, J, van Mulligen, E, Velterop, J, Waagmeester, A, Wittenburg, P, Wolstencroft, K, Zhao, J and Mons, B. 2016 The FAIR Guiding Principles for scientific data management and stewardship. Scientific Data 3(1): 160018. https://doi.org/10.1038/sdata.2016.18

Wilkinson, MD, Dumontier, M, Jan Aalbersberg, I, Appleton, G, Axton, M, Baak, A, Blomberg, N, Boiten, J-W, da Silva Santos, LB, Bourne, PE, Bouwman, J, Brookes, AJ, Clark, T, Crosas, M, Dillo, I, Dumon, O, Edmunds, S, Evelo, CT, Finkers, R, Gonzalez-Beltran, A, Gray, AJG, Groth, P, Goble, C, Grethe, JS, Heringa, J, Hoen, PAC ’t, Hooft, R, Kuhn, T, Kok, R, Kok, J, Lusher, SJ, Martone, ME, Mons, A, Packer, AL, Persson, B, Rocca-Serra, P, Roos, M, van Schaik, R, Sansone, S-A, Schultes, E, Sengstag, T, Slater, T, Strawn, G, Swertz, MA, Thompson, M, van der Lei, J, van Mulligen, E, Jan Velterop, Waagmeester, A, Wittenburg, P, Wolstencroft, K, Zhao, J and Mons, B. 2019 Addendum: The FAIR Guiding Principles for scientific data management and stewardship. Scientific Data 6(1): 6. https://doi.org/10.1038/s41597-019-0009-6

In this paper (Linsel/Bullenkamp/Mara 2024), the authors propose an automatic system for scar-ridge-pattern detection on palaeolithic artefacts based on Morse Theory. Scare-Ridge pattern recognition is a process that is usually done manually while creating a drawing of the object itself. Automatic systems to detect scars or ridges exist, but only a small amount of them is utilizing 3D data. In addition to the scar-ridges detection, the authors also experiment in automatically detecting the operational sequence, the temporal relation between scars and ridges. As a result, they can export a traditional drawing as well as graph models displaying the relationships between the scars and ridges.

After an introduction to the project and the practice of documenting palaeolithic artefacts, the authors explain their procedure in automatising the analysis of scars and ridges as well as their temporal relation to each other on these artefacts. To illustrate the process, an open dataset of lithic artefacts from the Grotta di Fumane, Italy, was used and 62 artefacts selected. To establish a Ground Truth, the artefacts were first annotated manually. The authors then continue to explain in detail each step of the automated process that follows and the results obtained.

In the second part of the paper, the results are presented. First the results of the segmentation process shows that the average percentage of correctly labelled vertices is over 91%, which is a remarkable result. The graph modelling however shows some more difficulties, which the authors are aware of. To enhance the process, the authors rightfully aim to include datasets of experimental archaeology in the future. They also aim to develop a way of detecting the operational sequence automatically and precisely.

This paper has great potential as it showcases exactly what Digital and Computational Archaeology is about: The development of new digital methods to enhance the analysis of archaeological data. While this procedure is still in development, the authors were able to present a valuable contribution to the automatization of analytical archaeology. By creating a step towards the machine-readability of this data, they also open up the way to further steps in machine learning within Archaeology.

Bibliography

Linsel, F., Bullenkamp, J. P., and Mara, H. (2024). Linking Scars: Topology-based Scar Detection and Graph Modeling of Paleolithic Artifacts in 3D, Zenodo, 8296269, ver. 3 peer-reviewed and recommended by Peer Community in Archaeology. https://doi.org/10.5281/zenodo.8296269

Data authenticity and approaches to data authentication are crucial issues in ancient protein research. The advent of modern mass spectrometry has enabled the detection of traces of ancient biomolecules contained in fossils, including protein sequences. However, detecting proteins in ancient samples does not equate to demonstrating their endogenous nature: instead, if the mechanisms that drive protein preservation and degradation are understood, then the extent of protein diagenesis can be used for evaluating preservational quality, which in turn may be related to the authenticity of the protein data. 

The post-mortem deamidation of asparaginyl and glutamyl residues is a key degradation reaction, which can be assessed effectively on the basis of mass spectrometry data, and which has accrued a long history of research, both in terms of describing the mechanisms governing the reactions and with regard to the best strategies for assessing and quantifying the extent of glutamine (Gln) and asparagine (Asn) deamidation in ancient samples (Pal Chowdhury et al., 2019; Ramsøe et al., 2021, 2020; Schroeter and Cleland, 2016; Simpson et al., 2016; Solazzo et al., 2014; Welker et al., 2016; Wilson et al., 2012). 

In their paper, Nair and colleagues (2022) build on this wealth of knowledge and present a tool for quantifying the extent of Gln deamidation in parchment. Parchment is a collagen-based material which can yield extraordinary insights into manuscript manufacturing practices in the past, as well as on the daily lives of the people who assembled and used them (“biocodicology”) (Fiddyment et al., 2021, 2019, 2015; Teasdale et al., 2017). Importantly, the extent of deamidation can be directly related to the quality of the parchment produced: rapid direct deamidation of Gln is induced by the liming process, therefore high extents of deamidation are linked to prolonged exposure to the high pH conditions which are typical of liming, thus implying lower-quality parchment.

Nair et al.’s approach focuses on collagen peptides which are typically detected during MALDI-TOF mass spectrometry analyses of parchment and build a simple three-step workflow able to yield an overall index of deamidation for a sample (the parchment glutamine index - PQI) 一 taking into account that different Gln residues degrade at different rates according to their micro-chemical environment. The first step involves pre-processing the MALDI spectra, since Nair et al. are specifically interested in maximising information which can be obtained by low-quality data. The second step builds on well-established methods for quantifying Q → E from MALDI-TOF data by modelling the convoluted isotope distributions (Wilson et al., 2012). Once relative rates of deamidation in selected peptides within a given sample are calculated, the third step uses a mixed effects model to combine the individual deamidation estimates and to obtain an overall estimate of the deamidation for a parchment sample (PQI). 

The PQI can be used effectively for assessing parchment quality, as the authors show for the dataset from Orval Abbey. However, PQI could also have wider applications to the study of processed collagen, which is widely used in the food and pharmaceutical industries. In general, the study by Nair et al. is a welcome addition to a growing body of research on protein diagenesis, which will ultimately improve models for the assessment of the authenticity of biomolecular data in archaeology. 

References

Chowdhury, P.M., Wogelius, R., Manning, P.L., Metz, L., Slimak, L., and Buckley, M. 2019. Collagen deamidation in archaeological bone as an assessment for relative decay rates. Archaeometry 61:1382–1398. https://doi.org/10.1111/arcm.12492

Fiddyment, S., Goodison, N.J., Brenner, E., Signorello, S., Price, K., and Collins, M.J.. 2021. Girding the loins? Direct evidence of the use of a medieval parchment birthing girdle from biomolecular analysis. bioRxiv. https://doi.org/10.1098/rsos.202055

Fiddyment,S., Holsinger, B., Ruzzier, C., Devine, A., Binois, A., Albarella, U., Fischer, R., Nichols, E., Curtis, A., Cheese, E., Teasdale, M.D., Checkley-Scott, C., Milner, S.J., Rudy, K.M., Johnson, E.J., Vnouček, J., Garrison, M., McGrory, S., Bradley, D.G., and Collins, M.J. 2015. Animal origin of 13th-century uterine vellum revealed using noninvasive peptide fingerprinting. Proc Natl Acad Sci U S A 112:15066–15071. https://doi.org/10.1073/pnas.1512264112

Fiddyment, S., Teasdale, M.D., Vnouček, J., Lévêque, É., Binois, A., and Collins, M.J. 2019. So you want to do biocodicology? A field guide to the biological analysis of parchment. Heritage Science 7:35. https://doi.org/10.1186/s40494-019-0278-6

Nair, B., Rodríguez Palomo, I., Markussen, B., Wiuf, C., Fiddyment, S., and Collins, M. Parchment Glutamine Index (PQI): A novel method to estimate glutamine deamidation levels in parchment collagen obtained from low-quality MALDI-TOF data. BiorRxiv, 2022.03.13.483627, ver. 6 peer-reviewed and recommended by Peer community in Archaeology. https://doi.org/10.1101/2022.03.13.483627 

Ramsøe, A., Crispin, M., Mackie, M., McGrath, K., Fischer, R., Demarchi, B., Collins, M.J., Hendy, J., and Speller, C. 2021. Assessing the degradation of ancient milk proteins through site-specific deamidation patterns. Sci Rep 11:7795. https://doi.org/10.1038/s41598-021-87125-x

Ramsøe, A., van Heekeren, V., Ponce, P., Fischer, R., Barnes, I., Speller, C., and Collins, M.J. 2020. DeamiDATE 1.0: Site-specific deamidation as a tool to assess authenticity of members of ancient proteomes. J Archaeol Sci 115:105080. https://doi.org/10.1016/j.jas.2020.105080

Schroeter, E.R., and Cleland, T.P. 2016. Glutamine deamidation: an indicator of antiquity, or preservational quality? Rapid Commun Mass Spectrom 30:251–255. https://doi.org/10.1002/rcm.7445

Simpson, J.P., Penkman, K.E.H., and Demarchi, B. 2016. The effects of demineralisation and sampling point variability on the measurement of glutamine deamidation in type I collagen extracted from bone. J Archaeol Sci 69: 29-38. https://doi.org/10.1016/j.jas.2016.02.002

Solazzo, C., Wilson, J., Dyer, J.M., Clerens, S., Plowman, J.E., von Holstein, I., Walton Rogers, P., Peacock, E.E., and Collins, M.J. 2014. Modeling deamidation in sheep α-keratin peptides and application to archeological wool textiles. Anal Chem 86:567–575. https://doi.org/10.1021/ac4026362

Teasdale, M.D., Fiddyment, S., Vnouček, J., Mattiangeli, V., Speller, C., Binois, A., Carver, M., Dand, C., Newfield, T.P., Webb, C.C., Bradley, D.G., and Collins M.J. 2017. The York Gospels: a 1000-year biological palimpsest. R Soc Open Sci 4:170988. https://doi.org/10.1098/rsos.170988

Welker, F., Soressi, M.A., Roussel, M., van Riemsdijk, I., Hublin, J.-J., and Collins, M.J. 2016. Variations in glutamine deamidation for a Châtelperronian bone assemblage as measured by peptide mass fingerprinting of collagen. STAR: Science & Technology of Archaeological Research 3:15–27. https://doi.org/10.1080/20548923.2016.1258825

Wilson, J., van Doorn, N.L., and Collins, M.J. 2012. Assessing the extent of bone degradation using glutamine deamidation in collagen. Anal Chem 84:9041–9048. https://doi.org/10.1021/ac301333t

The paper entitled “Platforms of Palaeolithic knappers reveal complex linguistic abilities” [1] submitted by C. Gaucherel and C. Noûs represents an interesting reflection about the possibilities to detect the human cognitive abilities in relation to the lithic production.

The definition and the study of human cognitive abilities during the Lower Palaeolithic it has always been a complex field of investigation. The relation between the technical skills (lithic production) and the emergence of the linguistic abilities is not easy to investigate due to the difficulty of finding objective data to refer to. The proposition, made by C. Gaucherel and C. Noûs, of a formal grammar of knapping as a method to study the syntactical organisation of the reduction sequences, constitute a new and theoretical useful approach.

In order to effectively and precisely define the gestures linked to a specific reduction sequence, for example that of the handaxes shaping, a very large number of variables should be taken into consideration (morphology and quality of the raw material, experience of the knapper, context, percussion technique, forecast of use of the handaxe, etc.). But since a simplification, that brings more elements than the classic one [2,3] is needed, the “action grammar approach” can be a good instrument to detect the common element in a shaping reduction sequence. Furthermore, one of the advantages of the proposed methodology lies in the fact that the definition of the different STs (Stone Technology) can be done according to the technological specific characteristics to be studied and to the type of instrument produced.

The deconstruction of knapping sequences could help to detect the degree of complexity of the different steps of the reduction sequences also thanks to the identification of the sub-actions types. The increasing/decreasing of complexity is a very complicate concept in lithic technology. Since at the base of the lithic production there are two basic concepts (angle between the striking platform and the debitage surface - convexity of the debitage/façonnage surface) which are simply declined in an increasingly complex way, it is not easy to define uniquely in what exactly consists the increase in complexity. The approach proposed in the paper “Platforms of Palaeolithic knappers reveal complex linguistic abilities” can help to have new evidences, according to the identification of the required cognitive abilities.

The proposed example of formal grammar still needs to be confirmed on archaeological collections, but it is probable that a practical application will allow to further develop the methodology and possibly to highlight additional possibilities of the approach.

Bibliography

[1] Gaucherel, C. and Noûs C. (2020). Platforms of Palaeolithic knappers reveal complex linguistic abilities. Paleorxiv, wn5za, ver. 6 peer-reviewed and recommended by PCI Archaeology. doi: 10.31233/osf.io/wn5za
[2] Inizian, M. L., Reduron, M., Roche, H. and Tixier, J. (1995). Technologie de la pierre taillée. Préhistoire de la Pierre Taillée 4, Cercle de Recherches et d'Etudes Préhistoriques d'Antibes, Meudon.
[3] Tixier, J., Inizian, M. L. and Roche, H. (1980). Terminologie et technologie. Préhistoire de la pierre taillée 1, Cercle de Recherches et d'Etudes Préhistoriques d'Antibes, Meudon.