3D visualization of bioerosion in archaeological bone

Palaeoradiology is increasingly being used in archaeological and forensic sciences as a minimally invasive alternative to traditional histological methods for investigating bone microanatomy and its destruction by diagenetic processes. To better understand ancient mortuary practices, taphonomic studies using microCT scanning methods are gaining an ever more important role. Recently it was demonstrated that 2D virtual sections obtained by microCT scanning of intact samples are comparable to physical sections for the rating and diagnosis of bioerosion in archaeological bone. Importantly, volume image data obtained from tomographic methods also allow the rendering and analysis of 3D models. Building on these methods we provide (1) detailed descriptions of bioerosion in 3D volume renderings, virtual sections, and traditional micrographs, and (2) accessible techniques for the visualization of bioerosion in skeletal samples. The dataset is based on twenty-eight cortical bone samples, including twenty femora (of which five are cremated), two ribs, two parietals, one mandibular ramus, one humerus, and two faunal long bones from five archaeological sites in Lower Austria dating from the Early Neolithic to the Late Iron Age. Notably, we reduce the need for time-consuming image segmentation by sequentially applying two noise-reducing, edge-preserving filters, and using an image-display transfer function that visualizes bioerosion, as well as Haversian and Volkmann canal structure and density in 3D. In doing so we are also able to visualize in 3D the invasion of canals by microbiota, which has previously only been reported in 2D sections. Unlike conventional thin sections, the 3D volume images shown here are easy to create and interpret, even for archaeologists inexperienced in histology, and readily facilitate the illustration and communication of microtaphonomic effects

Substantiating microCT for diagnosing bioerosion in archaeological bone using a new Virtual Histological Index (VHI)

Recent technological advances have broadened the application of palaeoradiology for non-destructive investigation of ancient remains. X-ray microtomography (microCT) in particular is increasingly used as an alternative to histological bone sections for interpreting pathological alterations, trauma, microstructure, and, more recently, bioerosion with direct or ancillary use of histological indices. However, no systematic attempt has been made to confirm the reliability of microCT for histotaphonomic analysis of archaeological bone. The objective of this study is therefore to compare thin sections of human femora rated with the Oxford Histological Index to microCT sections using the newly developed Virtual Histological Index in order to provide an accessible methodology for the evaluation of bioerosion in archaeological bone. We provide detailed descriptions of virtual sections and assess the efficacy of the method on cranial and postcranial elements, cremated long bones, and faunal samples. The traditional histological and virtual methods showed a strong correlation, providing the first systematic data substantiating lab-based microCT as a suitable alternative tool for reconstructing post-mortem history in the archaeological record, and for the reliable, non-destructive screening of samples for further analyses

The preburning condition of Chalcolithic cremated human remains from the Perdigoes enclosures (Portugal)

The Iberian Chalcolithic displayed a remarkable variety of funerary practices, which has been related to interpopulation differences, intrapopulation social-cultural differences, and complex multistage funerary rituals. Perdigoes, a Chalcolithic set of ditched enclosures, reflects such diversity including a wide array of funerary practices. Among those practices is cremation, which, despite relatively rare, is represented in different structures in Perdigoes. One of these structures (Pit 40) presents an unparalleled high minimum number of individuals (n = 240), contrasting with nearby and coeval structures. In this study, we analyse heat-induced bone changes and other archaeothanatological variables to tentatively assess the preburning condition of the human remains. The results of Pit 40 are also compared with other comparable contexts to assess if this unique context presents further funerary differences relative to those other contexts in, for example, body processing. Our results suggest preferential cremation of fleshed human remains, but burning of at least a minority of skeletonised remains and deposition of possibly unburned remains also likely occurred. Body processing appears to be comparable with that of the cremation contexts of Perdigoes but contrasts with that of another nearby context (Dolmen of Olival da Pega 2b) in which burned bones were also found.Portuguese Foundation for Science and TechnologyPortuguese Foundation for Science and Technology [PEst-OE/SADG/UI0283/2013, POCI-01-0145-FEDER-016766, PTDC/EPH-ARQ/0798/2014, PTDC/IVC-ANT/1201/2014, SFRH/BPD/84268/2012]info:eu-repo/semantics/publishedVersio

Ancient Plasmodium genomes shed light on the history of human malaria

Malaria-causing protozoa of the genus Plasmodium have exerted one of the strongest selective pressures on the human genome, and resistance alleles provide biomolecular footprints that outline the historical reach of these species1. Nevertheless, debate persists over when and how malaria parasites emerged as human pathogens and spread around the globe1,2. To address these questions, we generated high-coverage ancient mitochondrial and nuclear genome-wide data from P. falciparum, P. vivax and P. malariae from 16 countries spanning around 5,500 years of human history. We identified P. vivax and P. falciparum across geographically disparate regions of Eurasia from as early as the fourth and first millennia bce, respectively; for P. vivax, this evidence pre-dates textual references by several millennia3. Genomic analysis supports distinct disease histories for P. falciparum and P. vivax in the Americas: similarities between now-eliminated European and peri-contact South American strains indicate that European colonizers were the source of American P. vivax, whereas the trans-Atlantic slave trade probably introduced P. falciparum into the Americas. Our data underscore the role of cross-cultural contacts in the dissemination of malaria, laying the biomolecular foundation for future palaeo-epidemiological research into the impact of Plasmodium parasites on human history. Finally, our unexpected discovery of P. falciparum in the high-altitude Himalayas provides a rare case study in which individual mobility can be inferred from infection status, adding to our knowledge of cross-cultural connectivity in the region nearly three millennia ago.This project was funded by the National Science Foundation, grants BCS-2141896 and BCS-1528698; the European Research Council (ERC) under the European Union’s Horizon 2020 programme, grants 851511-MICROSCOPE (to S. Schiffels), 771234-PALEoRIDER (to W.H.) and starting grant 805268-CoDisEASe (to K.I.B.); and the ERC starting grant Waves ERC758967 (supporting K. Nägele and S.C.). We thank the Max Planck-Harvard Research Center for the Archaeoscience of the Ancient Mediterranean for supporting M. Michel, E. Skourtanioti, A.M., R.A.B., L.C.B., G.U.N., N.S., V.V.-M., M. McCormick, P.W.S., C.W. and J.K.; the Kone Foundation for supporting E.K.G. and A.S.; and the Faculty of Medicine and the Faculty of Biological and Environmental Sciences at the University of Helsinki for grants to E.K.G. A.S. thanks the Magnus Ehrnrooth Foundation, the Sigrid Jusélius Foundation, the Finnish Cultural Foundation, the Academy of Finland, the Life and Health Medical Foundation and the Finnish Society of Sciences and Letters. M.C.B. acknowledges funding from: research project PID2020-116196GB-I00 funded by MCIN/AEI/10.13039/501100011033; the Spanish Ministry of Culture; the Chiang Ching Kuo Foundation; Fundación Palarq; the EU FP7 Marie Curie Zukunftskolleg Incoming Fellowship Programme, University of Konstanz (grant 291784); STAR2-Santander Universidades and Ministry of Education, Culture and Sports; and CEI 2015 project Cantabria Campus Internacional. M.E. received support from the Czech Academy of Sciences award Praemium Academiae and project RVO 67985912 of the Institute of Archaeology of the Czech Academy of Sciences, Prague. This work has been funded within project PID2020-115956GB-I00 ‘Origen y conformación del Bronce Valenciano’, granted by the Ministry of Science and Innovation of the Government of Spain, and grants from the Canadian Institutes for Health Research (MZI187236), Research Nova Scotia (RNS 2023-2565) and The Center for Health Research in Developing Countries. D.K. is the Canada research chair in translational vaccinology and inflammation. R.L.K. acknowledges support from a 2019 University of Otago research grant (Human health and adaptation along Silk Roads, a bioarchaeological investigation of a medieval Uzbek cemetery). P.O. thanks the Jane and Aatos Erkko Foundation, the Finnish Cultural Foundation and the Academy of Finland. S. Peltola received support from the Emil Aaltonen Foundation and the Ella and Georg Ehrnrooth Foundation. D.C.S.-G. thanks the Generalitat Valenciana (CIDEGENT/2019/061). E.W.K. acknowledges support from the DEEPDEAD project, HERA-UP, CRP (15.055) and the Horizon 2020 programme (grant 649307). M. Spyrou thanks the Elite program for postdocs of the Baden-Württemberg Stiftung. Open access funding provided by Max Planck Society

Pots, chicken and building deposits: the archaeology of folk and official religion during the High Middle Ages in the Basque Country

In this paper, a particular type of unusual archaeological deposits found at some high medieval (12–13th centuries CE) sites located in the Basque Country (northern Iberian Peninsula) is examined. These structured deposits consist of inverted pottery vessels containing the remains of a chicken, placed in pits created on purpose for keeping them, and are generally found in archaeological contexts related to the foundation or reconstruction of public buildings, including churches and city walls. The implications of the occurrence of these rituals in Christian contexts are discussed in the framework of folk religion, suggesting that medieval religion was hybrid and dynamic, even after the Gregorian Reform (11th century CE) that, supposedly, unified the Christian administration and liturgy. It is suggested that the occurrence of such public ritual practices in the Basque Country during the High Middle Ages might be related to the formation and negotiation of new social and political communities

Feline low-grade alimentary lymphoma: an emerging entity and a potential animal model for human disease

Background: Low-grade alimentary lymphoma (LGAL) is characterised by the infiltration of neoplastic T-lymphocytes, typically in the small intestine. The incidence of LGAL has increased over the last ten years and it is now the most frequent digestive neoplasia in cats and comprises 60 to 75% of gastrointestinal lymphoma cases. Given that LGAL shares common clinical, paraclinical and ultrasonographic features with inflammatory bowel diseases, establishing a diagnosis is challenging. A review was designed to summarise current knowledge of the pathogenesis, diagnosis, prognosis and treatment of feline LGAL. Electronic searches of PubMed and Science Direct were carried out without date or language restrictions. Results: A total of 176 peer-reviewed documents were identified and most of which were published in the last twenty years. 130 studies were found from the veterinary literature and 46 from the human medicine literature. Heterogeneity of study designs and outcome measures made meta-analysis inappropriate. The pathophysiology of feline LGAL still needs to be elucidated, not least the putative roles of infectious agents, environmental factors as well as genetic events. The most common therapeutic strategy is combination treatment with prednisolone and chlorambucil, and prolonged remission can often be achieved. Developments in immunohistochemical analysis and clonality testing have improved the confidence of clinicians in obtaining a correct diagnosis between LGAL and IBD. The condition shares similarities with some diseases in humans, especially human indolent T-cell lymphoproliferative disorder of the gastrointestinal tract. Conclusions: The pathophysiology of feline LGAL still needs to be elucidated and prospective studies as well as standardisation of therapeutic strategies are needed. A combination of conventional histopathology and immunohistochemistry remains the current gold-standard test, but clinicians should be cautious about reclassifying cats previously diagnosed with IBD to lymphoma on the basis of clonality testing. Importantly, feline LGAL could be considered to be a potential animal model for indolent digestive T-cell lymphoproliferative disorder, a rare condition in human medicine