Proteomic invetsigations of archaeological ceramics from Tell Khaiber
Ontology highlight
ABSTRACT:
INSTRUMENT(S): LTQ Orbitrap Elite
ORGANISM(S): Glycine Max X Glycine Soja
SUBMITTER: 
Manasij Pal Chowdhury
LAB HEAD: Dr. Michael Buckley
PROVIDER: PXD022507 | Pride | 2022-08-09
REPOSITORIES: Pride
Similar Datasets
Project description:The detection of dairy processing is pivotal to our understanding of ancient subsistence strategies. This culinary process is linked to key arguments surrounding the evolution of lactase persistence in prehistory. Despite extensive evidence indicating the presence of dairy products in ceramics in the European Neolithic, questions remain about the nature and extent of milk (and lactose) processing and consumption. In order to investigate past patterns of dairy processing, here we analyse ancient proteins identified from Late Neolithic Funnel Beaker ceramics, scrutinising the principle that curd and whey proteins partition during the production of dairy foods from milk. Our results indicate the presence of casein-rich dairy products in these vessels suggesting the creation of curd-enriched products from raw milk. Moreover, this analysis reveals the use of multiple species for their dairy products in the Late Neolithic Funnel Beaker culture, adding to a growing body of evidence that multiple taxa were exploited for dairying in the Neolithic. Alongside palaeoproteomic analysis we also apply lipid residue analysis, with discrepancies in these two approaches suggesting that effects from isotope mixing may be underestimating the frequency of milk use in prehistoric pottery, highlighting the utility of a multi-stranded approach.
2023-05-10 | PXD037913 | Pride
Project description:Ceramic vessels were used to cook fish/duck/black grouse, and proteomic studies were conducted on the ceramics to study how the choice of various database can affect the species identification and whether they can allow us to differentiate between fish and bird processing in ceramic vessels.
2022-11-11 | PXD027720 | Pride
Project description:The detection of dairy processing is pivotal to our understanding of ancient subsistence strategies. This culinary process is linked to key arguments surrounding the evolution of lactase persistence in prehistory. Despite extensive evidence indicating the presence of dairy products in ceramics in the European Neolithic, questions remain about the nature and extent of milk (and lactose) processing and consumption. In order to investigate past patterns of dairy processing, here we analyse ancient proteins identified from Late Neolithic Funnel Beaker ceramics, scrutinising the principle that curd and whey proteins partition during the production of dairy foods from milk. Our results indicate the presence of casein-rich dairy products in these vessels suggesting the creation of curd-enriched products from raw milk. Moreover, this analysis reveals the use of multiple species for their dairy products in the Late Neolithic Funnel Beaker culture, adding to a growing body of evidence that multiple taxa were exploited for dairying in the Neolithic. Alongside palaeoproteomic analysis we also apply lipid residue analysis, with discrepancies in these two approaches suggesting that effects from isotope mixing may be underestimating the frequency of milk use in prehistoric pottery, highlighting the utility of a multi-stranded approach.
2023-05-10 | PXD037912 | Pride
Project description:Ceramic vessels were used to cook a mixture of milk, meat (pork and beef) and cereals (wheat and barley), and proteomic studies were conducted on the ceramics to study the absorption and subsequent extraction and identification of the proteins from th various categories of foodstuff. A novel Deep Eutectic Solvent-based extraction procedure was also trialled and its efficacy compared with the standard GuHCl-based extraction procedure.
2022-11-11 | PXD028994 | Pride
Project description:Ceramic vessels were used to cook fish/duck/black grouse, and proteomic studies were conducted on the ceramics to study how the choice of various database can affect the species identification and whether they can allow us to differentiate between fish and bird processing in ceramic vessels. We also employed a novel urea-GuHCl DES as the extraction reagent, and compared its efficiency with the conventional 6M GuHCl used for protein extraction (data available in project PXD027720). The samples used were same as the samples used in Peoject PXD027720, with a urea-GuHCl DES used as the extraction reagent instead of 6M GuHCl solution.
2022-11-11 | PXD029035 | Pride
Project description:Genetic, linguistic, and archaeological studies have demonstrated the existence of strong links between eastern and southern Africa over the past millennia, including the diffusion of the first domesticated sheep and goats. However, the proportions at which they were introduced into past human subsistence strategies in Africa is difficult to assess archaeologically, as caprines share skeletal features with a number of wild bovids. Palaeoproteomics has proven effective at retrieving biological information from archaeological remains in African arid contexts. Using published collagen sequences and generated de novo ones of wild bovids, we present the molecular (re-)attribution of remains morphologically identified as sheep/goat or unidentifiable bovids from seventeen archaeological sites distributed between eastern and southern Africa and spanning seven millennia. More than 70% of the remains were identified and the direct radiocarbon dating of domesticates specimens allowed the chronological refinement of the arrival of caprines in both African regions. Our results further substantiate a predominance of sheep in the assemblages along with a similar arrival chronology. Beyond adding substantial biological data to the field of (palaeo-)proteomics, it is the first large-scale palaeoproteomics investigation to include both eastern and southern African sites, opening promising future applications of the method on the continent.
2023-11-08 | PXD045452 | Pride
Project description:Despite the growing body of evidence demonstrating that proteins can survive for thousands to even millions of years in selected contexts, there are relatively few examples of the successful recovery and identification of archaeological protein residues from ceramic artifacts. Claims of positive results are sometimes contentious and frequently challenged. One source of confusion in the debate is a general lack of consideration for the taphonomic histories of ceramic-bound proteins. To gain insight into this issue, we conducted an integrated, mass-spectrometry-based study examining ceramic-bound protein that was experimentally aged over the course of 12 months. By documenting the degradation of proteins after 1, 6 and 12 months of aging, we were able to provide insight into our lack of meaningful results obtained from a selection of archaeological ceramics.
2018-12-24 | PXD009431 | Pride
Project description:Archaeological latrine sediment Raw sequence reads
| PRJNA640385 | ENA
Project description:archaeological waterlogged wood Raw sequence reads
| PRJNA689910 | ENA
Project description:Proteomics is continually being applied to a wider range of applications, now including the analysis of archaeological samples and anatomical specimens, in particular, collagen-containing tissues such as bones and teeth. Here we present the application of a chemi-cal digestion-based proteomics sample preparation protocol to the analysis of fresh, anatomical and archaeological samples. We are describing and discussing two protocols, one using hydroxylamine as an additional step of the proteomic workflow, applied to the insoluble fraction, and another focusing directly on demineralized bones and teeth. We demonstrate the additional information that can be extracted using both protocols, including increasing the sequence coverage and number of peptides detected in modern and archaeological samples, and increasing the number of proteins identified in archaeological samples. Targeting research related to collagens or extracellular matrix proteins, the use of this protocol will open new insights considering both fresh and ancient mineral-ized samples.
2024-03-28 | PXD046969 | Pride