Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The spread of herds and horses into the Altai

ABSTRACT: This project explores dietary proteins in human dental calculus through shotgun proteomics

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Dental Plaque

SUBMITTER: Shevan Wilkin

LAB HEAD: Nicole Boivin

PROVIDER: PXD029267 | Pride | 2022-04-06

REPOSITORIES: pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	20180416_107_S177164_Z690_DA-1117ALT-002.mgf	Mgf
	20180416_153_S177159_Z685_DA-1117TSA-058.mgf	Mgf
	20180416_17_S177176_Z702_DA-1117SBR-017.mgf	Mgf
	20180416_25_S177156_Z682_DA-1117TSA-010.mgf	Mgf
	20180416_35_S177170_Z696_DA-1117AKH-020.mgf	Mgf

Items per page:

1 - 5 of 72

Similar Datasets

Proteomic Analysis of Dental Calculus from an Elite Mongol Cemetery

Project description:This project explores dietary proteins in human dental calculus through shotgun proteomics

2023-05-10 | PXD024510 | Pride

Proteomic Evidence of Dietary Sources in Ancient Dental Calculus

Project description:Archaeological dental calculus has emerged as a rich source of ancient biomolecules, including proteins. Previous analyses of proteins extracted from ancient dental calculus revealed the presence of the dietary milk protein β-lactoglobulin, providing direct evidence of dairy consumption in the archaeological record. However, the potential for calculus to preserve other food-related proteins has not yet been systematically explored. Here we analyse shotgun metaproteomic data from 100 archaeological dental calculus samples ranging from the Iron Age to the post-medieval period (8thC BC - 19thC AD) in Britain, as well as dental calculus from contemporary dental patients and recently deceased individuals, to characterise the range and extent of dietary proteins preserved in dental calculus. In addition to milk proteins, we detected proteomic evidence of foodstuffs such as cereals and plant products, as well as the digestive enzyme salivary amylase. We discuss the importance of optimized protein extraction methods, data analysis approaches, and authentication strategies in the identification of dietary proteins from archaeological dental calculus. Our ability to detect dietary proteins, although limited, demonstrates the potential of these methods to robustly identify foodstuffs in the archaeological record that are under-represented due to their poor preservation.

2018-07-18 | PXD009603 | Pride

Dairying enabled Early Bronze Age Yamnaya steppe expansions - additional files

Project description:This project explores dietary proteins in human dental calculus through shotgun proteomics. These files are in addition to those accidentally not included in the original publication, Dairying enabled Early Bronze Age Yamnaya steppe expansions . DOI https://doi.org/10.1038/s41586-021-03798-4. Files include raw, mgf, and mzid files from the two Botai individuals: DA092 (Botai 2A), DA089 (CII(3) 30-40), and additional files from Russian sites: DA431, DA431 (Lebyazhinka 5, LEB N-0), Z333 (Khvalynsk 2, KHA2 N-12), and Z444 (Murziha 2, MUR2 N-128) as well as the blanks used in the experiments. It also inlcludes the corresponding files for DA436, as in the previous upload an under-injected sample was included as the MDF.

2022-05-16 | PXD033607 | Pride

Dairying enabled Early Bronze Age Yamnaya steppe expansions

Project description:Ancient protein analysis of human dental calculus to look for evidence of early milk consumption

2021-08-09 | PXD022300 | Pride

Protein Extraction from Ancient Teeth and Dental Calculus Compatible with Subsequent DNA Extraction

Project description:Dental calculus is becoming a crucial material in the study of past populations, with increasing interest in its proteomic and genomic content. Here we suggest further development of protocol for analysis of ancient proteins and a combined approach for subsequent ancient DNA extraction. We tested the protocol on recent teeth. We then applied the optimised protocol to ancient teeth to limit the destruction of calculus, as it is a precious and irreplaceable source of dietary, microbiological, and ecological information in the archaeological context. Finally, the applicability of the protocol was proven on samples of ancient calculus.

2023-09-11 | PXD042668 | Pride

Dairying supported prehistoric occupation of the highland Tibetan Plateau

Project description:The extreme environments of the Tibetan Plateau offer significant challenges to human survival, demanding novel adaptations. While the role of biological and agricultural adaptations in enabling early human colonization of the plateau has been widely discussed, the contribution of pastoralism is less well understood, especially the dairy pastoralism that has historically been central to Tibetan diets. Here, we analyze preserved proteins from the dental calculus of 40 ancient individuals to report the earliest direct evidence of dairy consumption on the Tibetan Plateau. Our palaeoproteomic results demonstrate that dairy pastoralism began on the higher plateau by approximately 3,500 years ago, more than 2,000 years earlier than the recording of dairying in historical sources. With less than 1% of the Tibetan Plateau dedicated to farmland, pastoralism and the milking of ruminants were essential for large-scale human expansion into agriculturally-marginal regions that make up the majority of the plateau. Dairy pastoralism allowed conversion of abundant grasslands into nutritional human food, which facilitating adaptation in the face of extreme climatic and altitudinal pressures, and maximizing the land area available for long-term human occupation of the “roof of the world”.

2023-03-15 | PXD028538 | Pride

Palmer et al: Dental Method Comparison

Project description:The dental calculus proteome from human remains is a considered a valuable archaeological resource for studying the diet, oral microbiome, health/disease of individuals and occupation activities individuals within past societies/civilisations. The combination of advancements in LC/MS instrument sensitivity and sample prepartion methods enables the analysis of these well preserved proteomes otherwise invisible to other biomolecular approaches. Maximizing proteome recovery from this minute and finite resource is paramount to our understanding of these past societies and civilisations in terms of diet and disease. Here we compare the more traditional ultrafiltration-based and acetone precipitation approaches with the newer paramagnetic bead approach (SP3) in a step towards achieving this aim. We specifically evaluate different acids (EDTA and HCl) and proteome extraction methodologies (Ultrafiltration, Acetone Precipitation and SP3)to test the influence of demineralization acid and method of extraction on the recovered proteome complexity (including numbers of peptides recovered) and sequence coverageand observed for these ancient dental calculus specimens.

2021-02-19 | PXD023399 | Pride

Proteomic Evidence of Ancient Mongolian Dietary Dairy Sources in Ancient Dental Calculus

Project description:To investigate dairy consumption in ancient Mongolia, we analysed dental calculus samples from four Late Bronze Age (LBA, 1500-1000 BCE) individuals for proteomic evidence of milk proteins. As many archaeological sites before Mongolia's Iron Age suffer from a dearth of occupational materials, looking to biomolecular markers of dietary intake can open new investigational avenues into ancient economies. In this case, we use a previously established method of extracting proteins from calculus to explore the consumption of dairy products at LBA Khirigsuur sites in northern Mongolia's Hovsgol Aimag. Seven of nine individual's calculus contained peptides from the whey protein Beta-lactoglobulin from Ovis, Capra hircus, Bos, and general Bovidae species. Aside from proteomics, these and 16 other individuals from the site were analysed for aDNA. We found that 18 of the 20 were primarily from one genetic ancestral group, and Ancient North Eurasian (ANE). One of the outliers represents a combination of ANE and Western Steppe Herder (WSH), with the other a combination of ANE and Eastern Asian (EE). This finding, while important in its own right, evidences the earliest known dairy consumption in Mongolia, and supports a widely held assumption that pastoralism was a primary subsistence strategy in the ancient Eastern Steppes. The combined proteomic and DNA evidence suggest that Western Steppe dairy animals and technology entered Mongolia before genetic admixture.

2018-10-19 | PXD008217 | Pride

Human Dental Calculus_Neolithic_Southern Italy

Project description:Characterisation of the metaproteome of a dental calculus sample extracted from a Neolithic burial, San Lorenzo Bellizzi, Italy (CS).

2023-10-24 | PXD039654 | Pride

Emergence and intensification of dairying in the Caucasus and Eurasian steppes

Project description:Archaeological and archaeogenetic evidence points to the Pontic-Caspian steppe zone between the Caucasus and the Black Sea as the crucible from which the earliest steppe pastoralist societies arose and spread, ultimately influencing populations from Europe to Inner Asia. However, little is known about their economic foundations and the factors that may have contributed to their extensive mobility. Here we investigate the dental calculus proteomes of 45 individuals spanning the Neolithic to Greco-Roman periods in the Pontic-Caspian Steppe and neighboring South Caucasus, Oka-Volga-Don, and East Urals regions.

2021-11-03 | PXD027728 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data