Dataset Information

Ancient proteins extracted from ceramic residues

ABSTRACT: Ancient proteins were extracted from ceramic vessels from the West Mound of the key early farming site of Çatalhöyük, dating to the early 6th millennium BC. This analysis revealed that barley, wheat, pulses, as well as goat, sheep and bovinae dairy and meat products were contained in ceramic vessels. Moreover, this demonstrates that dietary proteins can be identified from archaeological artefacts from up to 6,000 BC and that this approach can unlock detailed evidence of past culinary practices, with more taxonomic and tissue-specific clarity than has been possible with previous biomolecular techniques.

INSTRUMENT(S): Orbitrap Fusion Lumos, Q Exactive

ORGANISM(S): Hordeum Vulgare (barley) Ovis Aries Pisum Sativum (garden Pea) Capra Hircus (goat) Triticum Aestivum (wheat)

SUBMITTER: Jessica Hendy

LAB HEAD: Jessica Hendy

PROVIDER: PXD008647 | Pride | 2018-10-04

REPOSITORIES: Pride

ACCESS DATA

Publications

Ancient proteins from ceramic vessels at Çatalhöyük West reveal the hidden cuisine of early farmers.

Hendy Jessica J Colonese Andre C AC Franz Ingmar I Fernandes Ricardo R Fischer Roman R Orton David D Lucquin Alexandre A Spindler Luke L Anvari Jana J Stroud Elizabeth E Biehl Peter F PF Speller Camilla C Boivin Nicole N Mackie Meaghan M Jersie-Christensen Rosa R RR Olsen Jesper V JV Collins Matthew J MJ Craig Oliver E OE Rosenstock Eva E

Nature communications 20181003 1

The analysis of lipids (fats, oils and waxes) absorbed within archaeological pottery has revolutionized the study of past diets and culinary practices. However, this technique can lack taxonomic and tissue specificity and is often unable to disentangle signatures resulting from the mixing of different food products. Here, we extract ancient proteins from ceramic vessels from the West Mound of the key early farming site of Çatalhöyük in Anatolia, revealing that this community processed mixes of c ...[more]

PMID: 30283003

Similar Datasets

Project description:Medulloblastoma is subdivided into different subgroups: WNt, SHH, Group 3 and Group 4. Since these subgroups are associated with different OS and metastasis rates it is crucial to understand them better. Six medulloblastoma cell lines, DAOY, ONS-76, D458, HD-MB03, CHLA-01-MED, CHLA-01R-MED, have been sequenced to compare them with medulloblastoma patient data. Methods: Medulloblastoma cell lines representating the different subgroups have been cultured and cell were harvested and RNA was isolated when 70% confluency was reached. In detail, DAOY and D458 were grown in DMEM (Thermo Fisher) with 10% FBS (HyClone, Thermo Fisher), ONS-76 and HD-MB03 were grown in RPMI 1640 (Sigma-Aldrich) with 10% FBS and CHLA-01-MED and CHLA-01R-MED were grown in DMEMF12 supplemented with B27, 20 ng/ml EGF and 20 ng/ml bFGF (all Thermo Fisher). All cells were maintained at 37 °C in a humidified atmosphere containing 5% CO2. During the course of this study, all cell lines were routinely confirmed to be mycoplasma negative (MycoAlert, Lonza, Basel, Switzerland).Cell pellets of at least 100,000 cells were washed with HBSS and frozen in liquid nitrogen. For homogenization, ceramic spheres (Lysing Matrix D, MP Biomedicals, Santa Ana, California, USA) and the FastPrep-24 homogenizer was used (MP Biomedicals, speed 4 m/s, tube holder MP:24*2 and time 20 s). Total RNA was isolated from 2D pellets using the NucleoSpin RNA Plus Kit (Macherey-Nagel, Düren, Germany) according to the manufacturer’s instructions. In total, 3 biological replicates of each cell line were processed respectively. RNA amount was determined using the Qubit RNA BR kit with the Qubit 4 (both ThermoFisher). Library preparation and RNA sequencing (transcriptome sequencing including lncRNA on Illumina PE150) were performed by Novogene (Cambridge, UK) Company Limited, Cambridge, UK. Samples with less than 100 ng or with non-qualifying RIN values were excluded from the sequencing. All prepared libraries successfully passed Novogene’s internal quality control checks and were sequenced. Following sequencing, quality control of the sequencing data was performed that confirmed all samples had high quality scores, indicating good technical performance of the sequencing. We used FastQC to perform quality checks of raw RNA data followed by adapter and low quality read filtering using the Cutadapt package (version 1.16.6) [reference]. The trimmed paired-end sequences were aligned with the human genome (hg38) and Gencode annotation (v35) using the STAR (version 2.7.5b) alignment tool. Unique reads from genomic alignment were processed and we used the featureCount tool for transcript abundance quantification. STAR read counts were used as input into edgeR. Genes with read counts greater than 10 in three or more samples were kept for subsequent analyses. After normalization analyses, counts per million (cpm) on a log2 scale were used for downstream exploratory analyses.

Dataset Information

Ancient proteins extracted from ceramic residues

Publications

Ancient proteins from ceramic vessels at Çatalhöyük West reveal the hidden cuisine of early farmers.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure