Proteomics

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Palmer et al: Dental Method Comparison

ABSTRACT: 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.

INSTRUMENT(S): LTQ Orbitrap Elite, Q Exactive

ORGANISM(S): Homo Sapiens (human)

SUBMITTER: Karren Palmer  

LAB HEAD: Michael Buckley

PROVIDER: PXD023399 | Pride | 2021-02-19

REPOSITORIES: Pride

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Action DRS
OB1_KP01.DC-FIR14_SOL_EB.raw Raw
OB1_KP01.DC-FIR14_SOL_EB.raw.mgf Mgf
OB1_KP01.DC-FIR14_SOL_EB_F030736.dat Other
OB1_KP02.DC-FIR15_SOL_EB.raw Raw
OB1_KP02.DC-FIR15_SOL_EB.raw.mgf Mgf
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Publications

Comparing the Use of Magnetic Beads with Ultrafiltration for Ancient Dental Calculus Proteomics.

Palmer Karren S KS   Makarewicz Cheryl A CA   Tishkin Alexey A AA   Tur Svetlana S SS   Chunag Amartuvshin A   Diimajav Erdenebaatar E   Jamsranjav Bayarsaikhan B   Buckley Michael M  

Journal of proteome research 20210217 3

Over the past two decades, proteomic analysis has greatly developed in application to the field of biomolecular archaeology, coinciding with advancements in LC-MS/MS instrumentation sensitivity and improvements in sample preparation methods. Recently, human dental calculus has received much attention for its well-preserved proteomes locked in mineralized dental plaque which stores information on human diets and the oral microbiome otherwise invisible to other biomolecular approaches. Maximizing  ...[more]

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