Fish ’n chips: ZooMS peptide mass fingerprinting in a 96 well plate format to identify fish bone fragments

Richter, Kristine Korzow; Wilson, Julie; Jones, Andrew; Buckley, Michael; Doorn, Nienke van; Collins, Matthew J.

doi:10.1016/j.jas.2011.02.014

Cited by 102 publications

(59 citation statements)

References 31 publications

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“…We used matrixassisted laser desorption/ionization mass spectrometry to determine the relative mass-to-charge (m/z) values of the tryptic digest peptides in each bone sample. By comparing these values with a library of known fauna, we identified bones to genus or species in some instance (27)(28)(29)(30)(31). We screened a total of 383 unidentified bone samples from Vindija Cave (levels G1, G3, and stratigraphic unit G1-G3).…”

Section: Methodsmentioning

confidence: 99%

Direct dating of Neanderthal remains from the site of Vindija Cave and implications for the Middle to Upper Paleolithic transition

Devièse

Karavanić

Comeskey

et al. 2017

Proc. Natl. Acad. Sci. U.S.A.

107

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Previous dating of the Vi-207 and Vi-208 Neanderthal remains from Vindija Cave (Croatia) led to the suggestion that Neanderthals survived there as recently as 28,000–29,000 B.P. Subsequent dating yielded older dates, interpreted as ages of at least ∼32,500 B.P. We have redated these same specimens using an approach based on the extraction of the amino acid hydroxyproline, using preparative high-performance liquid chromatography (Prep-HPLC). This method is more efficient in eliminating modern contamination in the bone collagen. The revised dates are older than 40,000 B.P., suggesting the Vindija Neanderthals did not live more recently than others across Europe, and probably predate the arrival of anatomically modern humans in Eastern Europe. We applied zooarchaeology by mass spectrometry (ZooMS) to find additional hominin remains. We identified one bone that is Neanderthal, based on its mitochondrial DNA, and dated it directly to 46,200 ± 1,500 B.P. We also attempted to date six early Upper Paleolithic bone points from stratigraphic units G1, Fd/d+G1 and Fd/d, Fd. One bone artifact gave a date of 29,500 ± 400 B.P., while the remainder yielded no collagen. We additionally dated animal bone samples from units G1 and G1–G3. These dates suggest a co-occurrence of early Upper Paleolithic osseous artifacts, particularly split-based points, alongside the remains of Neanderthals is a result of postdepositional mixing, rather than an association between the two groups, although more work is required to show this definitively.

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Section: Methodsmentioning

confidence: 99%

Direct dating of Neanderthal remains from the site of Vindija Cave and implications for the Middle to Upper Paleolithic transition

Devièse

Karavanić

Comeskey

et al. 2017

Proc. Natl. Acad. Sci. U.S.A.

107

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“…It has been applied more recently to the analysis of proteins in ancient bones (102,103) and eggshells (104), where it allows the identification of species, and has been used to analyse proteinaceous and lipid binders in works of art and wall plasters (105)(106)(107)(108). It has been used to analyze proteinaceous glue from a wooden building (109), to study the photo-degradation of terpenoid varnishes (110), and to assess the condition and penetration of polyethylene glycol in preserved ships (111).…”

Section: New Mass Spectrometric Techniquesmentioning

confidence: 99%

Organic Residues in Archaeology: The Highs and Lows of Recent Research

Steele

2013

ACS Symposium Series

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The analysis of organic residues from archaeological materials has become increasingly important to our understanding of ancient diet, trade and technology. Residues from diverse contexts have been retrieved and analysed from the remains of food, medicine and cosmetics to hafting material on stone arrowheads, pitch and tar from shipwrecks, and ancient manure from soils. Research has brought many advances in our understanding of archaeological, organic residues over the past two decades. Some have enabled very specific and detailed interpretations of materials preserved in the archaeological record. However there are still areas where we know very little, like the mechanisms at work during the formation and preservation of residues, and areas where each advance produces more questions rather than answers, as in the identification of degraded fats. This chapter will discuss some of the significant achievements in the field over the past decade and the ongoing challenges for research in this area.1341280_File000001_20903114.docPrinted 7/19/2013 2

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“…The study of bone proteins and their modifications has emerged as a promising method to better understand and identify bone diseases (e.g., osteoporosis) [1; 2; 3; 4; 5; 6] as well as provide molecular information for extinct taxa [7; 8; 9; 10; 11; 12; 13; 14; 15; 16; 17; 18; 19; 20; 21; 22; 23]. However, because bone is mineralized, analyzing the protein content in bone is more challenging than other non-mineralized tissue.…”

Section: Introductionmentioning

confidence: 99%

Bone protein extraction without demineralization using principles from hydroxyapatite chromatography

Cleland

Vashishth

2015

Analytical Biochemistry

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Historically, extraction of bone proteins has relied on the use of demineralization to better retrieve proteins from the extracellular matrix; however, demineralization can be a slow process that restricts subsequent analysis of the samples. Here, we developed a novel protein extraction method that does not use demineralization, but utilizes a methodology from hydroxyapatite chromatography where high concentrations of ammonium phosphate and ammonium bicarbonate are used to extract bone proteins. We report that this method has a higher yield than previously published small-scale extant bone extractions, with and without demineralization. Furthermore, after digestion with trypsin and subsequent HPLC-MS/MS analysis, we were able to detect several extracellular matrix and vascular proteins in addition to collagen I and osteocalcin. Our new method has the potential to isolate proteins in a short period (4 hrs) and provide information about bone proteins that may be lost during demineralization or with the use of denaturing agents.

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Fish ’n chips: ZooMS peptide mass fingerprinting in a 96 well plate format to identify fish bone fragments

Cited by 102 publications

References 31 publications

Direct dating of Neanderthal remains from the site of Vindija Cave and implications for the Middle to Upper Paleolithic transition

Direct dating of Neanderthal remains from the site of Vindija Cave and implications for the Middle to Upper Paleolithic transition

Organic Residues in Archaeology: The Highs and Lows of Recent Research

Bone protein extraction without demineralization using principles from hydroxyapatite chromatography

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