Biology subjects

Stafford, T.

Publications and source records attributed to Stafford, T..

3 recordsLinked to original sources

bioRxiv2025

Non-destructive radiocarbon dating of bone

Since the 1950s, radiocarbon measurements have anchored archaeological chronologies dating back to 50,000 years, with bone collagen being a commonly dated material. Despite advances in collagen extraction protocols, the process remains destructive, requiring sampling by sawing, drilling or crushing of dry bone, that can damage or destroy physical features and archaeological evidence, and often consumes the entire specimen. While non-destructive approaches have recently been applied in ancient genomics and palaeoproteomics, no equivalent approach has been established for radiocarbon dating of bone. Here, we outline a non-destructive collagen extraction workflow that avoids invasive sampling (cutting or drilling) and produces no visible damage to the bone. By heating the bone in hot water for several hours, collagen is solubilized, and the resulting collagenous solution can be purified and AMS dated. Here we show that the amino acid composition, C/N atomic ratios, {delta}13C and {delta}15N values of the hot-water-extracted collagen are comparable to collagen isolated from the same bones using classic decalcification methodologies. The hot water extraction method was tested on various bones, ranging from the Bronze Age to the Middle and Upper Paleolithic periods, which had been dated previously using routine destructive methods that involved acid demineralization. Our results show that non-destructive collagen extraction, coupled with an additional purification step e.g., ultrafiltration, yields identical radiocarbon ages to those obtained via the routine destructive methods.

paleontology↗

bioRxiv2023

Unsupervised identification of internal perceptual states influencing psychomotor performance

AO_SCPLOWBSTRACTC_SCPLOWWhen humans perform repetitive tasks over long periods, their performance is not constant. People may drift in and out of states that might be loosely categorised as engagement, disengagement or flow and these will be reflected in multiple aspects of their performance (for example, reaction time, accuracy, criteria shifts and potentially longer-term strategy) but until recently it has been challenging to relate these behavioural states to the underlying neural mechanisms that generate them. Here, we took Magnetoencephalograpy recordings of participants performing an engaging task that required rapid, strategic behavioural responses. In this way we acquired both high density neural data and contemporaneous, dense behavioural data. Specifically, participants played a laboratory version of Tetris which collects detailed recordings of player input and game-state throughout performance. We asked whether it was possible to infer the presence of distinct behavioural states from the behavioural data and, if so, whether these states would have distinct neural correlates. We used hidden Markov modelling to segment the behavioural time series into states with unique behavioural signatures, finding that we could identify three distinct and robust behavioural states. We then computed occipital alpha power across each state. These within-participant differences in alpha power were statistically significant, suggesting that individuals shift between behaviourally and neurally distinct states during complex performance, and that visuo-spatial attention change across these states.

neuroscience↗

bioRxiv2018

Early Pleistocene enamel proteome sequences from Dmanisi resolve Stephanorhinus phylogeny.

Ancient DNA (aDNA) sequencing has enabled unprecedented reconstruction of speciation, migration, and admixture events for extinct taxa1. Outside the permafrost, however, irreversible aDNA post-mortem degradation2 has so far limited aDNA recovery within the {small tilde}0.5 million years (Ma) time range3. Tandem mass spectrometry (MS)-based collagen type I (COL1) sequencing provides direct access to older biomolecular information4, though with limited phylogenetic use. In the absence of molecular evidence, the speciation of several Early and Middle Pleistocene extinct species remain contentious. In this study, we address the phylogenetic relationships of the Eurasian Pleistocene Rhinocerotidae5-7 using {small tilde}1.77 million years (Ma) old dental enamel proteome sequences of a Stephanorhinus specimen from the Dmanisi archaeological site in Georgia (South Caucasus)8. Molecular phylogenetic analyses place the Dmanisi Stephanorhinus as a sister group to the woolly (Coelodonta antiquitatis) and Mercks rhinoceros (S. kirchbergensis) clade. We show that Coelodonta evolved from an early Stephanorhinus lineage and that this genus includes at least two distinct evolutionary lines. As such, the genus Stephanorhinus is currently paraphyletic and its systematic revision is therefore needed. We demonstrate that Early Pleistocene dental enamel proteome sequencing overcomes the limits of ancient collagen- and aDNA-based phylogenetic inference, and also provides additional information about the sex and taxonomic assignment of the specimens analysed. Dental enamel, the hardest tissue in vertebrates, is highly abundant in the fossil record. Our findings reveal that palaeoproteomic investigation of this material can push biomolecular investigation further back into the Early Pleistocene.

evolutionary biology↗