Martinez de Pinillos, M. | bioRxiv Science

bioRxiv2024

Automated high-throughput biological sex identification from archaeological human dental enamel using targeted proteomics

Biological sex is key information for archaeological and forensic studies, which can be determined by proteomics. However, lack of a standardised approach for fast and accurate sex identification currently limits the reach of proteomics applications. Here, we introduce a streamlined mass spectrometry (MS)-based workflow for determination of biological sex using human dental enamel. Our approach builds on a minimally invasive sampling strategy by acid etching, a rapid online liquid chromatography (LC) gradient coupled to high-resolution parallel reaction monitoring assay allowing for a throughput of 200 samples-per-day with high quantitative performance enabling confident identification of both males and females. Additionally, we have developed a streamlined data analysis pipeline and integrated it into an R-Shiny interface for ease-of-use. The method was first developed and optimised using modern teeth and then validated in an independent set of deciduous teeth of known sex. Finally, the assay was successfully applied to archaeological material, enabling the analysis of over 300 individuals. We demonstrate unprecedented performance and scalability, speeding up MS analysis by tenfold compared to conventional proteomics-based sex identification methods. This work paves the way for large-scale archaeological or forensic studies enabling the investigation of entire populations rather than focusing on individual high-profile specimens.

biochemistry↗

bioRxiv2023

Severe enamel defects in wild Japanese macaques

Plane-form enamel hypoplasia (PFEH) is a severe dental defect in which large areas of the crown are devoid of enamel. This condition is rare in humans and rarer in wild primates. The etiology of PFEH has been linked to exposure to severe disease, malnutrition, environmental toxins, and other systemic conditions. Similar defects have also been associated with genetic conditions such as amelogenesis imperfecta. In this study, we examined the prevalence of all types of enamel hypoplasia in several populations of wild Japanese macaques (Macaca fuscata) with the aim of providing context for the severe defects found in macaques from Yakushima Island. We found that macaques from other islands and from the mainland of Japan have low prevalence of the more common types of enamel hypoplasia and none exhibit PFEH. In contrast, 10 of the 21 individuals (48%) from Yakushima Island displayed uniform and significant PFEH, with all 10 living in two adjacent locations in the south of the island. All permanent teeth were affected to varying degrees except for first molars, and the mineral content of the remaining enamel in teeth with PFEH is normal (i.e., no hypo- or hyper mineralization). Given that the affected individuals have smaller first molars compared to non-affected macaques, and that they all underwent dental development during a period of substantial human-related habitat change, we conclude that the PFEH likely resulted from environmental stress. Extreme weather events on the island may also have influenced the formation of these defects. Additionally, it is plausible that a documented recent population bottleneck could have heightened the susceptibility of these macaques to PFEH. Further research on living primate populations is needed to better understand the causes of PFEH in wild primates and to evaluate whether such features can be used to assess the impact of human-related disturbance.

ecology↗