利用靶向蛋白质组学从考古人类牙釉质中自动进行高通量生物性别鉴定

IF 3.8 2区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS
Journal of Proteome Research Pub Date : 2024-11-01 Epub Date: 2024-09-26 DOI:10.1021/acs.jproteome.4c00557
Claire Koenig, Patricia Bortel, Ryan S Paterson, Barbara Rendl, Palesa P Madupe, Gaudry B Troché, Nuno Vibe Hermann, Marina Martínez de Pinillos, María Martinón-Torres, Sandra Mularczyk, Marie Louise Schjellerup Jørkov, Christopher Gerner, Fabian Kanz, Ana Martinez-Val, Enrico Cappellini, Jesper V Olsen
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引用次数: 0

摘要

生物性别是考古和法医研究的关键信息,可以通过蛋白质组学来确定。然而,目前缺乏快速准确鉴定性别的标准化方法,限制了蛋白质组学的应用范围。在这里,我们介绍了一种基于质谱(MS)的简化工作流程,利用人体牙釉质确定生物性别。我们的方法基于酸蚀刻的微创取样策略、快速在线液相色谱(LC)梯度与高分辨率平行反应监测(PRM)分析相结合,每天可采集 200 个样本,定量性能高,能可靠地鉴定男性和女性。此外,我们还开发了一个简化的数据分析管道,并将其集成到 Shiny 界面中以方便使用。该方法首先在现代牙齿上进行了开发和优化,然后在一组已知性别的独立乳牙上进行了验证。最后,该检测方法成功应用于考古材料,对 300 多个个体进行了分析。我们展示了前所未有的性能和可扩展性,与传统的基于蛋白质组学的性别鉴定方法相比,质谱分析的速度提高了 10 倍。这项工作为大规模考古或法医研究铺平了道路,使我们能够调查整个人群,而不是专注于个别引人注目的标本。数据可通过 ProteomeXchange 获取,标识符为 PXD049326。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Automated High-Throughput Biological Sex Identification from Archeological Human Dental Enamel Using Targeted Proteomics.

Biological sex is key information for archeological and forensic studies, which can be determined by proteomics. However, the lack of a standardized 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 the 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 a high-resolution parallel reaction monitoring (PRM) assay allowing for a throughput of 200 samples per day (SPD) with high quantitative performance enabling confident identification of both males and females. Additionally, we developed a streamlined data analysis pipeline and integrated it into a Shiny interface for ease of use. The method was first developed and optimized using modern teeth and then validated in an independent set of deciduous teeth of known sex. Finally, the assay was successfully applied to archeological material, enabling the analysis of over 300 individuals. We demonstrate unprecedented performance and scalability, speeding up MS analysis by 10-fold compared to conventional proteomics-based sex identification methods. This work paves the way for large-scale archeological or forensic studies enabling the investigation of entire populations rather than focusing on individual high-profile specimens. Data are available via ProteomeXchange with the identifier PXD049326.

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来源期刊
Journal of Proteome Research
Journal of Proteome Research 生物-生化研究方法
CiteScore
9.00
自引率
4.50%
发文量
251
审稿时长
3 months
期刊介绍: Journal of Proteome Research publishes content encompassing all aspects of global protein analysis and function, including the dynamic aspects of genomics, spatio-temporal proteomics, metabonomics and metabolomics, clinical and agricultural proteomics, as well as advances in methodology including bioinformatics. The theme and emphasis is on a multidisciplinary approach to the life sciences through the synergy between the different types of "omics".
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