High-throughput DNA sequencing enables large-scale metagenomic analyses of complex biological systems. Such analyses are not restricted to present-day samples and can also be applied to molecular data from archaeological remains. Investigations of ancient microbes can provide valuable information on past bacterial commensals and pathogens, but their molecular detection remains a challenge. Here, we present HOPS (Heuristic Operations for Pathogen Screening), an automated bacterial screening pipeline for ancient DNA sequences that provides detailed information on species identification and authenticity. HOPS is a versatile tool for high-throughput screening of DNA from archaeological material to identify candidates for genome-level analyses.

中文翻译：

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HOPS：考古遗迹中病原体DNA的自动检测和认证

高通量 DNA 测序使复杂生物系统的大规模宏基因组分析成为可能。这种分析不仅限于当今的样本，也可以应用于考古遗迹的分子数据。对古代微生物的研究可以提供有关过去细菌共生体和病原体的宝贵信息，但它们的分子检测仍然是一个挑战。在这里，我们展示了 HOPS（病原体筛选的启发式操作），这是一种用于古代 DNA 序列的自动细菌筛选管道，可提供有关物种识别和真实性的详细信息。HOPS 是一种多功能工具，用于从考古材料中高通量筛选 DNA，以确定基因组水平分析的候选物。