Centre for Palaeogenetics, Stockholm, Sweden.
Department of Archaeology and Classical Studies, Stockholm University, Stockholm, Sweden.
Genome Biol. 2023 Oct 23;24(1):242. doi: 10.1186/s13059-023-03083-9.
Analysis of microbial data from archaeological samples is a growing field with great potential for understanding ancient environments, lifestyles, and diseases. However, high error rates have been a challenge in ancient metagenomics, and the availability of computational frameworks that meet the demands of the field is limited. Here, we propose aMeta, an accurate metagenomic profiling workflow for ancient DNA designed to minimize the amount of false discoveries and computer memory requirements. Using simulated data, we benchmark aMeta against a current state-of-the-art workflow and demonstrate its superiority in microbial detection and authentication, as well as substantially lower usage of computer memory.
分析考古样本中的微生物数据是一个具有巨大潜力的领域，可以帮助我们了解古代环境、生活方式和疾病。然而，在古代宏基因组学中，高错误率一直是一个挑战，并且满足该领域需求的计算框架的可用性也受到限制。在这里，我们提出了 Meta，这是一种针对古代 DNA 的准确宏基因组分析工作流程，旨在最大限度地减少错误发现和计算机内存需求。使用模拟数据，我们将 aMeta 与当前最先进的工作流程进行基准测试，证明了它在微生物检测和鉴定方面的优越性，以及计算机内存使用量的大幅降低。
