TYGS is an automated high-throughput platform for state-of-the-art genome-based taxonomy
TYGS is an automated high-throughput platform for state-of-the-art genome-based taxonomy
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DOI：
10.1038/s41467-019-10210-3
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发表时间：
2019-05-16
影响因子：
16.6
通讯作者：
Goeker, Markus
中科院分区：
文献类型：
--
作者：
Meier-Kolthoff, Jan P.;Goeker, Markus
微生物分类越来越受到基于基因组的计算方法的影响。然而，这种分析可能很复杂，需要专业知识。在这里，我们介绍TYGS，类型（株）基因组服务器，一个用户友好的高吞吐量的网络服务器，基于基因组的原核生物分类，连接到一个大型的，不断增长的基因组，分类和命名信息的数据库。它从用户定义和自动确定的最接近类型的基因组序列中推断基因组规模的同源性和最先进的物种和亚种边界估计。TYGS还提供对命名法、同义词和相关分类学文献的全面访问。临床上重要的例子表明TYGS如何产生新的见解微生物分类，如以前提出的沙门氏菌亚种的物种水平分离的证据。TYGS是一种用于微生物分类的综合方法，为全球微生物学家提供了新的科学方法，特别有助于快速扩展的新属，种或亚种的基于基因组的分类学描述领域。
Microbial taxonomy is increasingly influenced by genome-based computational methods. Yet such analyses can be complex and require expert knowledge. Here we introduce TYGS, the Type (Strain) Genome Server, a user-friendly high-throughput web server for genome-based prokaryote taxonomy, connected to a large, continuously growing database of genomic, taxonomic and nomenclatural information. It infers genome-scale phylogenies and state-of-the-art estimates for species and subspecies boundaries from user-defined and automatically determined closest type genome sequences. TYGS also provides comprehensive access to nomenclature, synonymy and associated taxonomic literature. Clinically important examples demonstrate how TYGS can yield new insights into microbial classification, such as evidence for a species-level separation of previously proposed subspecies of Salmonella enterica. TYGS is an integrated approach for the classification of microbes that unlocks novel scientific approaches to microbiologists worldwide and is particularly helpful for the rapidly expanding field of genome-based taxonomic descriptions of new genera, species or subspecies.