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牛津纳米孔技术安普利康测序 (ONT-AmpSeq) 的完整管道:从预处理到创建可操作的分类学单位表

Patrick Skov Schacksen¹, Stine Karstenskov Østergaard¹, Mathias Helmer Eskildsen¹

¹Department of Chemistry and Bioscience, Aalborg University, Aalborg East, Denmark.

|August 7, 2024

概括

我们开发了ONT-AmpSeq,这是一个新的管道,用于分析来自牛津纳米孔技术 (ONT) 设备的amplicon测序数据. 该工具有效地生成微生物群落组成数据,为分类学分析提供可靠的方法.

科学领域:

微生物学微生物学
生物信息学是一种生物信息学.
基因组学就是基因组学.

背景情况:

安普利康测序是一种广泛使用的,具有成本效益的微生物社区分析方法.
现有的方法在处理来自较新的测序技术 (如牛津纳米孔技术 (ONT)) 的数据方面存在局限性.

研究的目的:

引入ONT-AmpSeq,这是一个用户友好的生物信息管道,用于处理ONT amplicon测序数据.
通过使用ONT数据,使微生物群落的有效和准确的分类学分类成为可能.

主要方法:

开发一个六步管道:统计,质量过,对齐,聚类,抛光和分类学分类.
集成最先进的生物信息学软件工具.
使用测试数据集和ZymoBIOMICS微生物社区标准进行验证.

主要成果:

ONT-AmpSeq成功处理了ONT amplicon数据以生成分类学注释的操作分类学单位 (OTU) 表.
该管道在表征微生物社区组成方面表现出了稳健性和效率.
对抛光工具和分类学注释方法的评估强调了它们对结果的影响.

结论:

ONT-AmpSeq提供了一个全面和可靠的解决方案,用于分析微生物群落与ONT amplicon测序.
该管道促进了简化和可访问的微生物社区分析.
软件和测试数据是公开可用的,以支持研究.

关键词:

这就是AmpSeqq.这就是Amplicon.一个纳米孔.在OTU表中,OTU表显示了OTU表.管道管道管道管道管道管道测序的测序是指测序的测序.

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