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amplysis:一种R包,用于微生物组成和多样性分析,使用16S rRNA amplicon数据

Ziming Su^1,2, Xinyu Zhang^2,3, Qiming Wang⁴

¹School of Resources, Environment and Materials, Guangxi University, Daxue Road 100, Nanning 530004, Guangxi, China.

Briefings in functional genomics

|November 23, 2025

概括

研究人员现在可以很容易地分析16SrRNA测序数据的amplysis,一个R包简化微生物组分析和可视化. 这种工具有助于理解微生物社区的转变,即使在具有挑战性的环境中,如HCH降解的地下水.

科学领域:

微生物生态学微生物生态学
生物信息学是一种生物信息学.
环境基因组学环境基因组学

背景情况:

对许多研究人员来说,分析16S rRNA测序数据给生物信息学带来了挑战.
现有的方法通常需要对各种复杂工具的专业知识.
需要简化,用户友好的微生物组数据分析.

研究的目的:

介绍amplysis,一个旨在简化16S rRNA amplicon数据分析的R包.
为微生物组数据处理和可视化提供直观,代码光的工作流.
降低研究人员探索微生物组数据的障碍.

主要方法:

开发了amplysis作为一个R包,集成数据导入,处理,统计分析和可视化.
实现了用于数据规范化,微生物组成分析和多样性分析的功能.
使用主要组件分析和主要坐标分析进行排序.
通过三个案例研究,包括环境样本,证明了实用性.

主要成果:

amplysis成功地简化了16S rRNA数据的分析和可视化.
案例研究表明,有效地生成了丰富度图,多样性指数和排序图.
分析显示,微生物社区在应对环境压力因素 (HCH降解) 时发生了显著的转变.
该包确保复制性和高质量的输出,用于复杂的微生物组分析.

结论:

amplysis显著简化了复杂的16S rRNA数据分析和可视化.
"R包"提高了微生物组研究的可复制性和可访问性.
amplysis对于微生物生态学和环境基因组学研究人员来说是一个宝贵的资源.

关键词:

16S rRNA 是一个16S rRNA.一个R包一个R包生物信息学是一种生物信息学.数据可视化数据可视化基因基因基因基因基因

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