Mothur

用于微生物生态学分析的综合工具，专注于 16S rRNA 基因序列分析和微生物群落多样性研究

基本信息

• 类别: amplicon-analysis
• 版本: 1.48.5
• 难度: intermediate
• 最后更新: 2026-03-18

链接

• 官方网站
• 相关论文

安装

# Ubuntu/Debian
sudo apt-get install mothur

# Conda
conda install -c bioconda mothur

# 源码编译
git clone https://github.com/mothur/mothur.git
cd mothur
make -j

使用示例

标准 MiSeq SOP

mothur > make.contigs(file=stability.files, processors=8) mothur > screen.seqs(fasta=current, maxambig=0, maxlength=275) mothur > unique.seqs(fasta=current) mothur > align.seqs(fasta=current, reference=silva.v4.fasta) mothur > filter.seqs(fasta=current, vertical=T, trump=.) mothur > pre.cluster(fasta=current, diffs=2) mothur > chimera.vsearch(fasta=current) mothur > classify.seqs(fasta=current, reference=trainset9_032012.pds.fasta) mothur > cluster.split(fasta=current, count=current, splitmethod=classify)

标签

16S amplicon OTU diversity SOP

参考资源

• 📖 官方文档: https://mothur.org/wiki/
• 🎓 教程: https://mothur.org/wiki/miseq_sop/
• 📄 论文: Schloss et al. (2009) Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities. Applied and Environmental Microbiology. DOI: 10.1128/AEM.01541-09

相关工具

• QIIME 2
• DADA2
• phyloseq