Additional file 4: of Composition and dynamics of the respiratory tract microbiome in intubated patients

De novo OTU table. Taxonomic assignments of de novo OTUs. Sequence data was analyzed using the Quantitative Insights Into Microbial Ecology (QIIME) bioinformatics pipeline, version 1.8.0. Sequence alignment was performed via PyNAST, with de novo operational taxonomic unit (OTU) formation via uclust as per QIIME default settings. Taxonomic assignment of de novo OTUs was based on BLAST of representative sequences against the Living Tree Project database (SSU release 119), with the highest bit-score chosen. De novo OTUs were used in comparison to clinical culture data. (ZIP 404 KB)

从头构建的操作分类单元（operational taxonomic unit, OTU）表及从头OTU的分类学注释信息。本研究的序列数据采用版本1.8.0的微生物生态学定量解析（Quantitative Insights Into Microbial Ecology, QIIME）生物信息学流程进行分析。序列比对通过PyNAST完成，并按照QIIME的默认设置，借助uclust工具完成从头OTU聚类。从头OTU的分类学注释基于代表性序列与生命树项目（Living Tree Project）数据库（SSU 119版）的BLAST比对结果，选取最高比特分值作为分类判定依据。本研究将上述从头OTU用于与临床培养数据的对比分析。（ZIP压缩包，大小404 KB）