Additional file 4 of Sampling the fish gill microbiome: a comparison of tissue biopsies and swabs

Additional file 4. UNIFRAC nmMDS. Filtered sequences were aligned using MAFFT [110], and phylogenetic tree built using FASTTREE [111] using default parameters within the QIIME2 pipeline. The resultant UNIFRAC distance matrix was used in generation of non-metric multidimensional scaling analysis as shown here. Results of PERMANOVA using unrestricted permutations for comparison of samples by sample type (swab;biopsy;environmental) shown in table indicate significant variation by sample type.补充文件4：UNIFRAC非度量多维标度分析（UNIFRAC nmMDS）。经质量过滤的序列使用MAFFT进行多序列比对[110]，并在QIIME2分析流程中以默认参数借助FASTTREE构建系统发育树[111]。所得的UNIFRAC距离矩阵被用于生成非度量多维标度分析（non-metric multidimensional scaling, nmMDS），结果如图所示。如表所示，通过无限制置换完成的置换多元方差分析（PERMANOVA）用于按样本类型（拭子、活检样本、环境样本）对样本进行比较，其结果显示不同样本类型间存在显著差异。