16S V4-V5 metabarcoding reference databases and weighted naive-bayes classifiers, dereplicated

16S metabarcoding databases and naive-bayes classifiers specific to the V4-V5 region. Built from the Silva 138.1 SSU Ref NR 99 database using Qiime2 (version 2023.2) and the q2-clawback plugin. Includes weighted classifiers for two Earth Microbiome Project Ontology (EMPO) 3 habitat types: "sediment (saline)" and "water (saline)" , with data downloaded from Qiita. Sequences were dereplicated with Rescript --p-mode 'uniq' , retaining identical sequence records that have differing taxonomies. Primers used: EMP 16S 515f: GTGYCAGCMGCCGCGGTAA EMP 16S 926r: CCGYCAATTYMTTTRAGTTT <strong>Stats</strong> 286,948 unique sequences 309,567 total sequences 46,254 unique taxa (Level 7) File description File Description make new 16S silva V4-V5 database.md Markdown with code used to generate databases silva-138-99-seqs.qza Full length Silva 138.1 SSU 99 sequences silva-138-99-tax.qza Taxa for full length Silva 138.1 SSU 99 database silva-138_1-99-515f_926r-uniq-seqs.qza Sequences for 16S V4-V5 (primers 515f, 926r), extracted from Silva 138.1 SSU 99, generated by qiime2-2023.2 (forward compatible), dereplicated silva-138_1-99-515f_926r-uniq-taxa.qza Taxa for silva-138_1-99-515f_926r-seqs.qza database, dereplicated uniform-silva-138_1-99-515f_926r-uniq-classifier.qza Unweighted (uniform) naive-bayes classifier for 16S V4-V5 (primers 515f, 926r) extracted from Silva 138.1 SSU 99, generated by qiime2-2023.2 (forward compatible) silva-138_1-99-515f_926r-uniq-sediment-saline-classifier.qza Weighted naive-bayes classifier for 16S V4-V5 (primers 515f, 926r) extracted from Silva 138.1 SSU 99, weighted for sediment-saline, generated by qiime2-2023.2 (forward compatible) silva-138_1-99-515f_926r-q2_2023_2-uniq-sediment-saline-weights.qza Weights used to generate silva-138_1-99-515f_926r-q2_2023_2-sediment-saline-classifier.qza silva-138_1-99-515f_926r-uniq-water-saline-classifier.qza Weighted naive-bayes classifier for 16S V4-V5 (primers 515f, 926r) extracted from Silva 138.1 SSU 99, weighted for water-saline, generated by qiime2-2023.2 (forward compatible) silva-138_1-99-515f_926r-uniq-water-saline-weights.qza Weights used to generate silva-138_1-99-515f_926r-water-saline-classifier.qza本数据集为针对V4-V5区域的16S元条形码（16S metabarcoding）数据库与朴素贝叶斯分类器（naive-bayes classifiers），基于SILVA 138.1 SSU Ref NR 99数据库构建，使用Qiime2（版本2023.2）与q2-clawback插件完成开发。 数据集包含两类适配地球微生物组项目本体论（Earth Microbiome Project Ontology, EMPO）3级生境类型的加权分类器："盐渍沉积物（sediment (saline)）"与"盐渍水体（water (saline)）"，相关数据从Qiita平台下载获取。 序列采用Rescript工具以`--p-mode 'uniq'`模式进行去重复处理，保留分类学信息存在差异的完全一致序列。所用扩增引物如下： EMP 16S 515f: GTGYCAGCMGCCGCGGTAA EMP 16S 926r: CCGYCAATTYMTTTRAGTTT **统计信息** 独特序列数：286,948条 总序列数：309,567条 7级分类单元数：46,254个 ## 文件说明 1. `make new 16S silva V4-V5 database.md`：包含数据库构建所用代码的Markdown文档 2. `silva-138-99-seqs.qza`：全长SILVA 138.1 SSU 99序列文件 3. `silva-138-99-tax.qza`：对应全长SILVA 138.1 SSU 99数据库的分类学信息文件 4. `silva-138_1-99-515f_926r-uniq-seqs.qza`：从SILVA 138.1 SSU 99数据库中提取、基于引物515f与926r扩增得到的16S V4-V5区域序列，经去重复处理，适配Qiime2 2023.2及更高版本 5. `silva-138_1-99-515f_926r-uniq-taxa.qza`：对应`silva-138_1-99-515f_926r-uniq-seqs.qza`数据库的分类学信息文件，已完成去重复 6. `uniform-silva-138_1-99-515f_926r-uniq-classifier.qza`：从SILVA 138.1 SSU 99数据库中提取的16S V4-V5区域（引物515f与926r）非加权（uniform）朴素贝叶斯分类器，适配Qiime2 2023.2及更高版本 7. `silva-138_1-99-515f_926r-uniq-sediment-saline-classifier.qza`：从SILVA 138.1 SSU 99数据库中提取的16S V4-V5区域（引物515f与926r）盐渍沉积物加权朴素贝叶斯分类器，适配Qiime2 2023.2及更高版本 8. `silva-138_1-99-515f_926r-q2_2023_2-uniq-sediment-saline-weights.qza`：用于生成`silva-138_1-99-515f_926r-q2_2023_2-sediment-saline-classifier.qza`的权重文件 9. `silva-138_1-99-515f_926r-uniq-water-saline-classifier.qza`：从SILVA 138.1 SSU 99数据库中提取的16S V4-V5区域（引物515f与926r）盐渍水体加权朴素贝叶斯分类器，适配Qiime2 2023.2及更高版本 10. `silva-138_1-99-515f_926r-uniq-water-saline-weights.qza`：用于生成`silva-138_1-99-515f_926r-water-saline-classifier.qza`的权重文件