The mOTUs online database provides web-accessible genomic context to taxonomic profiling of microbial communities - Supplementary Tables
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Supplementary Table 1: A map between each of the genomes in mOTUs-db (3’747’151), the associated study and its metagenomic sample (in case of MAGs). Columns: GENOME → Unique mOTUs-db name of the genome STUDY → Unique mOTUs-db name of the study IS_MAG → True if genome is a MAG, otherwise False METAGENOMIC_SAMPLE → Unique name of the metagenomic sample or NA in case of non-MAG genome Example: GENOME STUDY IS_MAG METAGENOMIC_SAMPLE --------------------------------------------------------------------------------------------- ACIN21-1_SAMN05421555_MAG_00000001 ACIN21-1 True ACIN21-1_SAMN05421555_METAG RSGB23-1_GCA-006096615-V1_GENO_10000001 RSGB23-1 False NA Supplementary Table 2: A map between all non-MAG genomes (919’090) and their source (e.g. Refseq or JGI). Columns: GENOME → Unique mOTUs-db name of the genome SOURCE_SAMPLE_LINK → Link to the original location of this genome Example: #GENOME SOURCE_SAMPLE_LINK -------------------------------------------------------------------------------------------------------- JGIG23-1_GA0055041_GENO_10000001 https://gold.jgi.doe.gov/analysis_project?id=Ga0055041 RSGB23-1_GCA-006717865-V1_GENO_10000001 https://www.ncbi.nlm.nih.gov/datasets/genome/GCA_006717865.1 Supplementary Table 3: A list of all metagenomic studies processed for the mOTUs-db, their number of samples, the number of reconstructed MAGs and the associated publication. Columns: STUDY --> Unique mOTUs-db study identifier BIOPROJECT --> Public identifier (NCBI/JGI) of metagenomic sequencing project SAMPLES --> Number of metagenomic samples MAGs --> Number of reconstructed MAGs PUBLICATION --> Link to publication Example: STUDY BIOPROJECT SAMPLES MAGs PUBLICATION ------------------------------------------------------------------------------------------------- ACIN21-1 PRJEB44456 58 1,110 https://www.nature.com/articles/s42003-021-02112-2 Supplementary Table 4: Mapping between mOTUs-db sample identifier, the associated biosample and the environment. Columns: SAMPLE --> Unique mOTUS-db sample identifier BIOSAMPLE --> Public identifier (NCBI/JGI) of metagenomic sample STUDY --> Unique mOTUs-db study identifier ENVIRONMENT --> Environment of metagenomic sample SOURCE_SAMPLE_LINK --> Link to the original location of this sample Example: #SAMPLE BIOSAMPLE STUDY ENVIRONMENT SOURCE_SAMPLE_LINK --------------------------------------------------------------------------------------------------------------------- ACIN21-1_SAMN05421555_METAG SAMN05421555 ACIN21-1 marine https://www.ncbi.nlm.nih.gov/biosample/SAMN05421555/ Supplementary Table 5: A list of environments covered in the mOTUs-db mapped to the respective NCBI taxonomy (if possible) Columns: TERM --> Unique environment name NCBI TAXONOMY ID --> Link to the NCBI taxonomy Example: TERM NCBI TAXONOMY ID ---------------------------------------------- activated sludge metagenome NCBI:txid942017 air metagenome NCBI:txid655179
补充表1： 本表格映射mOTUs-db（共3,747,151个）中各基因组、对应研究及其宏基因组样本（仅适用于宏基因组组装基因组（Metagenome-Assembled Genome, MAG）场景）。 列说明： GENOME → 基因组的唯一mOTUs-db标识符 STUDY → 研究的唯一mOTUs-db标识符 IS_MAG → 若该基因组为宏基因组组装基因组，则取值为真；否则为假 METAGENOMIC_SAMPLE → 宏基因组样本的唯一名称；若非MAG基因组，则取值为NA（不可用） 示例： GENOME STUDY IS_MAG METAGENOMIC_SAMPLE --------------------------------------------------------------------------------------------- ACIN21-1_SAMN05421555_MAG_00000001 ACIN21-1 真 ACIN21-1_SAMN05421555_METAG RSGB23-1_GCA-006096615-V1_GENO_10000001 RSGB23-1 假 NA 补充表2： 本表格映射所有非宏基因组组装基因组（共919,090个）与其来源（例如Refseq或JGI）的对应关系。 列说明： GENOME → 基因组的唯一mOTUs-db标识符 SOURCE_SAMPLE_LINK → 该基因组原始来源的链接 示例： #GENOME SOURCE_SAMPLE_LINK -------------------------------------------------------------------------------------------------------- JGIG23-1_GA0055041_GENO_10000001 https://gold.jgi.doe.gov/analysis_project?id=Ga0055041 RSGB23-1_GCA-006717865-V1_GENO_10000001 https://www.ncbi.nlm.nih.gov/datasets/genome/GCA_006717865.1 补充表3： 本表格列出用于构建mOTUs-db的所有宏基因组研究、其样本数量、重构的宏基因组组装基因组数量及对应发表文献。 列说明： STUDY → 研究的唯一mOTUs-db标识符 BIOPROJECT → 宏基因组测序项目的公共标识符（NCBI/JGI） SAMPLES → 宏基因组样本数量 MAGs → 重构的宏基因组组装基因组数量 PUBLICATION → 发表文献的链接 示例： STUDY BIOPROJECT SAMPLES MAGs PUBLICATION ------------------------------------------------------------------------------------------------- ACIN21-1 PRJEB44456 58 1,110 https://www.nature.com/articles/s42003-021-02112-2 补充表4： 本表格映射mOTUs-db样本标识符、对应生物样本及样本所处环境的对应关系。 列说明： SAMPLE → 唯一mOTUs-db样本标识符 BIOSAMPLE → 宏基因组样本的公共标识符（NCBI/JGI） STUDY → 研究的唯一mOTUs-db标识符 ENVIRONMENT → 宏基因组样本的来源环境 SOURCE_SAMPLE_LINK → 该样本原始来源的链接 示例： #SAMPLE BIOSAMPLE STUDY ENVIRONMENT SOURCE_SAMPLE_LINK --------------------------------------------------------------------------------------------------------------------- ACIN21-1_SAMN05421555_METAG SAMN05421555 ACIN21-1 海洋 https://www.ncbi.nlm.nih.gov/biosample/SAMN05421555/ 补充表5： 本表格列出mOTUs-db涵盖的所有环境类型，并映射至对应的NCBI分类学信息（如可行）。 列说明： TERM → 环境名称的唯一标识符 NCBI TAXONOMY ID → 指向NCBI分类学数据库的链接 示例： TERM NCBI TAXONOMY ID ---------------------------------------------- 活性污泥宏基因组 NCBI:txid942017 空气宏基因组 NCBI:txid655179
