Methanobacteriaceae

<strong>Data for the Methanobacetriaceae analysis.</strong> <br> Metagenomes and associated sample metadata from a globally distributed set of studies were gathered from the curatedMetagenomicData (Pasolli et al. 2017) by Youngblut et al. (2020). Briefly, (i) metagenome were profiled with the HUMAnN2 pipeline to obtain metabolic pathways profiles based on the MetaCyc database and with Kraken2 and Bracken v2.2 based on a customized Genome Taxonomy Database (GTDB), Release 89.0 created with Struo v0.1.6 (available athttp://ftp.tue.mpg.de/ebio/projects/struo/) for the taxonomic profiles; (ii) rare taxa were filtered out and taxonomic ranks from family to species were included (n = 2190 taxa; 181 families, 562 genera and 1447 species); (iii) relative abundances of MetaCyc metabolic pathways at the community level with complete coverage and a prevalence greater than 25 % were included (n = 117 pathways). <br> ---------------------------------------------- <br> Metadata: information on samples <br> Taxa relative abundances - no methanogens: relative abundances of at the family, genus, and species levels; all Methanobacteriaceae were removed. <br> MetaCyc pathways - no methanogens: relative abundances at the community level of MetaCyc pathways; all pathways to which Methanobacteriaceae participate were removed. <br> Methanogens-targets: predicted target = presence/absence of Methanobacteriaceae (Mtbc). The Msmi column corresponds to the presence/absence of the species Methanobrevibacter smithii. <br> <br>

<strong>产甲烷杆菌科（Methanobacteriaceae）分析数据集</strong>
全球范围内多项研究的宏基因组及其配套样本元数据，由Youngblut等人（2020年）从Pasolli等人（2017年发布的整理型宏基因组数据集（curatedMetagenomicData）中获取。
具体而言：(i) 宏基因组注释分为两类流程：一是采用HUMAnN2流程生成基于MetaCyc数据库的代谢通路谱；二是使用基于自定义基因组分类数据库（Genome Taxonomy Database, GTDB）R89.0版的Kraken2与Bracken v2.2工具完成分类学谱注释——该自定义数据库由Struo v0.1.6构建，可从http://ftp.tue.mpg.de/ebio/projects/struo/获取；
(ii) 过滤稀有分类单元，保留从科到种的所有分类层级数据，共计2190个分类单元，包含181个科、562个属与1447个物种；
(iii) 纳入群落层面覆盖完整且出现频率高于25%的MetaCyc代谢通路相对丰度数据，共计117条代谢通路。
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元数据：样本相关信息
分类单元相对丰度（不含产甲烷杆菌科相关类群）：科、属、种层级的分类单元相对丰度数据，已移除所有产甲烷杆菌科序列；
MetaCyc代谢通路（不含产甲烷菌相关通路）：群落层面的MetaCyc代谢通路相对丰度数据，已移除所有产甲烷杆菌科参与的代谢通路；
产甲烷菌靶标数据：预测靶标为产甲烷杆菌科（Methanobacteriaceae, Mtbc）的存在与否。其中Msmi字段对应史氏甲烷短杆菌（Methanobrevibacter smithii）的存在与否。