bovine RUSITEC MAGs

DNA from samples collected from the RUSITEC system on experimental day 15 was sent for shotgun metagenomics at Génome Québec (Montréal, QC, Canada). These samples were sequenced on an Illumina NovaSeq6000 platform, also generating 2 x 150 bp pair-ended reads. Sequences were trimmed with Trimmomatic v0.39 and assembled using metaSPAdes v3.13.0. Assembled contigs were binned using the MetaWRAP v1.3.2 binning and bin-refinement pipeline, using CONCOCT v1.1.0, Maxbin2 v2.2.6, and Metabat2 v2.12.1. Bins were dereplicated using dRep v3.2.2 and filtered for 50% completion and under 10% contamination. MAGs were annotated using dbCAN v3.0.7 and Bakta v1.9.3.

于实验第15日从RUSITEC系统采集的样本所提取的DNA，被送往加拿大魁北克省蒙特利尔的Génome Québec开展霰弹宏基因组测序（shotgun metagenomics）。上述样本在Illumina NovaSeq6000测序平台上完成测序，生成2×150 bp双端测序读段（pair-ended reads）。测序序列经Trimmomatic v0.39进行质量修剪，并通过metaSPAdes v3.13.0完成组装。组装得到的重叠群（contigs）借助MetaWRAP v1.3.2的分箱与分箱精修流程进行分箱，该流程整合了CONCOCT v1.1.0、Maxbin2 v2.2.6及Metabat2 v2.12.1三款分箱工具。分箱结果先通过dRep v3.2.2进行去重复处理，随后过滤筛选出完整度不低于50%、污染率低于10%的基因组。宏基因组组装基因组（Metagenome-Assembled Genomes，MAGs）分别通过dbCAN v3.0.7与Bakta v1.9.3完成注释。