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.

将实验第15天从RUSITEC系统采集的样本DNA，送至加拿大魁北克省蒙特利尔的魁北克基因组中心（Génome Québec）开展霰弹枪宏基因组学（shotgun metagenomics）测序。测序基于Illumina NovaSeq6000平台完成，生成了2×150 bp双端测序读段。所得序列经Trimmomatic v0.39进行质量修剪后，通过metaSPAdes v3.13.0完成基因组组装。组装得到的重叠群采用MetaWRAP v1.3.2的分箱与分箱优化流程进行分箱，该流程整合了CONCOCT v1.1.0、Maxbin2 v2.2.6及Metabat2 v2.12.1三款工具。分箱结果经dRep v3.2.2进行去重复，并筛选出完整度≥50%且污染率<10%的分箱。宏基因组组装基因组（Metagenome-Assembled Genomes，MAGs）通过dbCAN v3.0.7与Bakta v1.9.3完成功能注释。