DNA-Seq of human gut microbiome: stool
Stool genomic DNA purification was performed using QIAGEN AllPrep MiniKit (Valencia, CA, USA) per the manufacturers instructions and consistent with the Human Microbiome Project protocols. Purified DNA from stool samples were processed using the Nextera XT DNA Library Preparation Kit (Illumina, San Diego, CA, USA) following manufacturers protocol to generate metagenomic sequencing libraries. Then, whole-genome shotgun metagenomic sequencing was performed at the Broad Institute (Cambridge, MA, USA) using Illumina NovaSeq 6000 Sequencing System with 150-base-pair paired-end reads.