title: Whole genome shotgun of obese human gut microbiota
design: The fecal samples were sequenced at six time points, the baseline (before intervention, = T0), after diet intervention, (3 months later: T3), after reintroduction phase (T6), and three time points at the maintenance phase i.e. month 12 (T12), month 18 (T18) and month 24 (T24). DNA extraction from the stool samples was performed using the ńPSP Spin Stool DNA Plus Kitî with lyses enhancer according to the manufacturerÍs instruction (Stratec Molecular, Berlin, Germany). After quality check and quantification of the DNA with a Nanodrop Photometer 2000 (Thermo Scientific), DNA was sequenced on an Illumina HiSeq 2500 Sequencer by the company CeGat, TŮbingen, Germany. Samples (50 ng as quantified by Qbit) were processed with the Illumina 'Nextera DNA Sample Preparation Kit' according to manufacturer's protocol. Sequencing was done with 2X 100 nucleotides (paired end sequencing) on 8 lanes with 300 GB raw data. On an average, the sequencing achieved 2.1 GB/sample.