WGA of Sus scrofa gut metagenome: Faeces of Weaners 1 pigs, farm 6
Five freshly voided faecal samples were randomly collected from different pens at each stage and pooled into a sterile container by transferring 2.5 grams of each sample. After homogenization using a sterile steel spatula, the pooled sample was transferred into 1.5 ml microcentrifuge tubes and snap frozen using dry ice. Upon arrival at the laboratory, samples were stored at -80 C until further analysis. DNA extraction from faecal samples was carried out using the QIAamp PowerFecal Pro DNA Kit (Qiagen, Crawley, West Sussex, UK) in accordance with the manufacturers guidelines, using 200  50 mg of faecal material per sample. The DNA concentration was measured using a Qubit 3 fluorimeter (Invitrogen). Paired-end libraries were prepared from the extracted DNA using the Illumina DNA Prep Library Preparation Kit (Illumina Inc., San Diego, CA). The size of each library was examined on an Agilent Technology 21000 Bioanalyzer with a High Sensitivity DNA chip, and sequencing was performed on the Illumina NovaSeq 6000 platform with an S1 flow cell (2  150 bp), following the manufacturers protocol.