Gut metagenome of Mus musculus: Control_5
Male C57BL/6 mice were randomly divided into six groups (n=10 per group): Control, clindamycin (Clin), F1, F2, clindamycin+F1 (Clin+F1), clindamycin+F2 (Clin+F2). Formula F1 was made up of whey, Milk Fat Globule Membrane (MFGM) and native bovine lactoferrin (nLf).  Formula F2 was made up of buttermilk, Milk Fat Globule Membrane (MFGM) and native bovine lactoferrin (nLf). Control group received 200 ?l of saline solution orally for 10 days. Clindamycin group was gavaged for 10 days with saline and on day 4 received a single IP injection of 200 g of clindamycin diluted in 200 ?l of saline. F1 and F2  groups were gavaged for 10 days with 200 ?l of F1 or F2 respectively. The groups Clin+F1 and Clin+F2 were gavaged with F1 or F2 and on day 4 received an  IP injection of clindamycin. Following each treatment, fecal samples were collected directly in eppendorf tubes, and immediately frozen at -80C to fix bacterial growth and preserve DNA content. Bacterial DNA was extracted from faecal samples using the NZY Soil gDNA Isolation kit (NZYTech, Lisboa, Portugal). Full-length 16S rRNA gene (V1-V9) was amplified using 27F and 1492R primers contained in the 16S Barcoding kit SQK-RAB204 (Oxford Nanopore Technologies, Oxford, UK). Sequencing libraries were generated using the Rapid sequencing amplicons protocol with SQK-RAB204 kit (Oxford Nanopore Technologies). Later, the library was sequenced on the MinION.