Fig. 2

a Mean of prediction accuracy for the digestibility coefficient of energy (DCE), organic matter (DCOM) and nitrogen (DCN) phenotypes, depending on the model (Gen, Micro, and Micro+Gen), the scenario (COval/COref, HFval/HFref, COval/HFref, HFval/COref, and COHFval/COHFref) and if reference and validation populations shared (on the right) or did not share (on the left) a common environment, with minimum and maximum values associated. b Mean of prediction accuracy for average daily gain (ADG), feed conversion ratio (FCR), residual feed intake (RFI) and daily feed intake (DFI) phenotypes, depending on the model (Gen, Micro, and Micro+Gen), the scenario (COval/COref, HFval/HFref, COval/HFref, HFval/COref, and COHFval/COHFref) and if reference and validation populations shared (on the right) or did not share (on the left) a common environment, with minimum and maximum values associated. Prediction accuracies were compared to each other for the same trait within the reference populations connected by the batches or not. Model Gen: model with only genomic information; Model Micro: model with only microbiota information; Model Micro+Gen: model with microbiota + genomic information combined. Ref. and val. environmentally connected = reference and validation populations environmentally connected; Ref. and val. environmentally not connected = reference and validation populations environmentally not connected. COref/COval: pigs were fed a conventional diet in the reference and the validation populations; HFref/HFval: pigs were fed a high-fiber diet in the reference and the validation populations; COref/HFval: pigs were fed a conventional diet in the reference and a high-fiber diet in the validation population; HFref/COval: pigs were fed a high-fiber diet in the reference and a conventional diet in the validation population; COHFref/COHFval: pigs were fed a conventional + a high-fiber diet in the reference and a conventional + a high-fiber diet in the validation population