## 5 Conclusions  
In conclusion, pig gut microbiota evolved mainly from 52 to 99 days of age with an increased abundance of Streptococcusaceae and a decreased abundance of Lactobacillusacee. At 52 days, two enterotypes dominated either by _Lactobacillus_ or by _Prevotella-Sarcina_ were identified. They differed from the enterotypes determined from 99 to 154 days and dominated either by _Lactobacillus_ or by _Turicibacter-Clostridium sensu stricto_. The enterotype definition was time-dependent. Previous findings about the relationships between enterotypes and improved performance in pigs might have suggested that adding bacterial supplements in the feed could possibly help in modifying the enterotypes and the performance. However, our study demonstrated that the enterotypes defined between 99 and 154 days of age were independent of the growth and feeding performance. Thus, we would advise the careful use of enterotypes when trying to relate them to performance differences in an industrial context.  
**Supplementary Materials:** The following are available online at [[http://www.mdpi.com/2076-2607/7/12/622/s1](http://www.mdpi.com/2076-2607/7/12/622/s1)]([http://www.mdpi.com/2076-2607/7/12/622/s1](http://www.mdpi.com/2076-2607/7/12/622/s1)), Figure S1: Experimental design; Figure S2: Distribution of samples across sex, time points, replicates, and type of analysis; Figure S3: Non Metric Distance Scaling (NMDS) representation of the microbiota evolution across ages using Bray-Curtis distance in female pigs; Figure S4: Silhouette indexes, Calinski-Harabasz (CH) indexes and plots of the clusters of samples based on the genus relative abundance at 52, 99, 119, 140, and 154 days of age; Figure S5: Ratio of FE1 enterotypes at Day 154 in the CC, DC, CD, and DD experimental groups corresponding to pigs fed with a control finisher diet, exposed to a DON-contaminated diet between 113 d and 119 d, between 134 d and 140 d, and between both 113 d and 119 d and 134 d and 140 d of age, respectively; Figure S6: Significant MetaCyc pathway predicted by PICRUST; Table S1: Composition of experimental growing and finishing diets; Table S2: DON challenge effect on female pigs' fecal microbiota diversity and phyla relative abundance; Table S3: \(p\)-values from Kruskal-Wallis tests for differences in genus relative abundance between the enterotypes at post-waning (PWE1 vs. PWE2) and at finishing (FE1 vs. FE2); Table S4: Group file; Table S5: PICRUST prediction of Kegg orthologs; Table S6: PICRUST prediction of MetaCyc pathway abundance; Table S7: Statistics on the predicted MetaCyc abundance predicted by PICRUST.  
**Author Contributions:** Conceptualization, M.L.S., D.R. and O.Z.; methodology, M.L.S.; software, M.L.S.; validation, M.L.S., O.Z.; formal analysis, M.L.S.; investigation, M.L.S.; data curation, M.L.S.; writing--original draft preparation, M.L.S.; writing--review and editing, M.L.S. and O.Z.; visualization, M.L.S.; supervision, D.R. and O.Z.; project administration, D.R.  
**Funding:** This study is part of the Feed-a-Gene Project funded by the European Union's H2020 Program (grant 633531).  
**Acknowledgments:** The authors thank [PERSON], [PERSON], [PERSON], [PERSON] and [PERSON] from the UEPR and [PERSON] from UMR PEGASE, INRA, 35590 Saint-Gilles, France for animal care and sample collection and [PERSON] from UMR GenPhySE, INRA, 31320 Castanet-Tolosan, France for lab analysis.  
**Conflicts of Interest:** The authors declare no conflict of interest. The funders had no role in the design of the study; in the collection, analyses, or interpretation of data; in the writing of the manuscript, or in the decision to publish the results.