BUSCADOR RECOLECTA

8 pages. -- 5 figures. -- Figure S1: Diagram depicting the routine/pipeline implemented for studying miRNAdriven post-transcriptional regulatory signals applying the EISA approach and additional enrichment and covariation analyses. -- Figure S2: Diagram representing each one of the context-based filtering criteria used for excluding unreliable in silico-predicted miRNA-mRNA interactions. -- Figure S3: Scatterplots depicting the exonic (ΔEx) and intronic (ΔInt) fractions of expressed genes from gluteus medius skeletal muscle samples of fasting (AL-T0, N =11) and fed (AL-T2, N = 12) Duroc gilts. -- Figure S4: Enrichment analyses comparing all expressed mRNA genes and the set of mRNA genes with the (a) top 1% and (b) top 5% negative PTc scores and at least 2-fold ΔEx reduction as being putatively targeted by significantly upregulated miRNAs (FC > 1.5; q-value < 0.05) from gluteus medius skeletal muscle samples of fasting (AL-T0, N =11) and fed (AL-T2, N = 12) Duroc gilts. -- Figure S5: Quantification of selected genes and miRNAs expressed in the pig adipose tissue by qPCR., Peer reviewed

Additional file 10: Table S10. Bayes factors, marginal posterior means and standard deviations of cage variance ratio for OTU influenced by cage effects together with the associated probability of these estimates being higher than 0.10. The frequency among the rabbit samples and the taxonomic assignment are also provided for each OTU., Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria Horizon 2020 Framework Programme Ministerio de Ciencia, Innovación y Universidades, Peer reviewed

1 table., Additional file 1: Table S1. Metadata associated with the 425 rabbit cecal samples analyzed in this study., Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria Horizon 2020 Framework Programme Ministerio de Ciencia, Innovación y Universidades, Peer reviewed

1 table., Additional file 2: Table S2. Table of filtered and CSS-normalized OTU., Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria Horizon 2020 Framework Programme Ministerio de Ciencia, Innovación y Universidades, Peer reviewed

1 table., Additional file 3: Table S3. Taxonomic assignment of representative sequences of each OTU included in Additional file 2: Table S2., Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria Horizon 2020 Framework Programme Ministerio de Ciencia, Innovación y Universidades, Peer reviewed

1 figure., Additional file 4: Figure S1. Geweke z-statistics for genetic, litter and cage variance ratios computed for the microbial traits that were better adjusted with the normal linear mixed model., Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria Horizon 2020 Framework Programme Ministerio de Ciencia, Innovación y Universidades, Peer reviewed

1 figure., Additional file 5: Figure S2. Geweke z-statistics for genetic, litter and cage variance ratios computed for the microbial traits that were better adjusted with the zero-inflated Poisson model., Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria Horizon 2020 Framework Programme Ministerio de Ciencia, Innovación y Universidades, Peer reviewed

1 table., Additional file 6: Table S4. Deviance information criterion (DIC) values computed for each microbial trait with the normal linear mixed model and the zero-inflated Poisson model., Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria Horizon 2020 Framework Programme Ministerio de Ciencia, Innovación y Universidades, Peer reviewed

1 table., Additional file 7: Table S5. Mean (standard deviation) of Bayes factors and cage variance ratio estimates for OTU that are influenced by cage effects and adjusted with the normal LMM. Table S6. Mean (standard deviation) of Bayes factor and cage variance ratio estimates for OTU that are influenced by cage effect and adjusted with the ZIP model. Tables S7. Bayes factors, marginal posterior means (standard deviations) of cage variance ratio for genera and alpha-diversity indices that are influenced by cage effects., Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria Horizon 2020 Framework Programme Ministerio de Ciencia, Innovación y Universidades, Peer reviewed

1 table., Additional file 8: Table S8. Bayes factors, marginal posterior means and standard deviations of heritability estimates for OTU under genetic control together with the associated probability of these estimates being higher than 0.10. The frequency among the rabbit samples and the taxonomic assignment are also provided for each OTU., Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria Horizon 2020 Framework Programme Ministerio de Ciencia, Innovación y Universidades, Peer reviewed