Additional file 1 of The gastrointestinal microbiome in dairy cattle is constrained by the deterministic driver of the region and the modified effect of diet

Additional file 1: Table S1. The assembly results of the 120 GIT content samples in dairy cattle. Table S2. Regional differences in microbial taxa at the phylum level among the GIT regions in dairy catlle fed forage-based (F) and grain-based (G) diets. Table S3. Regional differences in microbial taxa at the genus level among the GIT regions fed forage-based (F) and grain-based (G) diets. Table S4. The shared and specfic core metabolic pathways of the four-chambered stomach, small intestine, and large intestine in dairy cattle, respectively. Table S5. Comparing the abundance of Glycoside hydrolases (GH) and polysaccharide lyases (PL) familes of the microbiome across the GIT regions in dairy cattle fed forage-based (F) and grain-based (G) diets. Table S6. Comparison of levels of carbon metabolism modules KOs of the microbiome across the GIT regions in dairy cattle fed forage-based (F) and grain-based (G) diets. Table S7. Genomic statistics for 3079 MAGs (completeness ≥ 50% and contamination ≤ 10%) produced in this study. Table S8. Genomic statistics for 1904 non-redundant MAGs (completeness ≥ 50% and contamination ≤ 10%) produced in this study. Table S9. Regional differences in microbial populations at the genome level among the GIT regions in forage-based (F) and grain-based (G) diets. Table S10. The CAZyme-predicted proteins of 592 high-quality strain-level genome bins (SGBs; completeness > 80%, contamination < 10%, and quality score > 50). Table S11. The predicted polysaccharide utilization locus (PULs) of 202 high-quality SGBs among the GIT microbiota in dairy cattle. Table S12. The 213 high-quality SGBs encoding fermentative hydrogenases (H2-producing). Table S13. The 195 high-quality SGBs encoding [FeFe] Group A3 for bifurcating hydrogenases (bidirectional). Table S15. The different abundance in microbial taxa among the GIT regions between the forage-based (F) and grain-based (G) diets. Table S16. The different abundance of 1904 SGBs across the GIT regions between the forage-based (F) and grain-based (G) diets in dairy cattle. Table S17. The different abundance glycoside hydrolases (GH) and polysaccharide lyases (PL) familes of the microbiome across the GIT regions between the forage-based (F) and grain-based (G) diets in dairy cattle. Table S18. Comparison of the increased abundance of CAZymes across the GIT regions of dairy cattle fed a grain-based (G) diet. Table S19. Comparison of the decreased abundance of CAZymes across the GIT regions of dairy cattle fed a grain-based (G) diet. Table S20. The different abundance in carbon metabolism modules KOs of the microbiome across the GIT regions between the forage-based (F) and grain-based (G) diets in dairy cattle.