DOI: 10.6084/m9.figshare.27151655
title: Additional file 2 of Exploration of genes encoding KEGG pathway enzymes in rhizospheric microbiome of the wild plant Abutilon fruticosum

description: Additional file 2: Table S1. Sequence alignment results of gene queries of microbiomes of rhizosphere (R) and surrounding bulk (S) soils of A. fruticosum. Query ID refers to genes in individual or mixed less abundant microbiome samples, while subject IDs refers to the sequences in the National Center for Biotechnology Information (NCBI) that showed considerable sequence homology with one or more gene queries. Table S2. Number of genes encoding enzymes of different functional categories of Kyoto Encyclopedia of Genes and Genomes (KEGG) level 1 across microbiomes of rhizosphere (R) and surrounding bulk (S) soils of A. fruticosum. Gray color boxes refer to less frequent (˂ 50,000) KEGG categories that were not analyzed further. Table S3. Abundance of assembled genes encoding enzymes of different functional categories of Kyoto Encyclopedia of Genes and Genomes (KEGG) level 1 in microbiomes of rhizosphere (R) and surrounding bulk (S) soils of A. fruticosum. Gray color boxes refer to less frequent (˂ 50,000) KEGG categories that were not analyzed further. Table S4. Number of genes encoding enzymes of highly enriched functional sub-categories of KEGG level 2 across microbiomes of rhizosphere (R) and surrounding bulk (S) soils of A. fruticosum. Text in gray refers to less frequent (˂ 10,000) KEGG sub-categories that were not analyzed further. Table S5. Highly enriched functional categories and their sub-categories of Kyoto Encyclopedia of Genes and Genomes (KEGG) functional orthologs (KO) database in microbiomes of A. fruticosum. Boxes with gray color either refer to less KEGG sub-categories with less enriched enzymes and were not analyzed further. Table S6. Abundance of assembled genes encoding enzymes of highly enriched functional sub-categories of KEGG level 2 in microbiomes of rhizosphere (R) and surrounding bulk (S) soils of A. fruticosum. Table S7. Abundance of genes encoding enzymes of highly enriched functional sub-categories of KEGG level 2 in microbiomes of rhizosphere (R) and surrounding bulk (S) soils of A. fruticosum. Table S8. Number of genes encoding enzymes of highly enriched functional KEGG pathways (level 3) across microbiomes of rhizosphere (R) and surrounding bulk (S) soils of A. fruticosum. Text in gray refers to less frequent (&lt; 14,000) KEGG sub-categories that were not analyzed further. Table S9. Highly enriched KEGG pathways in microbiomes of A. fruticosum. Gray boxes refer to pathways with less enriched enzymes that were nor analyzed further. Table S10. Abundance of genes encoding enzymes of highly enriched functional KEGG pathways in microbiomes of rhizosphere (R) and surrounding bulk (S) soils of A. fruticosum. Text in gray refers to less frequent (&lt; 14,000) KEGG sub-categories that were not analyzed further. Table S11. Abundance of genes encoding enzymes of highly enriched KEGG pathways in microbiomes of rhizosphere (R) and surrounding bulk (S) soils of A. fruticosum. Blue box = Cellular Processes category, red box = Environmental Information Processing category, yellow box = Genetic Information Processing category, green box = Metabolism category, gray box = pathways with less enriched enzymes that were not analyzed further. Table S12. Number of assembled genes encoding enzymes of Kyoto Encyclopedia of Genes and Genomes (KEGG) functional orthologs (KO) database across microbiomes of rhizosphere (R) and surrounding bulk (S) soils of A. fruticosum. Text in gray refers to less enriched (&lt; 1,400) enzymes that were not analyzed further. Full description of enzymes along with their KEGG pathways are shown in Table S15. Table S13. Abundance of assembled genes encoding enzymes of Kyoto Encyclopedia of Genes and Genomes (KEGG) functional orthologs (KO) database in microbiomes of rhizosphere (R) and surrounding bulk (S) soils of A. fruticosum. Full description of enzymes along with their KEGG pathways are shown in Table S15. Table S14. Abundance of assembled genes encoding the most enriched enzymes of Kyoto Encyclopedia of Genes and Genomes (KEGG) functional orthologs (KO) database in microbiomes of rhizosphere (R) and surrounding bulk (S) soils of A. fruticosum. Full description of enzymes along with their KEGG pathways are shown in Table S15. Table S15. Annotation results of gene queries of microbiomes of rhizosphere and surrounding bulk soils of A. fruticosum in terms of Kyoto Encyclopedia of Genes and Genomes (KEGG) functional orthologs (KO) ID, definition along with enzyme commission (ECs) and their KEGG pathways. Table S16. Highly enriched KEGG levels with the most highly enriched enzymes in microbiomes of A. fruticosum. Gray boxes refer to less frequent KEGG pathways that were not analyzed further. Table S17. Taxonomic prediction of microbes encoding enzymes in microbiomes of rhizosphere and surrounding bulk soils of A. fruticosum along with their KEGG functional pathways and ortholog (KO) IDs.