Additional file 2 of Trophic level drives the host microbiome of soil invertebrates at a continental scale
Creators: name: Zhu, Dong
name: Delgado-Baquerizo, Manuel
name: Ding, Jing
name: Gillings, Michael R.
name: Zhu, Yong-Guan
Publisher: name: figshare
Year: 2021
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Ecology

description: Additional file 1: Supplementary Text. Characterization of microbial community in the soil food web; Table S1. The information of used primers of the DNA barcoding; Table S2. Comparison of soil fauna microbiome composition using PERMANOVA (Adonis test); Table S3. Effects of the removal of Unknown OTUs from the network on network metrics; Figure S1. The potential relationship between the loss of microbial species living within the microbiome of soil fauna and soil faunal extinction; Figure S2. The distribution of sample sites across China based on different climatic zones (A suffix of 1 in the location indicates farmland, while 2 indicates forested land); Figure S3. The relative abundance of 18 most abundant bacterial families (a) and 16 most abundant bacterial species (b) in all samples, classified by sample types; Figure S4. The alpha diversity of soil and fauna microbial communities at a sequencing depth of 13551; Figure S5. Principal coordinates analysis (PCoA) revealing the distribution of soil faunal bacterial communities using the weighted unifrac distance in each sampling site; Figure S6. Principal coordinates analysis (PCoA) revealing the distribution of soil faunal bacterial communities using the unweighted unifrac distance in each sampling site; Figure S7. Shared OTUs between soil and soil fauna; Figure S8. Principal coordinates analysis (PCoA) revealing the distribution of soil faunal bacterial communities using the weighted unifrac distance in each soil faunal group; Figure S9. Principal coordinates analysis (PCoA) revealing the distribution of soil faunal bacterial communities using the unweighted unifrac distance in each soil faunal group; Figure S10. The PERMANOVA analysis revealing the relative contribution of landuse, sampling site and soil faunal species to the variation of each soil faunal group microbiome; Figure S11. Enterotyping (clustering) of each soil faunal group, which was clustered using the Jensen–Shannon distance and partitioning around medoids method based on the relative abundance of bacterial genera; Figure S12. Analysis of microbial network taxa interconnectedness from the soil food web microbiome; Figure S13. Network analysis revealing microbial taxa interconnectedness at the Genus level; Figure S14. Boxplots presenting the difference of betweenness, closeness, and degree centrality values of nodes between the three network types (Original-Without Unknown, Original-Bootstrap and Without Unknown-Bootstrap) at different taxonomic levels; Figure S15. Fit of neutral model for collembola (a), nematodes (b), potworms (c), earthworms (d), oribatid mites (e) and predatory mites (g); Figure S16. Boxplot revealing natural 15N fractionation (δ 15N value) of different soil fauna (centre line, median; box limits, first and third quartiles; whiskers, 1.5 × interquartile range); Figure S17. FEAST estimations of source contribution to the sink (predatory mite) in each sampling site; Figure S18. Venn diagram revealing the shared OTUs number between different trophic level of soil fauna; Figure S19. Change in relative read abundance of 26 dominant bacterial taxa along an increase in trophic level (δ 15N value) of the soil fauna; Figure S20. Random forest classification of soil fauna microbial communities (including 58 bacterial taxa which were found in more than 70% of all soil fauna samples) based on different animal types (a and b) and trophic levels (c and d); Figure S21. Changes in relative read abundance of 23 unique bacterial taxa across increased trophic level as measured by δ 15N value (-0.25-16.79) in the soil fauna; Figure S22. Linear fitting diagrams revealing unique bacterial taxa that enriched with increasing δ 15N value (-0.25-16.79) in the soil fauna (P &lt; 0.001); Figure S23. Scatter diagrams revealing changes in relative read abundance of 23 unique bacterial taxa across increased trophic level as measured by δ 15N value (-0.25-16.79) in the soil fauna; Figure S24. Boxplots presenting the difference of betweenness, closeness, and degree centrality values of nodes between the three network types (Original-Without Unknown, Original-Bootstrap and Without Unknown-Bootstrap) at the Genus level, which reflected effects of Unknown taxa on different trophic level soil faunal network metrics.