Additional file 2 of A multi-OMIC characterisation of biodegradation and microbial community succession within the PET plastisphere

Additional file 1: Figure S1. DNA yields from all PET succession experiment mesocosms and the inoculum. The DNA concentration in all negative extraction controls was too low to measure aside from day 30 (0.04 ng μL-1). Where DNA yields were significantly (two sample T-test p97% similarity), whether these genomes potentially contain PETases and MHETases, PICRUSt2 nearest sequenced taxon indices (NSTI), the KEGG orthologs present in the genomes according to PICRUSt2 and other relevant information. Table S3. Analysis of early, middle or late colonisers, showing the day on which that ASV was most abundant in that treatment. Only ASVs that were above 0.5% in abundance in at least one time point in that treatment were included. Table S4. Genomic analysis of Thioclava sp. BHET1 and Bacillus sp. BHET2 (separate excel file). Table S5. Sequences that were used to construct the Hidden Markov Models (HMMs) for PETase, pcaG, pcaH, tphA2, tphA3 and tphB. Table S6. Potential PETases found in the genomes of Thioclava sp. BHET1 and Bacillus sp. BHET2 using a Hidden Markov Model (HMM) constructed with known PETases. Table S7. Peptides and protein groups for cellular and extracellular proteomics performed on Thioclava sp. BHET1 and Bacillus sp. BHET2 growing with fructose, TPA, BHET and PET (separate excel file). Table S8. Proteomic analysis of cellular and extracellular proteomics performed on Thioclava sp. BHET1 and Bacillus sp. BHET2 growing with fructose, TPA, BHET and PET (separate excel file). Table S9. Metabolomic analysis performed on Thioclava sp. BHET1 and Bacillus sp. BHET2 growing with fructose, TPA, BHET and PET (separate excel file). Table S10. Metabolomic analysis performed on microbial communities after incubation with BHET, amorphous PET, PET powder and weathered PET powder (separate excel file). Table S11. Proteins in the Thioclava sp. BHET1 cellular proteome that are potentially related to PET, BHET and TPA degradation, including relative abundance within the proteome and fold change when compared with the positive control. Table S12. Proteins that are potentially involved in xenobiotics degradation that were upregulated in one or more treatments in the Bacillus sp. BHET2 cellular proteome, including relative abundance within the proteome and fold change when compared with the positive control. Table S13. Details of the PETases found within the PICRUSt2 artificial metagenome and predicted to be in ASVs (separate excel file). Table S14. Nearest Sequenced Taxon Indices (NSTI) for all samples included in the PICRUSt2 analysis. Table S15. Comparison of different kits for DNA extraction from plastic pieces incubated with microbial communities.