Additional file 1 of N/S element transformation modulating lithospheric microbial communities by single-species manipulation
Creators: name: Yao, Shun
name: Jin, Tianzhi
name: Zhang, Lu
name: Zhang, Yong
name: Chen, Rui
name: Wang, Qian
name: Lv, Mingjie
name: Hu, Chuxiao
name: Ma, Ting
name: Xia, Wenjie
Publisher: name: figshare
Year: 2024
Subjects: subject: Microbiology
subject: FOS: Biological sciences

description: Additional file 1: SUPPLEMENTARY METHODS include Exogenous bacterial inoculum, Sandstone core sampling and processing, production water sampling and processing; DNA extraction and sequencing; Amplicon generation and sequencing; and Enumeration of bacterial diversity in sandstone cores and PW. SUPPLEMENTARY RESULTS include Cell densities in petroleum reservoir environments; Hidden anoxic sulfur and nitrogen cycles for electron acceptor generation; Assessment and analysis of the biostimulation performance on oil recovery; and Assessment on effects of reagent and laboratory contamination. Figure S1. Schematic diagram of sandstone core sampling and processing for microbiome analysis. Figure S2. The temporal variations in major chemical forms of sulfur and nitrogen during the entire period of field trials. Figure S3. The temporal variations of bacterial compositions across all PW samples. Figure S4. The bacterial compositions of sandstone cores across different wells. Figure S5. The archaeal compositions of partial PW and sandstone core samples. Figure S6. Significantly different phyla among various stages of PW. Figure S7. Co-occurrence subnetworks in various habitats and the node composition. Figure S8. The discrepancies of degree distributions between subnetworks and their corresponding random networks. Figure S9. Significantly different functions among various stages of PW’s microbiomes predicted by aligning to the FAPROTAX database. Figure S10. Fold-change of key genes’ relative expression by RT-qPCR. Figure S11. Summary of recovered MAGs. Figure S12. Taxonomy and phylogenetic tree of high-quality MAGs. Figure S13. Tracking of the variations of key functional strains and bacterial cell density in PW along the microbial modulation. Figure S14. SARA analysis of heavy oil component changes from field trails by our exogenous bacterial modulation. Figure S15. Hidden sulfur oxidation processes for oxidation of reduced sulfur compounds to sulfate. Figure S16. Summary of key genes related to sulfur, nitrogen cycling and hydrocarbon degradation that were investigated in the metagenomics analysis. Figure S17. The process flow diagram (PFD) for the preparation of exogenous Pseudomonas strain inoculum. Figure S18. Assessment of potential reagent and laboratory contaminations and effects on biological samples. Figure S19. Venn diagram and taxonomic compositions at different taxonomic classification levels. Table S1. Primers sequences and RT-qPCR programs used in this study. Table S2. SARA and viscosity analysis of heavy oil from field trails before and after exogenous bacterial intervention. Table S3. Element analysis of heavy oil from field trails before and after the exogenous bacteria intervention. Table S4. The degree of small-world properties of subnetworks. Table S5. The physical characteristics and bacterial cell densities of various petroleum reservoir habitats.