Additional file 2 of Important ecophysiological roles of non-dominant Actinobacteria in plant residue decomposition, especially in less fertile soils
Creators: name: Yuanyuan Bao
name: Dolfing, Jan
name: Zhiying Guo
name: Ruirui Chen
name: Wu, Meng
name: Zhongpei Li
name: Xiangui Lin
name: Feng, Youzhi
Publisher: name: figshare
Year: 2021
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: FOS: Biological sciences
subject: Ecology

description: Additional file 1. “Important ecophysiological roles of non-dominant Actinobacteria in plant residue decomposition, especially in less fertile soils”. Table S1. Carbohydrate-active enzymes encoding genes involved in plant residue decomposition. Table S2. PERMANOVA showing the dissimilarities of the dominant straw-associated bacterial taxonomic and Actinobacteria functional composition between different decomposition stages, based on Bray-Curtis distance, in CQ, CS, and YT. Table S3. Mantel test between soil chemical properties and soil and straw-associated bacterial community composition across three experimental sites. Table S4. Mantel test between straw chemical components and the dominant bacterial taxonomic and functional composition at local and regional scales. Table S5. Topological properties of networks of straw decomposition bacterial communities at each experimental site. Table S8. Description of three field experimental sites. Table S9. Soil chemical properties of three experimental sites. Table S10. Straw decomposition ratios over 16-week decomposition stages. Table S11. Concentration of straw chemical components over 16-week decomposition stages. Figure S1. Relative abundances of dominant bacteria across decomposition stages at the phylum level in CQ (A), CS (B), YT (C), and across three experimental sites (D). Figure S2. Nonmetric multidimensional (NMDS) analysis of the dominant straw-associated bacterial taxonomic (A-C) and Actinobacteria functional (D) composition between different decomposition stages, based on Bray-Curtis distance, in CQ, CS, and YT (n = 60, each plot). The circles indicate a 95% standard error of each stage. Figure S3. Distance matrix regressions between straw chemistry and community (A) and functional (B) composition during decomposition within each experimental site. The slops and correlation coefficients of linear models are provided (C) as well as the significance of the linear regression slopes between Actinobacteria and other members tested by permutation tests (D). Horizontal axes indicate Euclidean distances based on all straw components. “*” denotes that the slopes were significantly less than zero by permutation tests at P &lt; 0.0001. Figure S4. Relative abundances of dominant bacteria at the phylum level revealed by DNA-SIP based shotgun metagenomic sequencing. Figure S5. Boxplots showing the average relative abundance of Acidobacteria and related gene classes revealed by DNA-SIP based shotgun metagenomic sequencing that associated with different ecological traits in Acidobacteria metagenome under different soil fertility. The relative abundances were log-transformed. GH: Glycoside hydrolase, GT: glycosyl transferase, PL: polysaccharide lyase, CE: carbohydrate esterase, CBM: carbohydrate-binding module, and AA: auxiliary activities. “n.s.” denotes P &gt; 0.05. Figure S6. Locations of the three experimental sites (CQ, CS, and YT). Figure S7. Distributions of the copy numbers of bacterial 16S rRNA gene across the buoyant densities of the DNA gradients isolated from soil samples treated with 13C- or with 12C-straw in CS (A) and YT (B). DNA fractions with green circles were defined as “heavy” genomic DNA fractions and were then subjected to shotgun metagenomic sequencing.