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Supplementary methods. (DOCX 32 kb)

Alpha-diversities of bacterial OTUs and DOM molecules in the tested soil samples across four typical paddy fields. A: Boxplots of alpha-diversities of bacterial OTUs using four indices: Chao1, observed species, Shannon and PD whole tree. B: Boxplots of alpha-diversities of DOM molecules using three indices: Chao1, observed species, and Shannon. We randomly subsampled 43,000 sequences and 9000 per sample ten times to correct for differences in sequencing depth for bacterial OTUs and DOM molecules. In the boxplots, the symbols indicate the following: box, lower and upper quartiles; horizontal line, median value; whiskers, lower and upper inner fence. The circle above or below the box plots indicates outliers. Differences among the four regions were tested using non-parametric Kruskal–Wallis test (P 0; N ≥ 0; H > 0; O ≥ 0; 1 ≥ P ≥ 0; 1 ≥ S ≥ 0; H ≥ C/3; H ≤ 2C + N + P + 2; 2|(N + H + P) = 0; N ≤ C; O + S ≤ C + 2 N + 3P; O + S ≥ P. Functional group relationships or “chemical building block” used in elemental formula assignment: CH4 - O (0.036385 Da), C2H2 (26.015650 Da), C2H4 (28.031300 Da), CH2 (14.015650 Da), H2 (2.015650 Da), H2O (18.010565 Da), O (15.994915 Da), CO2 (43.989830 Da), NH (15.010899 Da), S (31.972071 Da). (DOCX 1840 kb)

Supplementary results about consistence between metagenomic data and 16S rRNA data. (DOCX 29 kb)

Supplementary methods. (DOCX 32 kb)

Supplementary results about consistence between metagenomic data and 16S rRNA data. (DOCX 29 kb)

Alpha-diversities of bacterial OTUs and DOM molecules in the tested soil samples across four typical paddy fields. A: Boxplots of alpha-diversities of bacterial OTUs using four indices: Chao1, observed species, Shannon and PD whole tree. B: Boxplots of alpha-diversities of DOM molecules using three indices: Chao1, observed species, and Shannon. We randomly subsampled 43,000 sequences and 9000 per sample ten times to correct for differences in sequencing depth for bacterial OTUs and DOM molecules. In the boxplots, the symbols indicate the following: box, lower and upper quartiles; horizontal line, median value; whiskers, lower and upper inner fence. The circle above or below the box plots indicates outliers. Differences among the four regions were tested using non-parametric Kruskal–Wallis test (P 0; N ≥ 0; H > 0; O ≥ 0; 1 ≥ P ≥ 0; 1 ≥ S ≥ 0; H ≥ C/3; H ≤ 2C + N + P + 2; 2|(N + H + P) = 0; N ≤ C; O + S ≤ C + 2 N + 3P; O + S ≥ P. Functional group relationships or “chemical building block” used in elemental formula assignment: CH4 - O (0.036385 Da), C2H2 (26.015650 Da), C2H4 (28.031300 Da), CH2 (14.015650 Da), H2 (2.015650 Da), H2O (18.010565 Da), O (15.994915 Da), CO2 (43.989830 Da), NH (15.010899 Da), S (31.972071 Da). (DOCX 1840 kb)