Microbial profiling identifies potential key drivers in gastric cancer patients

Figures & data

Table 1. Alpha diversity parameters of the three groups of GJ, GNT and GCT.

	Richness	Chao1	Shannon_2	Simpson	Dominance	Equitability
GJ	354 ± 189	355 ± 189	4.8 ± 1.0	0.1 ± 0.1	0.9 ± 0.1	0.6 ± 0.1
GNT	516 ± 269	525 ± 268	5.9 ± 0.9	0.06 ± 0.02	1.0 ± 0.0	0.7 ± 0.1
GCT	663 ± 371	664 ± 362	6.5 ± 1.4	0.03 ± 0.06	1.0 ± 0.0	0.7 ± 0.2

Note: GJ: gastric juice; GNT: gastric normal tissue; GCT: gastric cancer tissues.

Figure 1. UPGMA phylogenetic tree based on weighted unifrac distance combined with phylum-level species distribution.

Table 2. Microbial distribution of the three groups of GJ, GNT and GCT.

	Proteobacteria	Firmicutes	Bacteroidetes	Fusobacteria	Actinobacteria	Others
GJ	36.8% ± 15.7%	27.1% ± 18.2%	26.8% ± 15.4%	4.9% ± 4.7%	2.9% ± 2.6%	1.5% ± 1.2%
GNT	36.5% ± 6.0%	21.4% ± 8.8%	35.4% ± 9.6%	1.1% ± 1.2%	3.4% ± 1.7%	2.3% ± 1.5%
GCT	21.0% ± 8.0%	39.8% ± 16.8%	27.9% ± 6.9%	2.2% ± 1.7%	7.7% ± 3.4%	1.4% ± 0.9%

Note: GJ, gastric juice; GNT, gastric normal tissue; GCT, gastric cancer tissues.

Table 3. Distribution of the top 20 most dominant OTUs in the 18 samples and their closest cultured bacteria.

OTU ID	Average	Isolated microbes (accession numbers)	Identity (%)
OTU_1	5.3% ± 11.6%	Helicobacter pylori strain ATCC 43504 (NR_044761.1)	100.00
OTU_2	4.7% ± 8.2%	Escherichia fergusonii strain ATCC 35469 (NR_074902.1)	100.00
OTU_8	4.6% ± 5.9%	Neisseria subflava strain U37 (NR_041989.1)	100.00
OTU_3	4.5% ± 7.0%	Streptococcus dentisani strain 7747 (NR_117719.1)	100.00
OTU_4	4.1% ± 10.1%	Bacillus velezensis strain FZB42 (NR_075005.2)	100.00
OTU_6	2.1% ± 3.2%	Prevotella melaninogenica strain ATCC 25845 (NR_102895.1)	100.00
OTU_14	2.1% ± 4.0%	Acetobacter suratthaniensis strain AI32 (NR_146709.1)	100.00
OTU_10	1.9% ± 3.2%	Fusobacterium nucleatum subsp. vincentii strain ATCC 51190 (NR_117841.1)	99.00
OTU_16	1.7% ± 3.1%	Uncultured Bacteroides sp. clone OTU_107 (MH569972.1)	100.00
OTU_12	1.5% ± 1.9%	Haemophilus parainfluenzae strain CIP 102513 (NR_116168.1)	100.00
OTU_15	1.3% ± 2.9%	Ruminococcus gnavus strain ATCC 29149 (NR_036800.1)	100.00
OTU_5	1.3% ± 5.0%	Haemophilus parahaemolyticus strain NCTC 8479 (NR_114764.1)	99.00
OTU_25	1.2% ± 2.1%	Prevotella pallens strain JCM 11140 (NR_113121.1)	100.00
OTU_9	1.1% ± 2.1%	Alloprevotella rava strain 81/4-12 (NR_118334.1)	90.00
OTU_13	1.1% ± 3.1%	Haemophilus influenzae strain 680 (NR_044682.2)	99.00
OTU_18	1.1% ± 4.2%	Lactobacillus paracasei strain NBRC 15889 (NR_113337.1)	100.00
OTU_74	1.1% ± 1.6%	Prevotella jejuni strain CD3:28 (NR_109628.1)	99.00
OTU_35	1.1% ± 3.1%	Lactobacillus hammesii strain TMW 1.1236 (NR_042243.1)	100.00
OTU_17	1.0% ± 1.9%	Ottowia pentelensis strain RB3-7 (NR_116344.1)	98.00
OTU_36	1.0% ± 1.7%	Rothia mucilaginosa strain DSM 20746 (NR_044873.1)	99.00

Figure 2. Network of co-occurring OTUs based on correlation analysis.

Note: The selection standards for strong and significant correlation are Spearman’s r > 0.6 and p < 0.05, respectively. The size of each node is proportional to the relative abundance; the colour and thickness of each connection between two nodes (edge) is proportional to the value of Spearman’s correlation coefficients. Blue lines show negative correlation between two nodes; red lines show positive correlation between two nodes.

Data availability statement

The data that support the findings of this study are available from the corresponding author upon reasonable request.