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Table 2 EGTs assigned to putative pathogenic bacterial species and corresponding genera and orders by means of CARMA3

From: Detailed analysis of metagenome datasets obtained from biogas-producing microbial communities residing in biogas reactors does not indicate the presence of putative pathogenic microorganisms

Dataset B55 S55 S65 S70 G5 G30 U1 Average Average [%]
All reads 248,775 303,493 309,589 315,387 265,256 274,138 1,347,644 437,755 100.00
All classified reads 180,454 223,536 237,134 255,499 193,025 196,763 897,311 311,960 72.26
Clostridiales (order) 21,479 53,756 62,570 43,940 33,353 26,989 23,482 37,939 8.67
Clostridium 1,535 6,622 16,459 6,326 2,855 2,163 3,333 5,613 1.28
C. botulinum 0 0 0 0 0 0 1 0 0.00
C. sordelii 0 0 0 0 0 0 0 0 0.00
C. butyricum 5 2 0 0 0 0 0 1 0.00
C. difficile 0 1 0 0 0 3 1 1 0.00
C. perfringens 0 0 0 0 0 0 2 0 0.00
C. tetani 0 0 1 0 0 0 0 0 0.00
C. clostridioforme 0 0 0 0 1 1 2 1 0.00
Enterobacteriales (order) 26 25 24 12 57 41 39 32 0.01
Escherichia 1 0 0 0 1 3 3 1 0.00
E. coli 0 0 0 0 0 0 5 0 0.00
Salmonella 1 0 0 0 0 2 1 0 0.00
S. enterica 0 0 0 0 0 0 0 0 0.00
Shigella 0 0 0 0 0 0 3 0 0.00
S. boydii 0 0 0 0 0 0 0 0 0.00
S. dysenteriae 0 0 0 0 0 0 0 0 0.00
S. flexneri 0 0 0 0 0 0 0 0 0.00
S. sonnei 0 0 0 0 0 0 0 0 0.00
Lactobacillales (order) 227 344 385 318 744 654 683 479 0.11
Streptococcus 19 30 30 12 149 100 193 76 0.02
S. agalactiae 0 0 0 0 1 1 1 0 0.00
S. pyogenes 0 0 0 0 0 0 0 0 0.00
S. mitis 0 2 0 0 2 0 0 1 0.00
S. pneumoniae 0 0 0 0 3 0 0 0 0.00
S. infantarius 0 0 0 0 2 1 5 1 0.00
Vibrionales (order) 5 11 12 3 11 14 11 10 0.00
Vibrio 1 3 2 0 2 4 15 3 0.00
V. cholerae 0 0 0 0 0 0 0 0 0.00
V. fischeri 0 0 0 0 0 0 0 0 0.00
  1. Numbers of assignments to selected genera and orders were normalized to an equal sample size.