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Table 3 List of genes encoding for supposed virulence factors and affected by single nucleotide polymorphisms

From: Genetic variation in Mycobacterium tuberculosis isolates from a London outbreak associated with isoniazid resistance

Gene name Function Result S/NS Position Amino acid change
ctpA Cation transporting P-type ATPase Reduced CFUs NS 100895 A/S
ctpI Cation transporting P-type ATPase Reduced CFUs S 130449 A/A
mce1F Mce protein Reduced tissue pathology and increased survival NS 206453 G/A
Rv0176 Mce protein Reduced CFUs, reduced tissue pathology, and increased survival NS 208299 P/R
pckA Iron-regulated phosphoenolpyruvate carboxykinase Reduced CFUs NS 252105 M/I
pcaA Mycolic acid cyclopropane synthase Reduced CFUs in lung NS 561021 H/Y
pstS1 phosphate-binding lipoprotein component of inorganic phosphate transport system Reduced multiplication NS 1042991 P/A
mprB Two component sensor kinase Reduced CFUs in lung latent stage S 1098698 G/G
oppA Oligopeptide-binding lipoprotein component of peptide transport system Reduced CFUs in organs in the chronic infection, increased survival S 1433114 G/G
oppD Oligopeptide-transport ATP binding protein Reduced CFUs in organs in the chronic infection, increased survival S 1434648 V/V
irtA Iron-regulated transporter Reduced CFUs in macrophages and lung S 1514732 R/R
irtB Iron-regulated transporter Reduced CFUs in macrophages and lung S 1515922 V/V
Rv1410c Aminoglycoside/tetracycline-transport integral membrane protein Reduced CFUs S 1586360 A/A
pks5 Polyketide synthase Reduced CFUs in organs S 1726541 Y/Y
eccB5 EsX-5 type VII secretion system protein Reduced CFUs S 2017898 T/T
eccD5 EsX-5 type VII secretion system protein Reduced CFUs S 2032701 A/A
mycP5 Pro-rich membrane-anchored serine protease (mycosin) Reduced CFUs NS 2033748 G/A
katG Catalase peroxidase peroxynitritase T Reduced CFUs, resistance to INH S 2155389 P/P
Rv1931c Probable transcriptional regulatory protein Reduced CFUs S 2183054 G/G
fadE18 Acyl-CoA dehydrogenase Reduced CFUs S 2184781 G/G
mce3A Mce protein, ? virulence factor Reduced tissue pathology and increased survival S 2210055 T/T
dosT Histidine kinase response regulator Moderate reduction CFUs S 2273627 G/G
pks12 Polyketide synthase Reduced CFUs S 2294876 R/R
pafA Proteasome accessory factor A Reduced CFUs in organs and less tissue pathology S 2355511 V/V
mpa Proteasone ATPase Reduced CFUs in organs and less tissue pathology S 2375883 K/K
Rv3083 Probable monooxygenase Reduced CFUs NS 3448567 H/D
nuoG NADH dehydrogenase Increased animal survival and reduced CFUs in organs S 3518089 G/G
Rv3236c Probable conserved integral membrane transport protein Reduced phagosome ROS production S 3612571 V/V
ponA2 Penicillin-binding protein Moderate reduction in CFUs NS 4122882 R/S
mmpL8 Predicted drug exporter of the RND superfamily Reduced CFUs in organs S 4291134 R/R
esxA Early secretory antigenic target Reduced CFUs S 4352875 N/N
eccE2 Type VII secretion system protein Reduced CFUs NS 4367659 V/A
eccE2 Type VII secretion system protein Reduced CFUs NS 4367911 I/T
  1. Name of gene, function, and virulence result are shown, including if single nucleotide polymorphisms are synonymous or nonsynonymous, position, and amino acid change (if any) (adapted from [27])
  2. CFUs colony-forming units, NS nonsynonymous, ROS reactive oxygen species, S synonymous