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Table 3 Relative expression of quinone biosynthesis and oxidoreductase genes belonging to the K. pneumoniae Kp13 respiratory chain

From: The polymyxin B-induced transcriptomic response of a clinical, multidrug-resistant Klebsiella pneumoniae involves multiple regulatory elements and intracellular targets

Enzyme name Gene name Locus ID log2FC
Primary dehydrogenases (DH):
 Formate dehydrogenase-N subunit alpha (FDH-N subunit alpha) fdnG KP13_32232 0.1
 Formate dehydrogenase-N subunit beta (FDH-N subunit beta) fdnH KP13_04527 −0.3
 Formate dehydrogenase-N subunit (FDH-N subunit gamma) fdnI KP13_04529 0.1
 Formate hydrogenlyase H fdhF KP13_05320 1.1
 Formate hydrogenlyase regulatory protein hycA hycA KP13_02572 0.6
 Formate hydrogenlyase subunit 2 to 7 hycB-G KP13_02573-8 0.9, 1.6, 0.9, 0.8, 0.9, 1.2
 Formate hydrogenlyase maturation protein HycH hycH KP13_02579 1.3
 NADH-quinone oxidoreductase (NDH-1) nuoA-nuoN KP13_00993-81 0.1, 0, 0.2, 0, 0, −0.2, 0, −0.3, −0.1, −0.2, −0.1, −0.1, −0.1
 NADH-quinone oxidoreductase (NDH-2) ndh KP13_04904 −0.5
 Glycerol-3-P DHO glpD KP13_00670 −1.5
 Glycerol-3-P DH N (subunit A) glpA KP13_00962 −3.6
 Glycerol-3-P DH N (subunit B) glpB KP13_00963 −2.1
 Glycerol-3-P DH N (subunit C) glpC KP13_00964 −1.4
 Pyruvate oxidase poxB KP13_04234 0.1
 D -Lactate DH dld KP13_03193 −0.1
 L -Lactate DH lctD or lldD KP13_00216 0.2
 D -Amino acid DH dad (dad2) KP13_04669 0.9
 Glucose dehydrogenase gcD KP13_32152 0.1 b
 Succinate DH sdhCDAB KP13_03281-77 0.3, 0.1, 0.1, 0, −0.1
Quinone biosynthesis:
 Ubiquinone (UQ) ubiA-ubiH ubiX KP13_00377 KP13_01733 KP13_00376 KP13_01739 KP13_01731 KP13_03318 KP13_00956 KP13_02174 KP13_01019 − 0.3 0.1 0 0.2 0.4 0
 Naphthoquinone menaquinone (MK) menB-menF menH KP13_00975 KP13_00974 KP13_00977 KP13_00973 KP13_00978 KP13_00976 −0.1 0.2 −0.5 −0.1 0.1 −0.4
Terminal reductases:
 Quinol oxidase bo 3 cyoABCE KP13_03683 KP13_03684 KP13_20485 KP13_03687
 Quinol oxidase bd cydAB KP13_03271-2 −0.3
 Quinol oxidase III (Cyx) appBC KP13_04076-5 0.3
 Nitrate reductase A narGHJI KP13_04712-09 0.2, 0.5, 0.6, 0.3
 Nitrate reductase Z narZYWV KP13_04512-09 0.6, 0.3, 0.7, 0.5
 Nitrate reductase, periplasmic nasAB KP13_04717-8 0.8, −1.1
 DMSO reductase dmsBAD KP13_01159-61 0.8, 0.5, −0.2
 Fumarate reductase frdABCD KP13_31481 KP13_00513 KP13_00512 KP13_00511 −0.20.1 0.50.3
  1. Relative expression (log2(fold-change) [log2FC]) of genes encoding for quinone biosynthesis and oxido-reductases of the respiratory chains of Kp13 for bacterial growth in polymyxin (PB) versus control condition (non-induced). Criteria for significance: FDR≤0.01. log2FC values in bold, positive denotes up-regulation in PB and log2FC in bold, negative denotes down-regulation in polymyxin. log2FC in italic font are not significant based on FDR. bThese comparisons gave significant differentially expressed genes at a FDR of ≤0.05