Skip to main content

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

−0.1

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

0.1

−0.1

−0.2

−0.1

 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

−0.2

−0.1

0.5

−0.3

  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