Table 3 Promoters, proteins or open reading frames (ORFs) induced by bile and their functions.

From: Metagenomics of pigmented and cholesterol gallstones: the putative role of bacteria

ORFs/promotors/proteins induced by bile

Function of gene products/putative function

Reference(s)

Gram-negative bacteria

Klebsiella

   DnaK

Molecular chaperone

18,25

   GroEL/GroES

Heat shock protein- Molecular chaperone

18,25

   Ohr

Organic hydroperoxide resistance

11,18,25

   Hsp20

Heat shock protein, molecular chaperone

18

   ClpB

ATP-binding chain of an ATP-dependent protease

18

   RecR homolog

Recombinase (DNA repair)

11,33

   sodA

Manganese superoxide dismutase

18,27

   BCCP

Biotin-containing carboxyl carrier protein of acetyl-CoA carboxylase

18,57

   CysK homolog

Putative cysteine synthase

18,33

   ORF002

NADPH dependent aldo or keto-oxidoreductase

28,29

   MutB

Putative Methylmalonyl-CoA mutase

11,33

   AspA

Putative Aspartate ammonia-lyase

18

   G6PD

Glucose-6-phosphate 1-dehydrogenase

30,32

   ATPG

ATP synthase gamma chain

18,57

   HemH homolog

Putative Ferrochelatase, protoheme ferro-lyase

18,33

   dmsABC

Anaerobic dimethyl sulfoxide reductase chain A,B & C

39,40,41

Escherichia

   ORF002

NADPH dependent aldo or keto-oxidoreductase

30,32

Shigella

   ORF001

NADPH dependent aldo or keto-oxidoreductase

30,32

   ORF002

NADPH dependent aldo or keto-oxidoreductase

30,32

Serratia

   ClpB

ATP Binding Chain on ATP-dependent protease

18

Gram-positive bacteria

Enterococcus

   DnaK

Molecular chaperone

18,25

   GroEL/GroES

Heat shock protein- Molecular chaperone

18,25

   Ohr

Organic hydroperoxide resistance

11,26

   Gsp

General stress protein

11,18,25

   clpB

ATP Binding Chain on ATP-dependent protease

18

   sodA

Manganese superoxide dismutase

18,27

   BCCP

Biotin-containing carboxyl carrier protein of acetyl-CoA carboxylase

18,57

   CysK homolog

Putative cysteine synthase

18,33

   OppD homolog

Oligopeptide transport ATP-binding protein

18,35

   G6PD

Glucose-6-phosphate 1-dehydrogenase

30,32

   ATPG

ATP synthase gamma chain

18,57

Bacillus

   OppD homolog

Oligopeptide transport ATP-binding protein

18,35

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