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Table 3 Summary of significant affected genes (27) in the trxB1 over-expression strain, NZ7602, when compared to the wild type (pvalue < 0.01 & FC ≥ 1.5). Predicted gene names, function, fold change induction as well as main functional classes of the significant affected transcripts are displayed in columns. Main functional classes presented in bold are those classes found overrepresented in this study when compared to the total genome of L. plantarum.

From: Thioredoxin reductase is a key factor in the oxidative stress response of Lactobacillus plantarum WCFS1

Locus

FC2 trx/wt

Gene

Product

Main Functional Class (%)1

lp_0254

1,5

cysE

serine O-acetyltransferase

Amino acid biosynthesis (4%)

lp_3421

1,6

 

extracellular protein, gamma-D-glutamate-meso-diaminopimelate muropeptidase (putative)

Cell envelope (7%)

lp_2716

1,6

ica3

glycosyltransferase (putative)

 

lp_0728

0,6

groEL

GroEL chaperonin

Cellular processes (7%)

lp_2544

1,6

npr2

NADH peroxidase

 

lp_3020

1,6

tag2

DNA-3-methyladenine glycosylase I

DNA metabolism (4%)

lp_0789

1,7

gapB

glyceraldehyde 3-phosphate dehydrogenase

Energy metabolism (4%)

lp_1237

1,5

 

unknown

Hypothetical proteins (19%)

lp_1081

1,6

 

unknown

 

lp_1611

2,1

 

unknown

 

lp_1708

2,3

 

unknown

 

lp_1880

3,9

 

unknown

 

lp_1023

1,8

 

type 4 prepilin-like proteins leader peptide processing enzyme (putative)

Protein fate (4%)

lp_2119

1,7

tuf

elongation factor Tu

Protein synthesis(4%)

lp_2721

1,5

purN

phosphoribosylglycinamide formyltransferase

Purines, pyrimidines, nucleosides and nucleotides (15%)

lp_2722

1,6

purM

phosphoribosylformylglycinamidine cyclo-ligase

 

lp_2729

1,7

purE

phosphoribosylaminoimidazole carboxylase, catalytic subunit

 

lp_0761

23,5

trxB1

thioredoxin reductase (NADPH)

 

lp_1230

1,6

 

transcription regulator

Regulatory function (4%)

lp_3278

1,8

 

amino acid transport protein

Transport and binding proteins (11%)

lp_1087

1,8

 

cation transport protein

 

lp_2992

2,6

mntH2

manganese transport protein

 

antilp_3469

1,6

   

lp_RNA02

2,6

  

plasmids (15%)

lp_p2_01

3,1

   

lp_p2_02

3,2

   

lp_p3_05

1,5

   
  1. 1values given in parenthesis correspond to the percentage of the total amount of genes (27) that belong to each depicted functional class.
  2. 2FC is fold change or 2M