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Table 1 Functional categories significatively enriched or depleted in the top 404 differentially expressed genes

From: Complete gene expression profiling of Saccharopolyspora erythraea using GeneChip DNA microarrays

COG

Functional categories

Total probesets

Probesets with q-value <= 0.001

 

I. Cellular processes and signalling

  

I.1

Cell cycle control, cell division, chromosome partitioning

25

4

I.2

Cell motility

1

0

I.3

Cell wall/membrane/envelope biogenesis

145

13

I.4

Defense mechanisms

63

0

I.5

Intracellular trafficking, secretion, and vesicular transport

17

1

I.6

Posttranslational modification, protein turnover, chaperones

134

24

I.7

Signal transduction mechanisms

135

4

 

II. Information storage and processing

  

II.1

Amino acid transport and metabolism

1

0

II.2

Cell wall/membrane/envelope biogenesis

1

0

II.3

Chromatin structure and dynamics

1

0

II.4

General function prediction only

21

2

II.5

Nucleotide transport and metabolism

5

0

II.6

Posttranslational modification, protein turnover, chaperone

3

0

II.7

Replication, recombination and repair

172

3

II.8

RNA processing and modification

1

0

II.9

Secondary metabolites biosynthesis, transport catabolism

3

0

II.10

Signal transduction mechanisms

50

2

II.11

Transcription

508

9

II.12

Translation, ribosomal structure and biogenesis

175

17

 

III. Metabolism

  

III.1

Amino acid transport and metabolism

466

0

III.2

Carbohydrate transport and metabolism

429

31

III.3

Cell wall/membrane/envelope biogenesis

27

0

III.4

Coenzyme transport and metabolism

186

21

III.5

Energy production and conversion

338

40

III.6

Inorganic ion transport and metabolism

189

17

III.7

Lipid transport and metabolism

299

11

III.8

Nucleotide transport and metabolism

90

12

III.9

Posttranslational modification, protein turnover, chaperones

6

0

III.10

Secondary metabolites biosynthesis, transport catabolism

205

10

III.11

Signal transduction mechanisms

11

0

 

IV. Poorly characterized

  

IV.1

Function unknown

2267

110

IV.2

General function prediction only

520

33

  1. The total of the ORFs targeted by the 6494 probe-sets analysed, and the 404 genes with q-value <= 0.001, have been divided into functional categories and the enrichment or depletion of some of them was evidenced. For each functional category BOLD = enrichment = % (Probesets with q-value <= 0.001)>2*%(total probesets) ITALIC= depletion = % (Probesets with q-value <= 0.001)<2*%(total probesets)
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Microbial Cell Factories

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