Table 2

Comparison of oligo(dT) and MTP priming in terms of number of genes significantly differentially expressed in specific biological processes and metabolic pathways with the highest number of genes significantly differentially expressed (P ≤ 0.05) in S. cerevisiae and N. crassa.

Process/pathway*

Oligo(dT)

MTP

Additional genes identified by MTP

Improvement (%)


Saccharomyces cerevisiae, nitrogen depletion

Carbohydrate Metabolism

136

208

72

53

Amino Acid Metabolism

114

181

67

59

Lipid Metabolism

55

89

34

62

Metabolism of Cofactors and Vitamins

43

67

24

56

Energy Metabolism

37

62

25

68

Glycan Biosynthesis and Metabolism

28

58

30

107

Xenobiotics Biodegradation and Metabolism

28

52

24

86

Nucleotide Metabolism

31

49

18

58

Signalling

19

39

20

105

Metabolism of Other Amino Acids

20

36

16

80

Cell cycle

20

32

12

60

Biosynthesis of Secondary Metabolites

9

15

6

67

Folding, Sorting and Degradation

7

12

5

71

Replication and repair

8

8

0

0

Translation

2

2

0

0

Transcription

1

1

0

0


Neurospora crassa, protoperithecial development

Carbohydrate metabolism

23

30

7

30

Translation

25

29

4

16

Amino acid metabolism

14

26

12

86

Lipid metabolism

8

19

11

138

Xenobiotics biodegradation and metabolism

5

17

12

240

Metabolism of other amino acids

3

11

8

267

Metabolism of cofactors and vitamins

3

10

7

233

Energy metabolism

9

8

-1

-11

Glycan biosynthesis and metabolism

0

5

5

**

Nucleotide metabolism

1

4

3

300

Biosynthesis of secondary metabolites

2

3

1

50

Signalling

1

1

0

0

Protein fate

0

1

1

**

Transcription

0

1

1

**


* The pathways and processes were identified using Kyoto Encyclopedia of Genes and Genomes (KEGG). For full list of S. cerevisiae pathways, see Additional File 3.

** biological process not identified by oligo(dT) primers as including any genes significantly differentially expressed by N. crassa protoperithecia.

Adomas et al. BMC Genomics 2010 11:477   doi:10.1186/1471-2164-11-477

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