Table 1 List of metabolic pathways and functional groups whose genes expression was increased/diminished during different periods of germination

Amino acid metabolism pathways

250 Alanine, aspartate and glutamate

250 Alanine, aspartate and glutamate

260 Glycine, serine and threonine

260 Glycine, serine and threonine

270 Cysteine and methionine

270 Cysteine and methionine

280 Valine, leucine and isoleucine degradation

280 Valine, leucine and isoleucine degradation

290 Valine, leucine and isoleucine biosynthesis

290 Valine, leucine and isoleucine biosynthesis

300 Lysine biosynthesis

300 Lysine biosynthesis

310 Lysine degradation

330 Arginine and proline

330 Arginine and proline

340 Histidine400 Phenylalanine, tyrosine and tryptophan biosynthesis

340 Histidine

350 Tyrosine 360 Phenylalanine

380 Tryptophan

400 Phenylalanine, tyrosine and tryptophan biosynthesis

Carbohydrate metabolism

TCA cycle/pentose phosphate/glycolysis/gluconeogenesis

TCA cycle/pentose phosphate/glycolysis pathways

TCA cycle-associated pathways and genes.

Deactivated in t7-t8

the majority - 23 of 57 were associated with the TCA cycle/pentose phosphate/glycolysis pathways genes

40 Pentose and glucuronate interconversions

630 Glyoxylate and dicarboxylate metabolism

40 Pentose and glucuronate interconversions (2)

10 of 30 of the TCA cycle-associated pathways

51 Fructose and mannose metabolism

640 Propanoate metabolism

51 Fructose and mannose metabolism

52 Galactose metabolism

500 Starch and sucrose metabolism

650 Butanoate metabolism

500 Starch and sucrose metabolism

500 Starch and sucrose metabolism

520 Amino sugar and nucleotide sugar metabolism

660 C5-Branched dibasic acid metabolism.

52 Galactose metabolism

520 Amino sugar and nucleotide sugar metabolism

562 Inositol phosphate metabolism

53 Ascorbate and aldarate metabolism

562 Inositol phosphate metabolism

630 Glyoxylate and dicarboxylate metabolism

520 Amino sugar and nucleotide sugar metabolism

650 Butanoate metabolism

650 Butanoate metabolism.

562 Inositol phosphate metabolism

660 C5-Branched dibasic acid metabolism

630 Glyoxylate and dicarboxylate metabolism

640 Propanoate metabolism

650 Butanoate metabolism

Energy metabolism

190 Oxidative phosphorylation,

190 Oxidative phosphorylation

190 Oxidative phosphorylatio

genes associated with cytochrome C activated in t11-t12

A minor portion of the genes with diminished expression at t7-t8 only, represented catalase (catA and B; SCO379 and 0666) and nitrate and nitrite reductases (SCO4947, 6102 and 6532)

680 Methane

680 Methane metabolism,

680 methane metabolism

910 Nitrogen metabolisms

910 Nitrogen metabolism,

910 nitrogen metabolism

Folding, sorting and degradation

20S Proteasome subunits (SCO1643 and 1644) and a Signal peptidase I (SCO5597 and 5598).

3018 RNA degradation

modest activation of chaperone GroEL (SCO4296 and 4762)

DnaK and GroEL was for both diminished at t6-t7.

3060 Protein export

Lipid metabolism and membrane transport

Acetyl CoA carboxylase and acetyltransferase (SCO2445, 5399)

activation at (t1-t2) –

561 Glycerolipid metabolism

61 and 71 Fatty acid biosynthesis pathways

564 Glycerophospholipid metabolism

Deactivation at t7-t8 - ABC transporters,membrane transport system.

ABC transporters

genes of the secretion system

Nucleotide metabolism

240 Pyrimidine metabolism

230 Purine metabolism

Replication and repair

3030 DNA replication

3030 replication

3410 Base excision repair

3430 mismatch repair

3420 Nucleotide excision repair

3440 homologous recombination

3430 Mismatch repair

3440 Homologous recombination

Transcription/translation

970 Aminoacyl-tRNA biosynthesis

Ribosomal proteins

Induced in the t2-t4 time interval. RNA polymerase complex genes, ribosomal proteins (L1, L2, L3, L4, L5, L6, L9, L10, L11, L14, L15, L16, L17, L18, L21, L22, L23, L24, L25, L30, S3, S4, S5, S6, S7, S8, S10, S12, S16, S18, S19)

ribosomal proteins

970 Aminoacyl-tRNA biosynthesis