TABLE 1.

Number of genes that were differentially expressed at one or more time points, sorted by cellular rolea

Cellular roleNo. of differentially expressed genes
Down-regulatedUp-regulated
Amino acid biosynthesis52
Biosynthesis of cofactors/prosthetic groups/carriers61
Cell envelope2412
Cellular processes288
Central intermediary metabolism53
DNA metabolism516
Energy metabolism3011
Fatty acid and phospholipid metabolism16
Hypothetical proteins11883
Other categories81
Protein fate98
Protein synthesis1413
Purine/pyrimidine/nucleoside/nucleotide118
Regulatory functions1714
Signal transduction179
Transcription33
Transport and binding protein4049
Unknown function2317
Viral functions10
  • a Differentially expressed plasmid-encoded genes are also included. Genes that were up-regulated at some time points and down-regulated at other time points are counted twice. Likewise, genes that have been assigned more than one cellular role were counted twice.