TABLE 3.
Classes of genes differentially expressed during growth in the presence of 0.5% bilea
| Gene classification | No. of genes during bile adaptation:
|
|
|---|---|---|
| Overexpressed | Underexpressed | |
| Energy production and conversion | 0 | 11 |
| Cell division and envelope biogenesisb | 0 | 4 |
| Substrate transport and metabolismc | 5 | 23 |
| Translation, ribosomal structure, and biogenesis | 0 | 11 |
| Transcription | 2 | 1 |
| Replication, recombination, and repair | 0 | 4 |
| Intracellular trafficking, secretion, and vesicular transport | 0 | 2 |
| Signal transduction mechanisms | 0 | 2 |
| Defense mechanisms | 1 | 0 |
| Unknown functions | 9 | 9 |
| Total | 17 | 67 |
a
Genes were classified based on COG domains found in the protein sequence through a search of the JGI Integrated Microbial Genomes database.
b
This class represents two COG categories: cell cycle control, cell division, and chromosome partitioning and cell wall/membrane/envelope biogenesis.
c
This class represents multiple COG categories that include transport and metabolism of carbohydrates, amino acids, nucleotides, coenzymes, lipids, inorganic ions, and secondary metabolites.