Table 2. Major groups of transcriptionally up- and downregulated genes in co-culture.
| Process | Function | Up in co-culture | Down in co-culture |
|---|---|---|---|
| Treponema primitia | |||
| Metabolism | Hydrogen and C1 metabolism | 5 | 7 |
| Vitamins and cofactors | B12 and corrinoid related | 2 | 23 |
| Tryptophan/phenylalanine/tyrosine biosynthesis | 10 | ||
| Amino acids | Methionine synthesis and transport | 3 | |
| Isoleucine/leucine/valine transport | 2 | ||
| Treponema azotonutricium | |||
| Vitamins and cofactors | B12 and corrinoid-related | 8 | |
| Biotin transport, regulation, metabolism | 3 | ||
| Vitamin B6 precursor synthesis | 1 | ||
| Enzymes requiring B6 for activity | 3 | ||
| Amino acids | Isoleucine/leucine/valine biosynthesis | 4 | |
| Serinea | 3 | ||
| Cysteinea | 2 | ||
Regulated genes and gene clusters of T. primitia and T. azotonutricium are listed by major cellular pathways. Included are genes with clear annotation and fold change that is above background (see Materials and methods), and which are discussed in the manuscript. The values in the up and down columns describe the number of genes associated with a specific process.
a
Some genes involved in the serine and cysteine biosynthesis pathways require vitamin B6, and appear in both categories.