Table 2. Loci containing nonsynonymous mutations in odd-numbered recipient clones from non-mutator populations that were replaced by donor alleles.
| Population | Gene name | Allelic state of gene after HGT | Strong positive selection in LTEE |
|---|---|---|---|
| Ara+1 | arcA | K-12 | Yes |
| Ara+1 | hslU | New allele | Yes |
| Ara+1 | ycfC | K-12 (REL606) | No |
| Ara+1 | yecE | K-12 (REL606) | No |
| Ara+4 | infB | K-12 (REL606) | Yes |
| Ara+4 | mreB | K-12 (REL606) | Yes |
| Ara+4 | spoT | K-12 | Yes |
| Ara+5 | rplF | K-12 (REL606) | Yes |
| Ara+5 | rpsC | K-12 (REL606) | No |
| Ara+5 | yhdG | K-12 (REL606) | Yes |
| Ara–1 | malT | K-12 | Yes |
| Ara–1 | rpsM | K-12 (REL606) | No |
| Ara–1 | yghJ | New allele | No |
| Ara–3 | fis | K-12 (REL606) | No |
| Ara–3 | hslU | K-12 (REL606) | Yes |
| Ara–3 | malT | K-12 | Yes |
| Ara–3 | mrdB | K-12 (REL606) | No |
| Ara–3 | pykF | K-12 (REL606) | Yes |
| Ara–3 | rpsG | K-12 | No |
| Ara–3 | tdcR | K-12 (REL606) | No |
| Ara–3 | topA | K-12 (REL606) | Yes |
| Ara–4 | garP | K-12 (REL606) | No |
| Ara–4 | infA | K-12 (REL606) | No |
| Ara–4 | mreB | K-12 (REL606) | Yes |
| Ara–4 | nadR | REL606 | Yes |
| Ara–4 | pykF | New allele | Yes |
| Ara–4 | spoT | REL606 | Yes |
| Ara–4 | ydfI | REL606 | No |
| Ara–4 | ypdC | REL606 | No |
| Ara–5 | ybaL | K-12 (REL606) | Yes |
Note: Allelic state indicates whether the sequence in the recombinant clone is identical to the K-12 but not the REL606 sequence (“K-12”); identical to both the K-12 and the REL606 sequences (“K-12 (REL606)”); identical to the REL606 but not the K-12 sequence (“REL606”); or is a patchwork of K-12, LTEE, and new mutations (“New allele”). Donor alleles often only partially replaced recipient alleles; see Fig 3 for examples and S1 Dataset for details.