Table 1.
Gains and Losses of Variable sRNAs in the Escherichia coli–Shigella Lineage
| sRNA Name | Branches on Which Inferred sRNA Gains Occur | Branches on Which Inferred sRNA Losses Occur | Category |
| C0719 | E + Sd, Sb + Ss | Paraphyletic | |
| C0293 | Ec_MG1655 + ECW3110 | Monophyletic | |
| ryjB | Ec_S88, Ec_UMN026, Ec_MG1655 + ECW3110 | Polyphyletic | |
| istR-2 | B2, Sf_2a | Paraphyletic | |
| ryjA | Sb_277 | Paraphyletic | |
| sroB | Ec_IA139 | Paraphyletic | |
| istR-1 | B2, Sf_2a | Paraphyletic | |
| C0614 | E | Paraphyletic | |
| C0362 | B2 + D, E+Sd, Ec_C_ATCC, B1 + S | Paraphyletic | |
| C0465 | Sd, Sb_227 | Paraphyletic | |
| C0067 | B1+S+A | Ec_C_ATCC, Sf, Sb | Paraphyletic |
| dicF | Ec_IAI39, Ec_536, Sd, Ec_HS, Sf, Ss_046, Sb_227, Ec_SE11 | Paraphyletic | |
| sokB | Sf | Paraphyletic | |
| sokA | Sf | Paraphyletic | |
| eyeA | Ec_E2348, Ec_536 + Ec_CFT073, Ec_APEC + Ec_S88 + Ec_UT189, Ec_UMN026, E + Sd, Ec_C_ATCC + Ec_HS, Sf_5_8401, Sb + Ss, Ec_IAI1, Ec_SE11 | Paraphyletic | |
| rseX | Sd, Ec_HS, Sf | Paraphyletic | |
| sroH | B2 + D, Ec_C_ATCC, Sf, Ss_046 | Paraphyletic | |
| rydC | Ec_IA139 | Paraphyletic | |
| isrC | Ec_55989 | Ec_IAI39 + Ec_SMS_3, Ec_E2348, Ec_APEC + Ec_S88 + Ec_UT189, E + Sd, Ec_C_ATCC + Ec_HS, Sf_5_8401, B1 + Sb + Ss | Paraphyletic |
| rttR | Ec_IAI39, Ec_E2348 | Paraphyletic | |
| symR | Ec_55989 | Sd, Ec_HS, B1 + Sb + Ss | Paraphyletic |
| IS128 | B2 + D, E, B1 + Sb + Ss | Paraphyletic | |
| omrB | Sb | Paraphyletic |