Table 2.
REBASE annotated methylases and associated motifs in R. solanacearum GMI1000 and R. solanacearum UY031.
| R. solanacearum UY031 | R. solanacearum GMI1000 | RM system | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Replicon | Locus tag | Protein ID | REBASE ID | Replicon | Locus tag | Protein ID | REBASE ID | R/M | Type | Motif | % detect. | Cons. |
| NZ_CP012687.1 | RSUY_RS00445 | WP_003261699.1 | Rso31ORF920P | NC_003295.1 | RS_RS17020 | WP_011003276.1 | RsoORF3394P | R | I | – | – | 9 |
| NZ_CP012687.1 | RSUY_RS00435 | WP_003261701.1 | M.Rso31ORF920P | NC_003295.1 | RS_RS17010 | WP_011003274.1 | M.RsoORF3394P | M | I | – | – | 9 |
| NZ_CP012688.1 | RSUY_RS22775 | WP_039562516.1 | M1.Rso31ORF46860P | NC_003295.1 | RS_RS04210 | WP_011000797.1 | M1.RsoORF844P | M | II | – | – | 7 |
| NZ_CP012688.1 | RSUY_RS22780 | WP_039562519.1 | M2.Rso31ORF46860P | NC_003295.1 | RS_RS04215 | WP_011000798.1 | M2.RsoORF844P | M | II | – | – | 10 |
| NZ_CP012687.1 | RSUY_RS11230 | WP_020957142.1 | M.Rso31ORF22890P | NC_003295.1 | RS_RS09960 | WP_011001918.1 | M.RsoORF1982P | M | II | GTWWAC | 95.5/99.5 | 12 |
| NZ_CP012687.1 | RSUY_RS05525 | WP_039558712.1 | Rso31ORF11320P | – | – | – | – | RM | II | CAACRAC | 97.0 | 1 |
| NZ_CP012687.1 | RSUY_RS05480 | WP_003264976.1 | M.Rso31ORF11220P | – | – | – | – | M | II | – | – | 1 |
| NZ_CP012687.1 | RSUY_RS05495 | WP_049280918.1 | Rso31ORF11260P | – | – | – | – | R | II | (GANTC) | – | 1 |
| NZ_CP012687.1 | – | – | M.Rso31ORF11260P | – | – | – | – | M | II | (GANTC) | – | 1 |
| – | – | – | – | NC_003295.1 | RS_RS17175 | (pseudo) | M.RsoORF3438P | M | II | (YGCCGGCRY) | 32.8 | 1 |
| – | – | – | – | NC_003295.1 | RS_RS25190 | WP_011003318.1 | V.RsoORF3438P | V | II | – | – | 1 |
| – | – | – | – | NC_003296.1 | RS_RS19865 | WP_011003871.1 | M.RsoORF570P | M | II | – | – | 1 |
| – | – | – | – | NC_003295.1 | – | – | M.RsoORF869P | M | II | (CCCAKNAVCR) | 17.3 | 4 |
R denotes restriction enzymes, M methylases and V nicking enzymes associated with m5C−MTases. Bracketed motifs indicate tentative, unconfirmed mappings to RM systems. “% detect.” indicates the percentage of motif instances detected as methylated through the SMRT sequencing in either strain. “Cons.” indicates the number of species from the reference panel in which the components of the RM system are conserved, as determined through reciprocal BLAST. The “–” symbol indicates missing RM components or their missing annotation in RefSeq records. (pseudo) indicates that the corresponding locus has been annotated as a pseudogene in RefSeq.