Table 2. DNA rearrangements found in T3E genes from Xanthomonas axonopodis strains.
| T3E genes | Pathovars | Strains | DNA rearrangements | |||
| Typea | Size (bp) | Positionb | IS direct repeat sequence generated by IS insertion and duplicated or deleted sequence in T3E genes plus flanking sequencec | |||
| avrXv3 | alfalfae | CFBP3835, CFBP3836, CFBP3837, CFBP7120, CFBP7121 | IS1595 (IS1595 family, IS1595 group) | 1072 | 513 | AAGATTCA |
| xopO | vesicatoria | CFBP6817 | ISXca2 (IS3 family, IS407 group) | 1200 | 33 | CCAT |
| ecf | alfalfae | CFBP3836 | ISXca2 (IS3 family, IS407 group) | 1200 | 1423 | CGTT |
| avrRxo1 | allii | CFBP6369, CFBP6358 | ISXca2 (IS3 family, IS407 group) | 1200 | 770 | GACG |
| avrRxo1 | allii | CFBP6107 | IS1389 (IS3 family, IS407 group) | 1207 | 411 | GTCC |
| avrXacE2 | alfalfae | CFBP3836, CFBP3837 | ISXca2 (IS3 family, IS407 group) | 1200 | 558 | AGGG |
| xopC | citrumelo | CFBP3114, CFBP3371, CFBP3843 | IS1404 (IS3 family, IS407 group) | 1203 | 2034 | GCGA |
| xopC | mangiferae-indicae | CFBP2939, CFBP2940, JP740, JP742, JP757 | IS1479 (IS5 family, IS5 group) | 1154 | 1091 | CTAG |
| xopN | aurantifolii | CFBP2866 | ISXac2 (IS3 family, IS407 group) | 1195 | ND | |
| xopF2 | aurantifolii | CFBP2866 | Deletion | 384 | 1030–1413 | gccgt[ATCGTCCAGCACGGACTGACGCTGCGCGATTCCTGCCCGACGGTCATAGGCCTGTGCCGTGAGCTCGGCACGGGTCGGCGTACCGTTTTCTCCGGGACGCACGAAGCGCTTGCTTCCCTCAGGGGTGATTTCCAATAGGACCGGCGGCGGGTCCGGCACCAGGATCTTGGGATCGATCGCCTGGAAACGCGGCAGATTGGCGACGCGCGCGCGCCTGTCCATCGATGGAATCAACAGCGTGTCGCAGGCATGCGACCCCATTCCCGAGATCACCCCAGCCAGGGTCGCTGTACTCAATGGCTCGGAAGCGGGCGGGCGGTTGCTCTGGTAGGCAGTGGCTGCAGAAATGCCGAGCGGCGTCCGCAACGCGCCAACGAAAAACGA]tctga |
| xopD | vesicatoria | CFBP6817 | Tandem duplication | 90 | 527–616 | tccccATACTCCGGCGGGTTCTTCCTATTCGTCCCTGTTCCCGCCCACCCCTTCTGGCGGTTGGCCGCAGAACGCATCAGGTGAGTGGCATCCCG ATACTCCGGCGGGTTCTTCCTATTCGTCCCTGTTCCCGCCCACCCCTTCTGGCGGTTGGCCGCAGAACGCATCAGGTGAGTGGCATCCCGatact |
a
IS names, families and groups are given according to IS Finder database (http://www.is.biotoul.fr/is.html).
b
Nucleotide numbers are given considering the nucleotides A of the start codon of T3E genes as 1.
c
Targets for duplication are in bold capitals, resulting tandem duplication are in bold and in italic, and deleted regions are in capitals in square brackets. Nucleotides flanking target regions, tandem duplications and deleted regions are in lower case.