TABLE 3.
Members of the IS66 family
| IS elementa | Lengthb (bp) | IRc (bp) | TSDd (bp) | Sourcee | GenBank accession no.f | Orientationg | Positionh (bp) | Source or reference |
|---|---|---|---|---|---|---|---|---|
| IS679 | 2,704 | 25 | 8 | E. coli B171(pB171) | AB024946 | + | 41315–44018 | 34 |
| IS66 | 2,548 | 20 | 8 | A. tumefaciens(pTiA66) | M10204 | + | 31–2578 | 15 |
| IS866 | 2,716 | 27 | 8 | A. tumefaciens(pTiTm4) | M25805 | + | 1–2716 | 2 |
| IS1131 | 2,773 | 22 | 8 | A. tumefaciens PO22(pTi) | M82888 | + | 56–2828 | 35 |
| IS292 | 2,496 | 20 | 8 | Agrobacterium sp. strain X88–292 | L29283 | − | −1–2495 (+1) | 22 |
| IS71 | 2,386 | 13 | 8 | A. tumefaciens(pTi15955) | AF242881 | − | 161652–162393; 164958–166601 | 16; This study |
| IS682 | 2,533 | 24 | 8 | E. coli O157:H7 | NR | + | 1401098–1403630 | 11 |
| IS683 | (2,489) | E. coli O157:H7 | NR | + | 3854411–3856899 | 11 | ||
| IS684 | 2,040 | 30 | No | P. syringae pv. syringae B728a | AF232005 | + | 4058–6097 | This study |
| IS685 | 2,041 | 22 | No | P. putida TF4-1L carrying plasmid OCT | AJ245436 | + | 2311–4351 | This study |
| IS686 | (1,947) | Rhizobium sp. strain NGR234(pNGR234a) | AE000093 | − | 1782–3728 | This study | ||
| IS687 | (1,189) | R. leguminosarum(pRP2JI) | X84099 | − | 1–1189 | This study | ||
| IS689 | (2,584) | P. putida(pPGH1) | AF052749 | − | 1069–3652 | This study | ||
| IS690 | (1,473) | A. tumefaciens(pTi) | U96413 | + | 9209–9323 | This study | ||
| IS691 | (1,398) | V. harveyi BB7 | L26221 | + | 2915–4312 | This study | ||
| IS692 | 2,563 | 20 | 8 | A. tumefaciens(pTi15955) | AF242881 | + | 138423–140985 | This study |
| IS693 | 3,078 | 25 | 8 | Rhizobium sp. strain NGR234(pNGR234a) | AE000079 | + | 4887–7964 | This study |
| IS1313 | 2,547 | 24 | 8 | A. tumefaciens(pTiBo542) | U19149 | + | 1–2547 | 6 |
| ISEc8 | 2,442 | 22 | 8 | E. coli EDL933 | AF071034 | + | 6012–8453 | 26 |
| ISR11 | 2,495 | 20 | ? | R. leguminosarum bv. viciae 897 | L19650 | − | 1–2495 | Unpublished data |
| ISRm2 | ∼2,700 | 25 | 8 | R. meliloti 41(pRme41a and c) | M21471 | − | ND | 8 |
| ISRm14 | 2,695 | 22 | 9(?) | R. meliloti USDA1024 | AF134706 | + | 1–2695 | 26 |
| ISRm14-2 | 2,687 | 22 | 8 | R. meliloti A3 | U66830 | + | 8315–11001 | 26 |
| ISRsp1 | 3,481 | 22 | 8 | Rhizobium sp. strain NGR234(pNGR234a) | AE000077 | + | 5844–9324 | 16, 26 |
New IS elements named in this report are underlined. For their structures, see Fig. 6. ISRm2 belongs to the IS66 family, but its complete sequence is not found in the databases. IS867 in A. tumefaciens pTiTm4 is reported to have ca. 75% homology with IS866 (2), but because its complete sequence is not registered in the databases, it is not listed here. ISRm8 (1,235 bp) in R. meliloti is thought to be a part of an intact IS element (16, 27) but had only a segment with homology to tnpC and therefore is not listed.
Numbers in parentheses are the truncated element lengths.
Lengths of terminal IRs.
“No” indicates no target site duplication (TSD) in regions flanking an IS element.
A., Agrobacterium; E., Escherichia; R., Rhizobium; P., Pseudomonas; and V., Vibrio.
NR, sequence not registered in the databases.
Orientations of elements are defined as the transcriptional direction of tnpA, tnpB, and tnpC.
The position of IS292 is shown as −1 to 2495 (+1), because IS292 (2,496 bp) is registered as the 2,494-bp sequence. The position of IS71 is shown as 161652 to 162393 and 164958 to 166601 because IS71 is inserted by IS66. ND, not determined.