Bacterial class II (Tn3-like) transposons generally carry the genes for their transposition (tnpA, tnpR, and res) and one or more phenotypic traits between their terminal inverted repeats (IRs), which have sizes of less than 50 bp (Fig. 1A and B) (23). These transposons move by a two-step and replicative mechanism (6, 23). In the first step, the tnpA product (transposase) acts at the IRs to generate a cointegrate of the donor and target molecules connected by two directly repeated copies of the transposon, one at each junction. In the second step, the cointegrate resolves at the resolution (res) sites by means of the tnpR product (resolvase). A 5-bp duplication of the target sequence is generated upon transposition. The transposases of the class II transposons are able to catalyze their transposition even when the tnpA gene and cognate IRs are located on separate molecules (6, 23). Several class II transposons have been reported to play an important role in the wide dissemination of various catabolic gene clusters, such as toluene-xylenes, naphthalene, and carbazole (17, 29-31). To date, three major groups (Tn3, Tn21, and Tn4651) of class II transposons have been characterized in detail with respect to their structural and functional aspects (Fig. (Fig.1A1A). FIG. 1. Structures of class II transposons, their IR sequences, and IS1071 derivatives. (A) Schematic structures of the class II transposons. The sizes are arbitrary. The black and white arrowheads indicate the terminal IR sequences of IS1071 and those of the ... IS1071 is a 3.2-kb insertion sequence (IS) that was originally identified in a chlorobenzoate-catabolic transposon, Tn5271, from Comamonas testosteroni BR60 (20). On the basis of structural features of its 110-bp IRs and 2,913-bp tnpA gene, IS1071 has been considered to belong to the class II transposons (7, 20). However, this IS element shows the uniqueness in its long (110-bp) IRs and its lack of the resolution function. The identification of many IS1071 sequences in close proximity to various xenobiotic-degrading genes on self-transmissible plasmids from environmental bacteria, e.g., Pseudomonas (18), Comamonas (2, 13), and Wautersia (3), indicates that IS1071 must have been involved in the recruitment of catabolic genes to these plasmids and in the dissemination of these genes among various host strains. We have also identified a haloacetate-catabolic IS1071-composite transposon, TnHad1, on an IncP-1β plasmid, pUO1, from Delftia acidovorans strain B (Fig. (Fig.1A)1A) (24, 25). TnHad1 is located within a defective class II transposon, TnHad2, which is a Tn21-related transposon that lacks the tnpA and tnpR genes (Fig. (Fig.1A)1A) (24). We have previously reported that the two intact copies and one truncated copy of IS1071 in TnHad2 might have been incorporated into an ancestor of TnHad2 (24). However, no clear transposition events of the TnHad1-specified IS1071 element were observed. No functional analysis of IS1071 has been carried out since its discovery more than a decade ago. Our functional analysis of IS1071 in this study has indicated that (i) efficient transposition of IS1071 occurred in two specific host strains, (ii) IS1071 had the functional features of the class II transposons, and (iii) almost the entire region of the 110-bp IR was required for transposition.