ISR1, a transposable DNA sequence resident in Rhizobium class IV strains, shows structural characteristics of classical insertion elements

Priefer, Ursula B.; Kalinowski, Jörn; Rüger, Barbara; Heumann, W.; Pühler, Alfred

doi:10.1016/0147-619x(89)90055-3

Cited by 25 publications

(19 citation statements)

References 35 publications

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“…Sequence analysis of IS911 indicates that it is a member of the IS3 group of elements (32,33). This analysis also revealed that IS3411 (12), IS476 (14), and ISRJ (29) belong to this group. The disposition of open reading frames and possible control of expression of transposition functions of IS911 and other members of the group are also discussed.…”

mentioning

confidence: 79%

“…Sequence comparisons with other IS elements strongly suggest that IS911 is a member of the IS3 family of elements (33), which also includes IS861, isolated from a type B streptococcus (32), IS3411 (12), IS476 (14), and ISRJ (29). Its terminal inverted repeats show significant similarity with other members of this group.…”

Section: Discussionmentioning

confidence: 99%

“…2 (33), and IS861 (32). Three additional elements, IS3411 (12), ISRJ (29), and IS476 (14), are also members of this group (see below). They exhibit a limited degree of similarity at the nucleotide sequence level (33) (data not shown).…”

Section: Methodsmentioning

confidence: 97%

“…6c. (12), IS476 (14), and ISRJ (29) with those of various members of the IS3 family indicated that these elements are related. IS476 and ISR1 are similar at the nucleotide sequence level, as are IS3411 and IS51 (data not shown).…”

Section: Methodsmentioning

confidence: 99%

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Transposition in Shigella dysenteriae: isolation and analysis of IS911, a new member of the IS3 group of insertion sequences

1990

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Twenty-nine clear-plaque mutants of bacteriophage k were isolated from a ShigeUa dysenteriae lysogen. Three were associated with insertions in the cI gene: two were due to insertion of IS600, and the third resulted from insertion of a new element, IS911. IS911 is 1,250 base pairs (bp) long, carries 27-bp imperfect terminal inverted repeats, and generates 3-bp duplications of the target DNA on insertion. It was found in various copy numbers in all four species of Shigella tested and in Escherichia coli K-12 but not in E. coli W. Analysis of IS911-mediated cointegrate molecules indicated that the majority were generated without duplication of IS911.They appeared to result from direct insertion via one end of the element and the neighboring region of DNA, which resembles a terminal inverted repeat of IS911. Nucleotide sequence analysis revealed that IS911 carries two consecutive open reading frames which code for potential proteins showing similarities to those of the IS3 group of elements.In contrast to many strains of Escherichia coli, the genome of members of the closely related genus Shigella carries relatively large numbers of a variety of insertion sequences. It has been estimated, for example, that the four Shigella species carry 40 to 200 copies of insertion sequences closely related to IS] (27). This elevated number of IS-like sequences is not restricted to ISI; it also includes IS2 and IS4 (15; Fayet and Prere, unpublished observations; see reference 11 for review).In order to assess transposition activity from the Shigella dysenteriae genome, we used a simple technique described by Lieb (16) which employs bacteriophage A cI ind as a trap for insertion sequences. By screening for clear-plaque mutants among phages released spontaneously from an E. coli lysogen, it was determined that of 25 mutants, 15 were the result of insertion of IS elements into the cI gene; of these, 7 insertions were of IS], 5 were of IS5, and 3 were of IS3.Since some strains of S. dysenteriae are sensitive to lambdoid phages, we used this technique to obtain some indication of the relative activity of the various IS elements carried by the S. dysenteriae chromosome. We found that the spectrum of cI mutants obtained in S. dysenteriae is very different from that observed in E. coli. No example of an ISl insertion was found, and only 3 of the 29 independent mutants were found to carry insertions in the cI gene. This result suggests that the chromosomal copies of IS] in S. dysenteriae may be less active than those of E. coli. Of the three insertions obtained, two were examples of IS600, an element previously isolated by physical means from the Shigella sonnei chromosome (21), while the third (IS911) proved to be an element not described previously.We present here the nucleotide sequence of IS911 (included in the European Molecular Biology Laboratory sequence data base under accession number X17613), assess its distribution within E. coli K-12, E. coli W, and the four species of Shigella, and analyze some of its transposition properties.

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confidence: 79%

Section: Discussionmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 97%

Section: Methodsmentioning

confidence: 99%

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Transposition in Shigella dysenteriae: isolation and analysis of IS911, a new member of the IS3 group of insertion sequences

1990

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“…As far as gram-negative bacteria are concerned, most IS elements have been isolated from enteric bacteria (mainly E. coli; for reviews and lists of isolated elements, see references 14 and 20). However, there have been a substantial number of reports on IS elements identified in other gram-negative bacterial species, such as Agrobacterium tumefaciens (3,15,24,42), Xanthomonas campestris (22, 23), and various Rhizobium (9,28,32) and Pseudomonas (6,13,35,41,45) strains.In general, these elements have been found more or less by chance because of the capacity to inactivate or activate particular genes. However, there have been successful attempts to screen for transposable elements by means of direct selection procedures (8,15,30,35).…”

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confidence: 99%

Isolation and characterization of insertion sequence elements from gram-negative bacteria by using new broad-host-range, positive selection vectors

et al. 1991

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On the basis of an RSF1010-derived broad-host-range vector, three different systems which enable positive detection and isolation of insertion sequence (IS) elements from gram-negative bacteria were constructed. Vectors pSUP104-pheS, pSUP104-rpsL, and pSUP104-sac were used successfully in a number of Rhizobium strains and in Xanthomonas campestris. More than 20 different IS elements were isolated and characterized. The 16 IS elements from Rhizobium meliloti were further used to characterize various R. meliloti strains by hybridization. The resulting hybridization patterns were different for every strain and gave a dear and definite IS fingerprint of each strain. These IS fingerprints can be used to identify and characterize R. meliot strains rapidly and unequivocally, as they proved to be relatively stable. Some of the IS elements were found to be identical when the IS fingerprints from a given strain were compared. This method of IS fingerprinting can also establish whether IS elements are the same, related, or different.Insertion sequence (IS) elements are defined as relatively small mobile genetic entities which, unlike drug resistance transposons, do not contain selectable genes (5). This definition makes it clear that direct selection for the presence of an IS element is usually not possible. IS elements in procaryotes were first identified as causative agents of spontaneous mutations in Escherichia coli (21, 36). Since then, various classes of transposable elements have been found to be natural constituents of many bacterial chromosomes, plasmids, and bacteriophages. As far as gram-negative bacteria are concerned, most IS elements have been isolated from enteric bacteria (mainly E. coli; for reviews and lists of isolated elements, see references 14 and 20). However, there have been a substantial number of reports on IS elements identified in other gram-negative bacterial species, such as Agrobacterium tumefaciens (3,15,24,42), Xanthomonas campestris (22, 23), and various Rhizobium (9,28,32) and Pseudomonas (6,13,35,41,45) strains.In general, these elements have been found more or less by chance because of the capacity to inactivate or activate particular genes. However, there have been successful attempts to screen for transposable elements by means of direct selection procedures (8,15,30,35).In this report, we present the construction and use of three broad-host-range vectors designed to enable systematic searches for the presence of transposable elements in gramnegative bacteria. Advantage was taken of two direct selection systems initially constructed to simplify cloning experiments with E. coli (7, 17), as well as a system described by Gay and coworkers (15). The common principle of these systems is based upon insertional inactivation of a vectorborne dominant sensitivity marker. With pSUP104-pheS and pSUP104-rpsL, this leads to drug resistance. Inactivation of pSUP104-sac allows its host to grow on medium containing 5% sucrose. Both of these events are positively selectable phenotypes in the hosts. (A...

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General Genetic Knowledge

Hynes¹,

Finan²

1998

The Rhizobiaceae

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ISR1, a transposable DNA sequence resident in Rhizobium class IV strains, shows structural characteristics of classical insertion elements

Cited by 25 publications

References 35 publications

Transposition in Shigella dysenteriae: isolation and analysis of IS911, a new member of the IS3 group of insertion sequences

Transposition in Shigella dysenteriae: isolation and analysis of IS911, a new member of the IS3 group of insertion sequences

Isolation and characterization of insertion sequence elements from gram-negative bacteria by using new broad-host-range, positive selection vectors

General Genetic Knowledge

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