Structural and functional analysis of the mini‐circle, a transposable element of <i>Streptomyces coelicolor</i> A3(2)

Henderson, Duncan J.; Lydiate, Derek J.; Hopwood, David A.

doi:10.1111/j.1365-2958.1989.tb00112.x

Cited by 49 publications

(30 citation statements)

References 38 publications

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“…The lack of homology between these ORFs and other transposon-encoded products is not uncommon. The putative transposition-related proteins encoded by Streptomyces transposable elements, ISJJO (7), IS117 (20), and IS493 (35), also showed no homology to other known transposases.…”

Section: Methodsmentioning

confidence: 99%

Discovery and characterization of a new transposable element, Tn4811, in Streptomyces lividans 66

Chen¹,

Yu²,

Chung³

et al. 1992

J Bacteriol

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Transposition of a new 5.4-kb transposon, Tn4811, of Streptomyces lividans to the melC operon of Streptomyces antibioticus on plasmid pU702 was discovered. The nucleotide sequence of this copy of Tn4811, which contained an imperfect (9 of 11 bp) terminal inverted repeat, five putative Streptomyces coding sequences for an oxidoreductase and its transcription regulator, and three transposition-related proteins, was determined. SLP-strains of S. lividans contained one copy (A) of Tn4811, while SLP2+ strains contained an additional copy (B) on the SLP2 plasmid. The nucleotide sequences at three insertion junctions of Tn4811 were determined. Copy B lacked 41 bp from the left end. At the other five junctions the duplication of a putative 3-bp target sequence (TGA) was observed. A sequence of less than 3 kb homologous to Tn4811 was present in S. antibioticus. DNA homologous to Tn4811 was not detected in 14 other Streptomyces species.Structural instability of genomic DNA is a widespread feature of gram-positive, filamentous, soil bacteria of the genus Streptomyces (32). Many genetic traits undergo spontaneous loss in laboratory cultures at frequencies of 10' to 10-2. Exposure to certain stresses such as UV irradiation, DNA intercalating agents, cold temperature, or protoplasting and regeneration increases the frequency of these instabilities. The mutations involved in the instabilities are attributed to large deletions of chromosomal DNA, which are frequently accompanied by tandem amplifications of particular sequences nearby (32). The genetic principle(s) underlying the structural instability is not clear. Possible mechanisms involved are homologous recombination, site-specific recombination, and transposition. Homologous recombination systems in Streptomyces species and their contribution to genetic instability have received little study. Tsai and Chen (41) isolated a rec mutant defective in intraplasmid recombination but not in chromosomal recombination (25). Chou and Chen (11), in their investigation of an unstable arg gene, found no effect of this rec mutation on its instability. Site-specific recombination and transposition, although representing forms of fluidity of genomic DNA, have not been implicated in the instability of other DNA sequences (8).About one-third of Streptomyces species can produce melanin pigment (44). The melanin (melC) operon of Streptomyces antibioticus has been cloned (24), sequenced (3), and widely used in many recombinant vectors. The melC operon in the Streptomyces species examined is genetically unstable, undergoing spontaneous deletions at relatively high frequencies-about 10-' (32). Similar to those observed in other unstable genes in Streptomyces species, the deletions of melC were frequently accompanied by extensive tandem amplifications of specific sequences (18,32).

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Section: Methodsmentioning

confidence: 99%

Discovery and characterization of a new transposable element, Tn4811, in Streptomyces lividans 66

Chen¹,

Yu²,

Chung³

et al. 1992

J Bacteriol

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“…The fact that the sum of the sizes of the SspI fragments was very close to that for the other two enzymes was encouraging, but more extensive study would Construction and use ofAseI linking clones. Examination of the sequence of IS117, the S. coelicolor minicircle (35), revealed a single AseI site. Since there are two genetically mapped copies of IS117 integrated in the chromosome of S. coelicolor A3(2) (62), the cloned IS117 served as a linking clone for two pairs of genomic fragments generated byAseI.…”

Section: Methodsmentioning

confidence: 99%

A combined genetic and physical map of the Streptomyces coelicolor A3(2) chromosome

1992

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The restriction enzymes AseI (ATTAAT), DraI (T'TTAAA), and SspI (AATATT) cut the Streptomyces coelicolor A3(2) chromosome into 17, 8, and 25 fragments separable by pulsed-field gel electrophoresis (PFGE). Myxococcus, Pseudomonas, Rhodobacter, and Shigella (6,16,19,24,55,59,60,70,[75][76][77]85). A quite different procedure, construction of an ordered collection of overlapping clones, has also been used to generate a physicalgenetic map of E. coli (54,86 small segments of the chromosome that carry gene clusters of interest. S. coelicolor A3(2) produces at least five secondary metabolites, four of them antibiotics, whose genetic study is a major preoccupation, together with analysis of the genetic control of sporulation and its correlation with antibiotic production (17,41). For all of these reasons, the A3(2) strain has become a model organism for many aspects of Streptomyces genetics.The availability of a combined genetic and physical map of the S. coelicolor chromosome, and materials stemmning from it, such as ordered clone encyclopedias for specific regions of the chromosome, would be a major resource for workers in this field. Moreover, such a map would immediately shed light on two questions concerning the S. coelicolor genome.What is the size of the chromosome? What are the physical lengths of the two silent quadrants of the genetic map ( Fig. 1

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“…Unusually, the insertion of IS116, IS900 or the mini-circle does not cause target site duplications ( Fig. 4; Green et al, 1989;Henderson et al, 1989) [the situation for IS110 is unclear because in the particular insertion event that was sequenced by Bruton & Chater (1987) the element had inserted into a run of seven C residues and was then flanked by runs of more than seven C residues]. The site into which IS116 is inserted in pIJ702 (CATGGTCGGTCTCCTGGT) corresponds closely to the consensus sequence CATG( N),-,CPyCCTT proposed as the target site for IS900 insertion, based on analysis of three insertion events ( Fig.…”

Section: Similarities and Diflerences Between The Ends And Target Sitmentioning

confidence: 99%

“…However, I S l l O (Chater et al, 1985;Bruton & Chater, 1987) and the 2.6 kb mini-circle (Lydiate et al, 1986;Henderson et al, 1989) from S. coelicolor and the recently discovered IS900 from Mycobacterium paratuberculosis (Green et al, 1989) have been found to form a 'family' of related elements based on similarity between amino acid sequences of their deduced gene products, despite the diversity of structure and host strains of these elements. The use of both IS110 and the mini-circle sequences to probe the DNA of a series of taxonomically varied streptomycetes revealed related elements in a minority of strains (Chater et al, 1985;Lydiate et al, 1986), but no hybridization to S. clavuligerus DNA.…”

Section: Introductionmentioning

confidence: 99%

Discovery of an insertion sequence, IS116, from Streptomyces clavuligerus and its relatedness to other transposable elements from actinomycetes

Leskiw

Mevarech

Barritt

et al. 1990

Journal of General Microbiology

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We have identified an insertion sequence, IS116, present in Streptomyces clavuligerus at one copy per genome. The element was discovered as a 1.4 kb insertion into the multicopy plasmid pIJ702 after propagation in S. clavuligerus. The nucleotide sequence of IS116 and the flanking sequences from pIJ702 have been determined. The junctions with pIJ702 show no target site duplication and there are no inverted repeats at the ends of the element. One putative coding open reading frame of 1197 bp was identified which would code for a protein product of 399 amino acids. This protein resembles deduced integrase/transposase proteins specified by three other transposable elements of actinomycetes: IS110 and the mini-circle from Stveptomyces coelicolor A3(2), and -most particularly -IS900 of Mycobacterium paratuberculosis. Two regions that are relatively conserved among these gene products show features found in similar positions in many reverse transcriptases. IS116 and IS900 are also closely similar in their general organization and (apparently) in their insertion site specificity, whereas IS110 and the mini-circle are quite different in these features.

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Structural and functional analysis of the mini‐circle, a transposable element of Streptomyces coelicolor A3(2)

Cited by 49 publications

References 38 publications

Discovery and characterization of a new transposable element, Tn4811, in Streptomyces lividans 66

Discovery and characterization of a new transposable element, Tn4811, in Streptomyces lividans 66

A combined genetic and physical map of the Streptomyces coelicolor A3(2) chromosome

Discovery of an insertion sequence, IS116, from Streptomyces clavuligerus and its relatedness to other transposable elements from actinomycetes

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