Genome rearrangement and genetic instability in Streptomyces spp

Birch, Ashley; Häusler, Alex; Hütter, Ralf

doi:10.1128/jb.172.8.4138-4142.1990

Cited by 68 publications

(40 citation statements)

References 31 publications

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“…In contrast, the instability of the chromosome structure of Streptomyces spp. has been demonstrated (9). Is the B. subtilis 168 chromosome also stable?…”

Section: Discussionmentioning

confidence: 99%

Stability and asymmetric replication of the Bacillus subtilis 168 chromosome structure

Itaya

1993

J Bacteriol

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Chromosomal DNAs from a number of strains derived from Bacillus subtilis 168 were digested with restriction endonucleases NotI or Sfil, and the locations of chromosomal alterations were compared with the recently constructed standard NotI-SfiI restriction map (M. Itaya and T. Tanaka, J. Mol. Biol. 220:631-648, 1991). In general, the chromosome structure of B. subtilis 168 was found to be stable, as expected from the genetic stability of this species. DNA alterations, typically deletions, are formed in three limited loci on the chromosome. One of these alterations was characterized as a spontaneous deletion formed between rrn operons, and another occurred as a result of prophage SPI3 excision. I found that oriC and terC are not located on precisely opposite sides of the chromosome. Replication in the counter clockwise direction was 196 kb longer than replication in the clockwise direction. The characteristic of length difference is not changed by deletion formation.

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“…In contrast, the instability of the chromosome structure of Streptomyces spp. has been demonstrated (9). Is the B. subtilis 168 chromosome also stable?…”

Section: Discussionmentioning

confidence: 99%

Stability and asymmetric replication of the Bacillus subtilis 168 chromosome structure

Itaya

1993

J Bacteriol

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“…The exact sizes of the deletions are not known. It is not clear how these deletions occurred, but in the studied genetic instability of the Streptomyces chromosomes, tandem amplifications frequently accompany spontaneous deletions at the termini (Cullum et al, 1988;Schrempf et al, 1989;Birch et al, 1990;Leblond et al, 1990).…”

Section: Discussionmentioning

confidence: 99%

“…Deletions of tens to hundreds of kilobases occur spontaneously at frequencies of about 5 × 10 ¹3 and are often accompanied by extensive tandem amplifications of specific sequences (reviewed in Cullum et al, 1988;Schrempf et al, 1989;Birch et al, 1990;Leblond et al, 1990). In S. lividans, one of the most frequently deleted markers is the chloramphenicol (Cm) resistance gene, cmr (Altenbuchner and Cullum, 1984;Dyson and Schrempf, 1987), which was located near one end of the chromosome (Redenbach et al, 1993).…”

Section: Introductionmentioning

confidence: 99%

Instability of artificially circularized chromosomes of Streptomyces lividans

Lin¹,

Chen²

1997

Molecular Microbiology

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SummaryThe chromosomes of Streptomyces species are linear molecules, containing long terminal inverted repeats and covalently bound terminal proteins. These chromosomes undergo spontaneous deletions of the terminal sequences at high frequencies and become circularized in several cases examined. Artificial circularization of the Streptomyces lividans chromosome was also achieved by targeted recombination in vivo, in which the terminal inverted repeats of the chromosome were connected by a kanamycin resistance gene (aphII ). Under kanamycin selection, the circularized chromosomes harboured tandem amplifications of a 20.2 kb sequence that included the aphII gene flanked by direct repeats and deletions nearby. On release from kanamycin selection, the aphII amplifications and the neighbouring sequences were deleted from the chromosomes, rendering all the cultures kanamycin sensitive. The chloramphenicol resistance gene, which was prone to deletion in wild-type S. lividans, became much more stable in the kanamycin-sensitive derivatives. These results indicate that the telomeres and/or certain terminal sequences may be involved in the structural instability of Streptomyces chromosomes.

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“…These deletions affected the DNA region overlapping both amplifiable loci. PFGE also allowed us to localize the amplified DNA sequences and to establish their structure: amplification takes place at the AUD locus as a tandem array of the wild-type AUD sequence.The Streptomyces genome exhibits a high degree of genome plasticity, consisting of large deletions and amplified DNA sequences (ADS) associated with instability of many characteristics (1,11,13). In Streptomyces ambofaciens DSM40697 (9), two levels of genetic instability were characterized: (i) a basic genetic instability similar to that reported for other Streptomyces spp.…”

mentioning

confidence: 91%

“…The Streptomyces genome exhibits a high degree of genome plasticity, consisting of large deletions and amplified DNA sequences (ADS) associated with instability of many characteristics (1,11,13). In Streptomyces ambofaciens DSM40697 (9), two levels of genetic instability were characterized: (i) a basic genetic instability similar to that reported for other Streptomyces spp.…”

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confidence: 91%

Genetic instability and associated genome plasticity in Streptomyces ambofaciens: pulsed-field gel electrophoresis evidence for large DNA alterations in a limited genomic region

et al. 1991

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Using pulsed-field gel electrophoresis (PFGE) analysis, the amplifiable units of DNA (AUD) loci AUD6 and AUD90 of Streptomyces ambofaciens DSM40697 could be mapped in the wild-type genome within two adjacent AseI restriction fragments estimated to be about 75 and 850 kb. In addition, the genetic instability and formation of very large deletions were strictly correlated. Their sizes were estimated to range from 250 to more than 2,000 kb. These deletions affected the DNA region overlapping both amplifiable loci. PFGE also allowed us to localize the amplified DNA sequences and to establish their structure: amplification takes place at the AUD locus as a tandem array of the wild-type AUD sequence.The Streptomyces genome exhibits a high degree of genome plasticity, consisting of large deletions and amplified DNA sequences (ADS) associated with instability of many characteristics (1,11,13). In Streptomyces ambofaciens DSM40697 (9), two levels of genetic instability were characterized: (i) a basic genetic instability similar to that reported for other Streptomyces spp. and (ii) hypervariability, closely related to the first phenomenon, generating a phenotypic variability from mutant clones (12). At least two DNA regions undergo amplification in close association with hypervariability (3, 12). In addition, an amplifiable locus was recently characterized as a rearrangement hotspot, mainly for deletions (4). An analogous situation implying successive mutational events associated with changes in DNA structure is well documented in Streptomyces lividans (5). Using pulsed-field gel electrophoresis (PFGE), we investigated the localization of the amplifiable units of DNA (AUD) on large restriction fragments generated from the wild-type (WT) genome and the size of the deletions associated with genetic instability. We then studied the structure and the physical localization of the ADS in the mutant genome.Physical relationship between the AUD regions on the WT genome. Forty-eight ADSs, whose sizes ranged from 5.2 to 105 kb, generated through independent genetic instability events were considered. Three probes were used in hybridization experiments: S1, consisting of the cloned extremities of ADS6 (Fig. 1); S120, consisting of a 1.95-kb BamHI fragment of ADS120 (12) (Fig. 1). The relative intensity of the signals could be explained by the fact that the 75-kb fragment contained two homologous stretches (i.e., the right side of the AUD and the internal homologous sequence). On the other hand, the 850-kb fragment contained only the left side of AUD6. Both the S120 and S55 (from an ADS belonging to a region other than AUD90 or AUD6) probes revealed the 850-kb fragment. Faint signals could be detected that corresponded to almost all restriction fragments generated by AseI, particularly the 200-kb doublet (14)

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Genome rearrangement and genetic instability in Streptomyces spp

Cited by 68 publications

References 31 publications

Stability and asymmetric replication of the Bacillus subtilis 168 chromosome structure

Stability and asymmetric replication of the Bacillus subtilis 168 chromosome structure

Instability of artificially circularized chromosomes of Streptomyces lividans

Genetic instability and associated genome plasticity in Streptomyces ambofaciens: pulsed-field gel electrophoresis evidence for large DNA alterations in a limited genomic region

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