The genome of streptomyces rimosus subsp. rimosus shows a novel structure compared to other streptomyces using DNA/DNA microarray analysis

R. Kirby, T. Gan, I.S. Hunter, P.R. Herron, E.J.F. Tilley

Research output: Contribution to journalArticle

8 Citations (Scopus)

Abstract

DNA/DNA genome microarray analysis together with genome sequencing suggests that the genome of members of the genus Streptomyces would seem to have a common structure including a linear genomic structure, a core of common syntenous Actinomycete genes, the presence of species specific terminal regions and two intermediate group of syntenous genes that seem to be genus specific. We analyzed Streptomyces species using DNA/DNA microarray comparative genome analysis. Only Streptomyces rimosus failed to give a congruent genome pattern for the genes found in Streptomyces coelicolor. We expanded the analysis to include a number of strains related to the type strain of S. rimosus and obtained a similar divergence from the main body of Streptomyces species. These strains showed very close identity to the original strain with no gene deletion or duplication detected. The 16S rRNA sequences of these S. rimosus strains were confirmed as very similar to the S. rimosus sequences available from the Ribosomal Database Project. When the SSU ribosomal RNA phylogeny of S. rimosus is analyzed, the species is positioned at the edge of the Streptomyces clade. We conclude that S. rimosus represents a distinct evolutionary lineage making the species a worthy possibility for genome sequencing.
LanguageEnglish
Pages173-186
Number of pages13
JournalAntonie van Leeuwenhoek
Volume94
Issue number2
DOIs
Publication statusPublished - 2008

Fingerprint

Streptomyces rimosus
Streptomyces
Microarray Analysis
Oligonucleotide Array Sequence Analysis
Genome
DNA
Streptomyces coelicolor
Genes
Gene Duplication
Ribosomal RNA
Actinobacteria
Gene Deletion
Phylogeny
Databases

Keywords

  • streptomyces rimosus
  • actinomycetales
  • genome comparison
  • microarray
  • novel lineage
  • point mutations
  • antibiotic production

Cite this

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abstract = "DNA/DNA genome microarray analysis together with genome sequencing suggests that the genome of members of the genus Streptomyces would seem to have a common structure including a linear genomic structure, a core of common syntenous Actinomycete genes, the presence of species specific terminal regions and two intermediate group of syntenous genes that seem to be genus specific. We analyzed Streptomyces species using DNA/DNA microarray comparative genome analysis. Only Streptomyces rimosus failed to give a congruent genome pattern for the genes found in Streptomyces coelicolor. We expanded the analysis to include a number of strains related to the type strain of S. rimosus and obtained a similar divergence from the main body of Streptomyces species. These strains showed very close identity to the original strain with no gene deletion or duplication detected. The 16S rRNA sequences of these S. rimosus strains were confirmed as very similar to the S. rimosus sequences available from the Ribosomal Database Project. When the SSU ribosomal RNA phylogeny of S. rimosus is analyzed, the species is positioned at the edge of the Streptomyces clade. We conclude that S. rimosus represents a distinct evolutionary lineage making the species a worthy possibility for genome sequencing.",
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The genome of streptomyces rimosus subsp. rimosus shows a novel structure compared to other streptomyces using DNA/DNA microarray analysis. / Kirby, R.; Gan, T.; Hunter, I.S.; Herron, P.R.; Tilley, E.J.F.

In: Antonie van Leeuwenhoek, Vol. 94, No. 2, 2008, p. 173-186.

Research output: Contribution to journalArticle

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