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  • Genome Watch
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Genomic 'valleys of death'

Nature Reviews Microbiology volume 6, pages 260–261 (2008)Cite this article

This month's Genome Watch considers the features of the latest streptococcal genomes in light of a common problem — cloning bias.

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Figure 1: Clone coverage in Shewanella spp.

References

  1. Sorek, R. et al. Genome-wide experimental determination of barriers to horizontal gene transfer. Science 318, 1449–1452 (2007).

    Article  CAS  Google Scholar 

  2. Xu, P. et al. Genome of the opportunistic pathogen Streptococcus sanguinis. J. Bacteriol. 189, 3166–3175 (2007).

    Article  CAS  Google Scholar 

  3. Conner, C. P., Heithoff, D. M., Julio, S. M., Sinsheimer, R. L. & Mahan, M. J. Differential patterns of acquired virulence genes distinguish Salmonella strains. Proc. Natl Acad. Sci. USA 95, 4641–4645 (1998).

    Article  CAS  Google Scholar 

  4. Vickerman, M. M., Iobst, S., Jesionowski, A. M. & Gill, S. R. Genome-wide transcriptional changes in Streptococcus gordonii in response to competence signaling peptide. J. Bacteriol. 189, 7799–7807 (2007).

    Article  CAS  Google Scholar 

  5. Avery, O. T., MacLeod, C. M. & McCarty, M. Studies on the chemical nature of the substance inducing transformation of pneumococcal types. Inductions of transformation by a desoxyribonucleic acid fraction isolated from pneumococcus type III. J. Exp. Med. 79, 137–158 (1944).

    Article  CAS  Google Scholar 

  6. Hoskins, J. et al. Genome of the bacterium Streptococcus pneumoniae strain R6. J. Bacteriol. 183, 5709–5717 (2001).

    Article  CAS  Google Scholar 

  7. Lanie, J. A. et al. Genome sequence of Avery's virulent serotype 2 strain D39 of Streptococcus pneumoniae and comparison with that of unencapsulated laboratory strain R6. J. Bacteriol. 189, 38–51 (2007).

    Article  CAS  Google Scholar 

  8. Rutherford, K. et al. Artemis: sequence visualization and annotation. Bioinformatics 16, 944–945 (2000).

    Article  CAS  Google Scholar 

Download references

Author information

Authors and Affiliations

  1. Stephen Bentley is at the Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK. microbes@sanger.ac.uk,

    Stephen Bentley

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  1. Stephen Bentley
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DATABASES

Entrez Genome Project

Escherichia coli

S. gordonii strain substr. CH1 Challis

S. pneumoniae strain D39

S. sanguinis strain SK36

Salmonella enterica serovar Typhimurium

FURTHER INFORMATION

454 Life Sciences

Illumina

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Bentley, S. Genomic 'valleys of death'. Nat Rev Microbiol 6, 260–261 (2008). https://doi.org/10.1038/nrmicro1881

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