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Genomic islands in Rhodopseudomonas palustris

Nature Biotechnology volume 22, pages 1078–1079 (2004)Cite this article

To the editor:

In their report of the complete genome sequence of the metabolically versatile photosynthetic bacterium Rhodopseudomonas palustris in the January issue, Larimer et al.1 conclude that “no horizontally transferred islands of DNA are apparent based on anomalous G + C content.” Using a newly developed method2,3 that is more sensitive than the traditional window-based method for detecting GC content change, we have identified three horizontally transferred genomic islands. These genomic islands appear to encode functions that expand the environmental niches accessible to this bacterium.

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Figure 1: The cumulative GC profile for the R. palustris genome.

References

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Author information

Authors and Affiliations

  1. Department of Physics, Tianjin University, Tianjin, 300072, China

    Chun-Ting Zhang

  2. Department of Epidemiology and Biostatistics, Tianjin Cancer Institute and Hospital, Tianjin, 300060, China

    Ren Zhang

Authors
  1. Chun-Ting Zhang
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  2. Ren Zhang
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Supplementary information

Supplementary Fig. 1

The GC content distribution computed based on 10 Kb sliding windows along the genome. (PDF 15 kb)

Supplementary Fig. 2

The alignment of the two directly repeated sequences that flank RPAGI-1. (PDF 26 kb)

Supplementary Table 1

General features of the genomic islands in the R. palustris genome. (PDF 18 kb)

Supplementary Methods (PDF 35 kb)

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Zhang, CT., Zhang, R. Genomic islands in Rhodopseudomonas palustris. Nat Biotechnol 22, 1078–1079 (2004). https://doi.org/10.1038/nbt0904-1078b

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