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Archives of Microbiology

, Volume 156, Issue 4, pp 270–276 | Cite as

Codon usage and G+C content in Bradyrhizobium japonicum genes are not uniform

  • Tom M. Ramseier
  • Michael Göttfert
Original Papers

Abstract

To date, the sequences of 45 Bradyrhizobium japonicum genes are known. This provides sufficient information to determine their codon usage and G+C content. Surprisingly, B. japonicum nodulation and NifA-regulated genes were found to have a less biased codon usage and a lower G+C content than genes not belonging to these two groups. Thus, the coding regions of nodulation genes and NifA-regulated genes could hardly be identified in codon preference plots whereas this was not difficult with other genes. The codon frequency table of the highly biased genes was used in a codon preference plot to analyze the RSRjα9 sequence which is an insertion sequence (IS)-like element. The plot helped identify a new open reading frame (ORF355) that escaped previous detection because of two sequencing errors. These were now corrected. The deduced gene product of ORF355 in RSRjα9 showed extensive similarity to a putative protein encoded by an ORF in the T-DNA of Agrobacterium rhizogenes. The DNA sequences bordering both ORFs showed inverted repeats and potential target site duplications which supported the assumption that they were IS-like elements.

Key words

Coding regions Codon frequency table IS-like elements Nitrogen fixation Nodulation Repeated sequence Bradyrhizobium japonicum 

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Copyright information

© Springer-Verlag 1991

Authors and Affiliations

  • Tom M. Ramseier
    • 1
  • Michael Göttfert
    • 1
  1. 1.Mikrobiologisches Institut, Eidgenössische Technische HochschuleETH-ZentrumZürichSwitzerland

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