Exoribonuclease R in Pseudomonas syringae is essential for growth at low temperature and plays a novel role in the 3' end processing of 16 and 5 S ribosomal RNA

J Biol Chem. 2007 Jun 1;282(22):16267-77. doi: 10.1074/jbc.M605588200. Epub 2007 Apr 3.

Abstract

The (3'-->5') exoribonuclease RNase R interacts with the endoribonuclease RNase E in the degradosome of the cold-adapted bacterium Pseudomonas syringae Lz4W. We now present evidence that the RNase R is essential for growth of the organism at low temperature (4 degrees C). Mutants of P. syringae with inactivated rnr gene (encoding RNase R) are cold-sensitive and die upon incubation at 4 degrees C, a phenotype that can be complemented by expressing RNase R in trans. Overexpressing polyribonucleotide phosphorylase in the rnr mutant does not rescue the cold sensitivity. This is different from the situation in Escherichia coli, where rnr mutants show normal growth, but pnp (encoding polyribonucleotide phosphorylase) and rnr double mutants are nonviable. Interestingly, RNase R is not cold-inducible in P. syringae. Remarkably, however, rnr mutants of P. syringae at low temperature (4 degrees C) accumulate 16 and 5 S ribosomal RNA (rRNA) that contain untrimmed extra ribonucleotide residues at the 3' ends. This suggests a novel role for RNase R in the rRNA 3' end processing. Unprocessed 16 S rRNA accumulates in the polysome population, which correlates with the inefficient protein synthesis ability of mutant. An additional role of RNase R in the turnover of transfer-messenger RNA was identified from our observation that the rnr mutant accumulates transfer-messenger RNA fragments in the bacterium at 4 degrees C. Taken together our results establish that the processive RNase R is crucial for RNA metabolism at low temperature in the cold-adapted Antarctic P. syringae.

Publication types

  • Comparative Study
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Adaptation, Biological / physiology
  • Bacterial Proteins / genetics
  • Bacterial Proteins / metabolism*
  • Cold Temperature
  • Escherichia coli / enzymology
  • Escherichia coli / growth & development
  • Escherichia coli Proteins / genetics
  • Escherichia coli Proteins / metabolism
  • Exoribonucleases / genetics
  • Exoribonucleases / metabolism*
  • Genetic Complementation Test
  • Mutation
  • Phenotype
  • Polyribosomes / genetics
  • Polyribosomes / metabolism
  • Protein Biosynthesis / genetics
  • Pseudomonas syringae / enzymology*
  • Pseudomonas syringae / genetics
  • Pseudomonas syringae / growth & development
  • RNA Processing, Post-Transcriptional / physiology*
  • RNA, Bacterial / genetics
  • RNA, Bacterial / metabolism*
  • RNA, Ribosomal, 16S / genetics
  • RNA, Ribosomal, 16S / metabolism*
  • RNA, Ribosomal, 5S / genetics
  • RNA, Ribosomal, 5S / metabolism*
  • RNA, Transfer / genetics
  • RNA, Transfer / metabolism

Substances

  • Bacterial Proteins
  • Escherichia coli Proteins
  • RNA, Bacterial
  • RNA, Ribosomal, 16S
  • RNA, Ribosomal, 5S
  • rnr protein, E coli
  • RNA, Transfer
  • Exoribonucleases