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Small Noncoding RNAs in Agrobacterium tumefaciens

  • Keunsub Lee
  • Kan WangEmail author
Chapter
Part of the Current Topics in Microbiology and Immunology book series (CT MICROBIOLOGY, volume 418)

Abstract

During the last decade, small noncoding RNAs (ncRNAs) have emerged as essential post-transcriptional regulators in bacteria. Nearly all important physiological and stress responses are modulated by ncRNA regulators, such as riboswitches, trans-acting small RNAs (sRNAs), and cis-antisense RNAs. Recently, three RNA-seq studies identified a total of 1534 candidate ncRNAs from Agrobacterium tumefaciens, a pathogen and biotechnology tool for plants. Only a few ncRNAs have been functionally characterized in A. tumefaciens, and some of them appear to be involved in virulence. AbcR1 regulates multiple ABC transporters and modulates uptake of a quorum-sensing inhibitor produced by plants. RNA1111, a Ti plasmid-encoded sRNA, might regulate the dispersal of the Ti plasmid and virulence. In addition, a chromosomally encoded sRNA Atr35C is induced by the vir gene regulator VirG and its expression is affected by iron, manganese, and hydrogen peroxide, suggesting a possible role in oxidative stress responses and Agrobacterium–plant interactions. Progress in ncRNA functional analysis is slow, likely resulting from innate challenges, such as poor sequence conservation and imperfect base-pairing between sRNAs and mRNAs, which make computational target predictions inefficient. Advances in single-cell-based RNA-seq and proteomics approaches would provide valuable tools to reveal regulatory networks involving ncRNA regulators.

Notes

Acknowledgements

The authors thank Abbagail Johnson, Juan Carlos Martinez-Nicolas, Alan Eggenberger, and Jonah Miller for their assistances. This work was partially supported by the USDA National Institute of Food and Agriculture, Hatch project number #IOW05162, by State of Iowa funds, and by Charoen Pokphand Indonesia.

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Copyright information

© Springer International Publishing AG 2018

Authors and Affiliations

  1. 1.Crop Bioengineering CenterIowa State UniversityAmesUSA
  2. 2.Department of AgronomyIowa State UniversityAmesUSA

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