Paper Titles
Kinetics of Ferrous Iron Oxidation by Moderately Thermophilic Microorganisms
p.517
High-Level Resistance to Cobalt and Nickel in Cuban Serratia marcescens Strains Isolated from Serpentine Deposits
p.521
Microbial Diversity in a Pilot Plant for Producing Iron Hydroxysulfates
p.527
Iron Homeostasis Strategies in Acidophilic Iron Oxidizers: Comparative Genomic Analyses
p.531
Discovery of Small Regulatory RNAs Extends Our Understanding of Gene Regulation in the Acidithiobacillus Genus
p.535
Monitoring of Microbial Community Inhabiting a Low-Grade Copper Sulphide Ore by Quantitative Real-Time PCR Analysis of 16S rRNA Genes
p.539
Bacterial Activity at Low Temperature in Cultures Derived from a Low-Grade Copper Sulphide Bioleaching Heap at the Escondida Mine, Chile
p.543
Isolation and Molecular Characterization of Sulfate Reducing Bacteria in a Brazilian Acid Mine Drainage
p.547
C-di-GMP Pathway in Acidithiobacillus ferrooxidans: Analysis of Putative Diguanylate Cyclases (DGCs) and Phosphodiesterases (PDEs) Bifunctional Proteins
p.551

Discovery of Small Regulatory RNAs Extends Our Understanding of Gene Regulation in the Acidithiobacillus Genus

Article Preview

Abstract:

Small regulatory RNAs (srRNAs) control gene expression in Bacteria, usually at the posttranscriptional level, by acting as antisense RNAs that bind targeted mRNAs or by interacting with regulatory proteins. srRNAs are involved in the regulation of a large variety of processes such as plasmid replication, transposition and global genetic circuits that respond to environmental changes. Since their discovery a few years ago, it has become apparent that they are prolific and widespread. In this study, we describe bioinformatic approaches to srRNA discovery in the biomining microorganisms Acidithiobacillus ferrooxidans, A. caldus and A. thiooxidans. Intergenic regions of the annotated genomes were extracted and computationally searched for srRNAs. Candidate srRNAs that were associated with predicted sigma 70 promoters and/or rho-independent terminators were chosen for further study. The resulting potential srRNAs include known examples from other microorganisms and some novel candidates and reveal interesting underlying biology of the Acidithiobacillus genus.

You might also be interested in these eBooks
Biohydrometallurgy: From the Single Cell to the Environment View Preview

Info:

Periodical:

Advanced Materials Research (Volumes 20-21)

Pages:

535-538

DOI:

https://doi.org/10.4028/www.scientific.net/AMR.20-21.535

Citation:

Cite this paper

Online since:

July 2007

Authors:

Amir Shmaryahu, David S. Holmes

Keywords:

Acidithiobacillus, Biomining, Noncoding RNA, Small Regulatory RNAs

Export:

RIS, BibTeX

Price:

Permissions CCC:

Request Permissions

Permissions PLS:

Request Permissions

Сopyright:

© 2007 Trans Tech Publications Ltd. All Rights Reserved

Share:

Citation:

References

[1] N. Delihas: Mol. Microbiol. Vol. 15 (1995), p.411.

Google Scholar

[2] E.G. H Wagner and S. Brantl: Trends Biochem. Sci. Vol. 23 (1998), p.451.

Google Scholar

[3] D.H. Lenz, K. C Mok, B. N Lilley, R. V Kulkarni, N. S Wingreen and B.L. Bassler: Cell Vol 118 (2004), p.69.

Google Scholar

[4] J.C. Carrington and V. Ambros: Science Vol. 301 (2003), p.336.

Google Scholar

[5] M. T McManus and P. A Sharp: Nat. Rev. Genet. Vol. 3 (2003), p.737.

Google Scholar

[6] G. Storz: Science Vol. 296 (2002), p.1260 B. A.

Google Scholar

[7] L. Argaman, R. Hershberg, J. Vogel, G. Bejerano, E.G.H. Wagner, H. Margalit and S. Altuvia: Current Biol. Vol. 11 (2001), p.941.

DOI: 10.1016/s0960-9822(01)00270-6

Google Scholar

[8] K.M. Wassarman, F. Repoila, C. Rosenow, G. Storz and S. Gottesman: Genes Dev. Vol. 15 (2001), p.1637.

DOI: 10.1101/gad.901001

Google Scholar

[9] R.J. Carter, I. Dubchak and S.R. Holbrook: Nucl. Acids Res. Vol. 29 (2001), p.3928.

Google Scholar

[10] E. Rivas, R.J. Klein, T.A. Jones and S.R. Eddy: Current Biol. Vol. 11 (2001), p.1369.

Google Scholar

[11] C. Kingsford, K. Ayanbule and S.L. Salzberg: Genome Biology Vol. 8 (2007), R22 12] V. Gopalan, A. Vioque and S. Altman: J. Biol. Chem. Vol. 277 (2002), p.6759.

Google Scholar

[13] A.W. Karzai, E.D. Roche and R. T Sauer: Nat. Struct. Biol. Vol. 7 (2000), p.449.

Google Scholar

[14] S. Gottesman, E. Roche, Y.N. Zhou and R.T. Sauer: Genes Dev. Vol. 12 (1998), p.1338.

Google Scholar

[15] K.M. Wassarman, G. Storz: Cell Vol. 101 (2002), p.613.

Google Scholar

[16] A.E. Trotochaud and K.M. Wassarman: Nat. Struct. Mol. Biol. Vol. 12 (2005), p.313.

Google Scholar

[17] J.E. Barrick, N. Sudarsan, Z. Weinberg, W.L. Ruzzo and R.R. Breaker: RNA Vol. 11 (2005), p.774.

Google Scholar