G. Storz, J. A. Opdyke, and A. Zhang, Controlling mRNA stability and translation with small, noncoding RNAs, Current Opinion in Microbiology, vol.7, issue.2, pp.140-144, 2004.
DOI : 10.1016/j.mib.2004.02.015

J. Johansson and P. Cossart, RNA-mediated control of virulence gene expression in bacterial pathogens, Trends in Microbiology, vol.11, issue.6, pp.280-285, 2003.
DOI : 10.1016/S0966-842X(03)00118-5

S. M. Kwong, R. A. Skurray, and N. Firth, Staphylococcus aureus multiresistance plasmid pSK41: analysis of the replication region, initiator protein binding and antisense RNA regulation, Molecular Microbiology, vol.176, issue.2, pp.497-509, 2004.
DOI : 10.1046/j.1365-2958.2003.03843.x

S. Griffiths-jones, S. Moxon, M. Marshall, A. Khanna, S. R. Eddy et al., Rfam: annotating non-coding RNAs in complete genomes, Nucleic Acids Research, vol.33, issue.Database issue, pp.121-124, 2005.
DOI : 10.1093/nar/gki081

C. Pichon and B. Felden, Intergenic sequence inspector: searching and identifying bacterial RNAs, Bioinformatics, vol.19, issue.13, pp.1707-1709, 2003.
DOI : 10.1093/bioinformatics/btg235

URL : https://hal.archives-ouvertes.fr/inserm-00714226

E. T. Oh and J. S. So, A rapid method for RNA preparation from Gram-positive bacteria, Journal of Microbiological Methods, vol.52, issue.3, pp.395-398, 2003.
DOI : 10.1016/S0167-7012(02)00218-X

M. Antal, V. Bordeau, V. Douchin, and B. Felden, A Small Bacterial RNA Regulates a Putative ABC Transporter, Journal of Biological Chemistry, vol.280, issue.9, pp.7901-7908, 2005.
DOI : 10.1074/jbc.M413071200

URL : https://hal.archives-ouvertes.fr/hal-00196808

R. Gillet and B. Felden, Transfer RNAAla recognizes transfer-messenger RNA with specificity; a functional complex prior to entering the ribosome?, The EMBO Journal, vol.20, issue.11, pp.2966-2976, 2001.
DOI : 10.1093/emboj/20.11.2966

URL : https://hal.archives-ouvertes.fr/inserm-00718204

J. Hindley, Fractionation of 32P-labelled ribonucleic acids on polyacrylamide gels and their characterization by fingerprinting, Journal of Molecular Biology, vol.30, issue.1, pp.125-136, 1967.
DOI : 10.1016/0022-2836(67)90248-3

J. Brown and W. , The Ribonuclease P Database, Nucleic Acids Research, vol.27, issue.1, p.314, 1999.
DOI : 10.1093/nar/27.1.314

J. E. Barrick, N. Sudarsan, Z. Weinberg, W. L. Ruzzo, and R. R. Breaker, 6S RNA is a widespread regulator of eubacterial RNA polymerase that resembles an open promoter, RNA, vol.11, issue.5, pp.774-784, 2005.
DOI : 10.1261/rna.7286705

A. E. Trotochaud and K. M. Wassarman, A highly conserved 6S RNA structure is required for regulation of transcription, Nature Structural & Molecular Biology, vol.370, issue.4, pp.313-319, 2005.
DOI : 10.1021/bi00486a016

G. A. Somerville, S. S. Battouli, J. M. Wickman, S. J. Raffel, B. N. Kreiswirth et al., Correlation of Acetate Catabolism and Growth Yield in Staphylococcus aureus: Implications for Host-Pathogen Interactions, Infection and Immunity, vol.71, issue.8, pp.4724-4732, 2003.
DOI : 10.1128/IAI.71.8.4724-4732.2003

J. Lindsay and M. T. Holden, Staphylococcus aureus: superbug, super genome?, Trends in Microbiology, vol.12, issue.8, pp.378-385, 2004.
DOI : 10.1016/j.tim.2004.06.004

C. R. Woese, L. J. Magrum, R. Gupta, R. B. Siegel, D. A. Stahl et al., Secondary structure model for bacterial 16S ribosomal RNA: phylogenetic, enzymatic and chemical evidence, Nucleic Acids Research, vol.8, issue.10, pp.2275-2293, 1980.
DOI : 10.1093/nar/8.10.2275

M. Kuroda, T. Ohta, I. Uchiyama, T. Baba, H. Yuzawa et al., Whole genome sequencing of meticillin-resistant Staphylococcus aureus, The Lancet, vol.357, issue.9264, pp.1225-1240, 2001.
DOI : 10.1016/S0140-6736(00)04403-2

B. Kreikemeyer, M. D. Boyle, B. A. Buttaro, M. Heinemann, and A. Podbielski, Group A streptococcal growth phase-associated virulence factor regulation by a novel operon (Fas) with homologies to two-component-type regulators requires a small RNA molecule, Molecular Microbiology, vol.64, issue.2, pp.392-406, 2001.
DOI : 10.1128/JB.182.4.1062-1073.2000

T. Shimizu, H. Yaguchi, K. Ohtani, S. Banu, and H. Hayashi, Clostridial VirR/VirS regulon involves a regulatory RNA molecule for expression of toxins, Molecular Microbiology, vol.43, issue.1, pp.257-265, 2002.
DOI : 10.1016/0378-1119(85)90120-9

W. Van-schaik and T. Abee, The role of ??B in the stress response of Gram-positive bacteria ??? targets for food preservation and safety, Current Opinion in Biotechnology, vol.16, issue.2, pp.218-224, 2005.
DOI : 10.1016/j.copbio.2005.01.008

D. H. Lenz, K. C. Mok, B. N. Lilley, R. V. Kulkarni, N. S. Wingreen et al., The Small RNA Chaperone Hfq and Multiple Small RNAs Control Quorum Sensing in Vibrio harveyi and Vibrio cholerae, Cell, vol.118, issue.1, pp.69-82, 2004.
DOI : 10.1016/j.cell.2004.06.009

H. Kawamoto, T. Morita, A. Shimizu, T. Inada, and H. Aiba, Implication of membrane localization of target mRNA in the action of a small RNA: mechanism of post-transcriptional regulation of glucose transporter in Escherichia coli, Genes & Development, vol.19, issue.3, pp.328-338, 2005.
DOI : 10.1101/gad.1270605

T. H. Tang, N. Polacek, M. Zywicki, H. Huber, K. Brugger et al., Identification of novel non-coding RNAs as potential antisense regulators in the archaeon Sulfolobus solfataricus, Molecular Microbiology, vol.31, issue.2, pp.469-481, 2005.
DOI : 10.1111/j.1365-2958.2004.04428.x

T. Franch and K. Gerdes, U-turns and regulatory RNAs, Current Opinion in Microbiology, vol.3, issue.2, pp.159-164, 2000.
DOI : 10.1016/S1369-5274(00)00069-2

S. Bronner, H. Monteil, and G. Prevost, : complexity and applications, FEMS Microbiology Reviews, vol.28, issue.2, pp.183-200, 2004.
DOI : 10.1016/j.femsre.2003.09.003

R. P. Novick, Autoinduction and signal transduction in the regulation of staphylococcal virulence, Molecular Microbiology, vol.277, issue.6, pp.1429-1449, 2003.
DOI : 10.1046/j.1365-2958.2003.03526.x