@article { WOS:000326005600007,
	title = {In vivo mapping of RNA-RNA interactions in Staphylococcus aureus using the endoribonuclease III},
	journal = {METHODS},
	volume = {63},
	number = {2},
	year = {2013},
	month = {SEP 15},
	pages = {135-143},
	publisher = {ACADEMIC PRESS INC ELSEVIER SCIENCE},
	type = {Article},
	address = {525 B ST, STE 1900, SAN DIEGO, CA 92101-4495 USA},
	abstract = {Ribonucleases play key roles in gene regulation and in the expression of virulence factors in Staphylococcus aureus. Among these enzymes, the double-strand specific endoribonuclease III (RNase III) is a key mediator of mRNA processing and degradation. Recently, we have defined, direct target sites for RNase III processing on a genorne-wide scale in S. aureus. Our approach is based on deep sequencing of cDNA libraries obtained from RNAs isolated by in vivo co-immunoprecipitation with wild-type RNase III and two cleavage-defective mutants. The use of such catalytically inactivated enzymes, which still retain their RNA binding capacity; allows the identification of novel RNA substrates of RNase III. In this report, we will summarize the diversity of RNase III functions, discuss the advantages and the limitations of the approach, and how this strategy identifies novel mRNA targets of small non-coding RNAs in S. aureus. (C) 2013 Elsevier Inc. All rights reserved.},
	keywords = {Antisense RNA regulation, Endoribonuclease, Regulatory RNAs, RNA-protein interaction, RNA-RNA interactions},
	issn = {1046-2023},
	doi = {10.1016/j.ymeth.2013.06.033},
	url = {https://doi.org/10.1016/j.ymeth.2013.06.033},
	author = {Lioliou, Efthimia and Sharma, Cynthia M. and Altuvia, Yael and Caldelari, Isabelle and Romilly, Cedric and Helfer, Anne-Catherine and Margalit, Hanah and Romby, Pascale}
}
