Identification of Bacterial Small RNAs by RNA Sequencing

María Gómez Lozano, Rasmus Lykke Marvig, Søren Molin, Katherine Long

Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

Abstract

Small regulatory RNAs (sRNAs) in bacteria are known to modulate gene expression and control a variety of processes including metabolic reactions, stress responses, and pathogenesis in response to environmental signals. A method to identify bacterial sRNAs on a genome-wide scale based on RNA sequencing (RNA-seq) is described that involves the preparation and analysis of three different sequencing libraries. As a signifi cant number of unique sRNAs are identifi ed in each library, the libraries can be used either alone or in combination to increase the number of sRNAs identifi ed. The approach may be applied to identify sRNAs in any bacterium under different growth and stress conditions.
Original languageEnglish
Title of host publicationPseudomonas Methods and Protocols
EditorsAlain Filloux, Juan-Luis Ramos
PublisherSpringer Science+Business Media
Publication date2014
Pages433-456
ISBN (Print)ISBN 978-1-4939-0472-3
DOIs
Publication statusPublished - 2014
SeriesMethods in Molecular Biology
Volume1149
ISSN1064-3745

Cite this

Gómez Lozano, M., Marvig, R. L., Molin, S., & Long, K. (2014). Identification of Bacterial Small RNAs by RNA Sequencing. In A. Filloux, & J-L. Ramos (Eds.), Pseudomonas Methods and Protocols (pp. 433-456). Springer Science+Business Media. Methods in Molecular Biology, Vol.. 1149 https://doi.org/10.1007/978-1-4939-0473-0_34
Gómez Lozano, María ; Marvig, Rasmus Lykke ; Molin, Søren ; Long, Katherine. / Identification of Bacterial Small RNAs by RNA Sequencing. Pseudomonas Methods and Protocols. editor / Alain Filloux ; Juan-Luis Ramos. Springer Science+Business Media, 2014. pp. 433-456 (Methods in Molecular Biology, Vol. 1149).
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Gómez Lozano, M, Marvig, RL, Molin, S & Long, K 2014, Identification of Bacterial Small RNAs by RNA Sequencing. in A Filloux & J-L Ramos (eds), Pseudomonas Methods and Protocols. Springer Science+Business Media, Methods in Molecular Biology, vol. 1149, pp. 433-456. https://doi.org/10.1007/978-1-4939-0473-0_34

Identification of Bacterial Small RNAs by RNA Sequencing. / Gómez Lozano, María; Marvig, Rasmus Lykke; Molin, Søren; Long, Katherine.

Pseudomonas Methods and Protocols. ed. / Alain Filloux; Juan-Luis Ramos. Springer Science+Business Media, 2014. p. 433-456 (Methods in Molecular Biology, Vol. 1149).

Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

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AB - Small regulatory RNAs (sRNAs) in bacteria are known to modulate gene expression and control a variety of processes including metabolic reactions, stress responses, and pathogenesis in response to environmental signals. A method to identify bacterial sRNAs on a genome-wide scale based on RNA sequencing (RNA-seq) is described that involves the preparation and analysis of three different sequencing libraries. As a signifi cant number of unique sRNAs are identifi ed in each library, the libraries can be used either alone or in combination to increase the number of sRNAs identifi ed. The approach may be applied to identify sRNAs in any bacterium under different growth and stress conditions.

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Gómez Lozano M, Marvig RL, Molin S, Long K. Identification of Bacterial Small RNAs by RNA Sequencing. In Filloux A, Ramos J-L, editors, Pseudomonas Methods and Protocols. Springer Science+Business Media. 2014. p. 433-456. (Methods in Molecular Biology, Vol. 1149). https://doi.org/10.1007/978-1-4939-0473-0_34