In bacteria and archaea, RNA-Seq deep sequencing methodology allows for the detection of abundance and processing sites of the small RNAs that comprise a CRISPR (clustered regularly interspaced short palindromic repeats) RNome. Comparative analyses of these CRISPR RNome sets highlight conserved patterns that include the gradual decline of CRISPR RNA abundance from the leader-proximal to the leader-distal end. In the present review, we discuss exceptions to these patterns that indicate the extensive impact of individual spacer sequences on CRISPR array transcription and RNA maturation. Spacer sequences can contain promoter and terminator elements and can promote the formation of CRISPR RNA–anti-CRISPR RNA duplexes. In addition, potential RNA duplex formation with host tRNA was observed. These factors can influence the functionality of CRISPR–Cas (CRISPR-associated) systems and need to be considered in the design of synthetic CRISPR arrays.
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Conference Article|
November 20 2013
RNA-Seq analyses reveal CRISPR RNA processing and regulation patterns
Judith Zoephel;
Judith Zoephel
*Max-Planck-Institute for Terrestrial Microbiology, Karl-von-Frisch Strasse 10, 35037 Marburg, Germany
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Lennart Randau
Lennart Randau
1
*Max-Planck-Institute for Terrestrial Microbiology, Karl-von-Frisch Strasse 10, 35037 Marburg, Germany
1To whom correspondence should be addressed (emaillennart.randau@mpi-marburg.mpg.de).
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Publisher: Portland Press Ltd
Received:
July 02 2013
Online ISSN: 1470-8752
Print ISSN: 0300-5127
© The Authors Journal compilation © 2013 Biochemical Society
2013
Biochem Soc Trans (2013) 41 (6): 1459–1463.
Article history
Received:
July 02 2013
Citation
Judith Zoephel, Lennart Randau; RNA-Seq analyses reveal CRISPR RNA processing and regulation patterns. Biochem Soc Trans 1 December 2013; 41 (6): 1459–1463. doi: https://doi.org/10.1042/BST20130129
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