Systematic screens of proteins binding to synthetic microRNA precursors.

Towbin, H, Wenter, P, Guennewig, B, Imig, J, Zagalak, JA, Gerber, AP and Hall, J (2012) Systematic screens of proteins binding to synthetic microRNA precursors. Nucleic Acids Research.

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Abstract

We describe a new, broadly applicable methodology for screening in parallel interactions of RNA-binding proteins (RBPs) with large numbers of microRNA (miRNA) precursors and for determining their affinities in native form in the presence of cellular factors. The assays aim at identifying pre-miRNAs that are potentially affected by the selected RBP during their biogenesis. The assays are carried out in microtiter plates and use chemiluminescent readouts. Detection of bound RBPs is achieved by protein or tag-specific antibodies allowing crude cell lysates to be used as a source of RBP. We selected 70 pre-miRNAs with phylogenetically conserved loop regions and 25 precursors of other well-characterized miRNAs for chemical synthesis in 3'-biotinylated form. An equivalent set in unmodified form served as inhibitors in affinity determinations. By testing three RBPs known to regulate miRNA biogenesis on this set of pre-miRNAs, we demonstrate that Lin28 and hnRNP A1 from cell lysates or as recombinant protein domains recognize preferentially precursors of the let-7 family, and that KSRP binds strongly to pre-miR-1-2.

Item Type:	Article
Divisions :	Faculty of Health and Medical Sciences > School of Biosciences and Medicine > Department of Microbial and Cellular Sciences
Authors :	Towbin, H, Wenter, P, Guennewig, B, Imig, J, Zagalak, JA, Gerber, AP and Hall, J
Date :	5 December 2012
DOI :	10.1093/nar/gks1197
Additional Information :	This is a pre-copy-editing, author-produced PDF of an article accepted for publication in Nucleic Acids Research following peer review. The definitive publisher-authenticated version is available online at: http://dx.doi.org/10.1093/nar/gks1197
Depositing User :	Symplectic Elements
Date Deposited :	14 Jan 2013 09:52
Last Modified :	31 Oct 2017 14:55
URI:	http://epubs.surrey.ac.uk/id/eprint/745091

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