Author/Editor		Baltz, Alexander G.; Munschauer, Mathias; Schwanhäusser, Björn; Vasile, Alexandra; Murakawa, Yasuhiro; Schueler, Markus; Milek, Miha; Wyler, Emanuel; Landthaler, Markus
Title		The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts
Type		članek
Vol. and No.		Letnik 46, št. 5
Publication year		2012
Volume		str. 674-690
ISSN		1097-2765 - Molecular cell
Language		eng
Abstract		Protein-RNA interactions are fundamental to core biological processes, such as mRNA splicing, locali- zation, degradation, and translation. We developed a photoreactive nucleotide-enhanced UV crosslink- ing and oligo(dT) purification approach to identify the mRNA-bound proteome using quantitative pro- teomics and to display the protein occupancy on mRNA transcripts by next-generation sequencing. Application to a human embryonic kidney cell line identified close to 800 proteins. To our knowledge, nearly one-third were not previously annotated as RNA binding, and about 15% were not predictable by computational methods to interact with RNA. Protein occupancy profiling provides a transcrip- tome-wide catalog of potential cis -regulatory regions on mammalian mRNAs and showed that large stretches in 3 0 UTRs can be contacted by the mRNA-bound proteome, with numerous putative binding sites in regions harboring disease-associ- ated nucleotide polymorphisms. Our observations indicate the presence of a large number of mRNA binders with diverse molecular functions partici- pating in combinatorial posttranscriptional gene- expression networks.
Keywords		proteins mRNA protein-RNA interactions proteini mRNA interakcije s proteinskimi RNK