Abstract
RNA is never left alone throughout its life cycle. Together with proteins, RNAs form membraneless organelles, called ribonucleoprotein particles (RNPs) where these two types of macromolecules strongly influence each other’s functions and destinies. RNA immunoprecipitation is still one of the favorite techniques which allows to simultaneously study both the RNA and protein composition of the RNP complex.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
References
Martin KC, Ephrussi A (2009) Review mRNA localization: gene expression in the spatial dimension. Cell 136:719–730. https://doi.org/10.1016/j.cell.2009.01.044
Müller-Mcnicoll M, Neugebauer KM (2013) How cells get the message: dynamic assembly and function of mRNA-protein complexes. Nat Rev Genet 14:275–287. https://doi.org/10.1038/nrg3434
Gehring NH, Wahle E, Fischer U (2017) Deciphering the mRNP code: RNA-bound determinants of post-transcriptional gene regulation. Trends Biochem Sci 42:369–382. https://doi.org/10.1016/j.tibs.2017.02.004
Mitchell SF, Parker R (2014) Principles and properties of eukaryotic mRNPs. Mol Cell 54:547–558. https://doi.org/10.1016/j.molcel.2014.04.033
Lunde BM, Moore C, Varani G (2007) RNA-binding proteins: modular design for efficient function. Nat Rev Mol Cell Biol 8:479–490. https://doi.org/10.1038/nrm2178
Ascano M, Hafner M, Cekan P, Gerstberger S, Tuschl T (2012) Identification of RNA-protein interaction networks using PAR-CLIP. Wiley Interdiscip Rev RNA 3:159–177. https://doi.org/10.1002/wrna.1103
Corley M, Burns MC, Yeo GW (2020) How RNA-binding proteins interact with RNA: molecules and mechanisms. Mol Cell 78:9–29. https://doi.org/10.1016/j.molcel.2020.03.011
Hentze MW, Castello A, Schwarzl T, Preiss T (2018) A brave new world of RNA-binding proteins. Nat Rev Mol Cell Biol 19:327–341. https://doi.org/10.1038/nrm.2017.130
Fidaleo M, De Paola E, Paronetto MP (2016) The RNA helicase a in malignant transformation. Oncotarget 7(19):28711–28723
Pereira B, Billaud M, Almeida R (2017) RNA-binding proteins in cancer: old players and new actors. Trends Cancer 3:506–528. https://doi.org/10.1016/j.trecan.2017.05.003
Elcheva IA, Spiegelman VS (2020) Targeting RNA-binding proteins in acute and chronic leukemia. Leukemia 35(2):360–376. https://doi.org/10.1038/s41375-020-01066-4
Shukla S, Parker R (2016) Hypo- and hyper-assembly diseases of RNA–protein complexes. Trends Mol Med 22:615–628. https://doi.org/10.1016/j.molmed.2016.05.005
Thelen MP, Kye MJ (2020) The role of RNA binding proteins for local mRNA translation: implications in neurological disorders. Front Mol Biosci 6:161. https://doi.org/10.3389/fmolb.2019.00161
Advani VM, Ivanov P (2020) Stress granule subtypes: an emerging link to neurodegeneration. Cell Mol Life Sci 77:4827–4845. https://doi.org/10.1007/s00018-020-03565-0
Morris AR, Mukherjee N, Keene JD (2010) Systematic analysis of posttranscriptional gene expression. Wiley Interdiscip Rev Syst Biol Med 2:162–180. https://doi.org/10.1002/wsbm.54
Keene JD, Komisarow JM, Friedersdorf MB (2006) RIP-Chip: the isolation and identification of mRNAs, microRNAs and protein components of ribonucleoprotein complexes from cell extracts. Nat Protoc 1:302–307. https://doi.org/10.1038/nprot.2006.47
Rossi A, Moro A, Tebaldi T, Cornella N, Gasperini L, Lunelli L, Quattrone A, Viero G, Macchi P (2017) Identification and dynamic changes of RNAs isolated from RALY-containing ribonucleoprotein complexes. Nucleic Acids Res 45:6775–6792. https://doi.org/10.1093/nar/gkx235
Author information
Authors and Affiliations
Corresponding author
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2022 The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature
About this protocol
Cite this protocol
Rossi, A., Inga, A. (2022). Studying RNP Composition with RIP. In: Dassi, E. (eds) Post-Transcriptional Gene Regulation. Methods in Molecular Biology, vol 2404. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-1851-6_8
Download citation
DOI: https://doi.org/10.1007/978-1-0716-1851-6_8
Published:
Publisher Name: Humana, New York, NY
Print ISBN: 978-1-0716-1850-9
Online ISBN: 978-1-0716-1851-6
eBook Packages: Springer Protocols