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Large-scale map of RNA-binding protein interactomes across the mRNA life cycle.
Street, Lena A; Rothamel, Katherine L; Brannan, Kristopher W; Jin, Wenhao; Bokor, Benjamin J; Dong, Kevin; Rhine, Kevin; Madrigal, Assael; Al-Azzam, Norah; Kim, Jenny Kim; Ma, Yanzhe; Gorhe, Darvesh; Abdou, Ahmed; Wolin, Erica; Mizrahi, Orel; Ahdout, Joshua; Mujumdar, Mayuresh; Doron-Mandel, Ella; Jovanovic, Marko; Yeo, Gene W.
Afiliación
  • Street LA; Department of Biological Sciences, Columbia University, New York, NY, USA.
  • Rothamel KL; Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA, USA; Center for RNA Technologies and Therapeutics, University of California, San Diego, La Jolla, CA, USA.
  • Brannan KW; Center for RNA Therapeutics, Houston Methodist Research Institute, Houston, TX, USA; Department of Cardiovascular Sciences, Houston Methodist Research Institute, Houston, TX, USA.
  • Jin W; Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA, USA; Institute for Genomic Medicine, University of California, San Diego, La Jolla, CA, USA.
  • Bokor BJ; Department of Biological Sciences, Columbia University, New York, NY, USA.
  • Dong K; Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA, USA; Institute for Genomic Medicine, University of California, San Diego, La Jolla, CA, USA.
  • Rhine K; Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA, USA; Institute for Genomic Medicine, University of California, San Diego, La Jolla, CA, USA.
  • Madrigal A; Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA, USA; Institute for Genomic Medicine, University of California, San Diego, La Jolla, CA, USA.
  • Al-Azzam N; Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA, USA; Institute for Genomic Medicine, University of California, San Diego, La Jolla, CA, USA.
  • Kim JK; Department of Biological Sciences, Columbia University, New York, NY, USA.
  • Ma Y; Department of Biological Sciences, Columbia University, New York, NY, USA.
  • Gorhe D; Department of Biological Sciences, Columbia University, New York, NY, USA.
  • Abdou A; Department of Biological Sciences, Columbia University, New York, NY, USA.
  • Wolin E; Department of Biological Sciences, Columbia University, New York, NY, USA.
  • Mizrahi O; Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA, USA.
  • Ahdout J; Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA, USA; Institute for Genomic Medicine, University of California, San Diego, La Jolla, CA, USA.
  • Mujumdar M; Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA, USA; Institute for Genomic Medicine, University of California, San Diego, La Jolla, CA, USA.
  • Doron-Mandel E; Department of Biological Sciences, Columbia University, New York, NY, USA.
  • Jovanovic M; Department of Biological Sciences, Columbia University, New York, NY, USA. Electronic address: mj2794@columbia.edu.
  • Yeo GW; Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA, USA; Center for RNA Technologies and Therapeutics, University of California, San Diego, La Jolla, CA, USA; Institute for Genomic Medicine, University of California, San Diego, La Jolla, CA, USA; Sanford
Mol Cell ; 2024 Sep 17.
Article en En | MEDLINE | ID: mdl-39303721
ABSTRACT
mRNAs interact with RNA-binding proteins (RBPs) throughout their processing and maturation. While efforts have assigned RBPs to RNA substrates, less exploration has leveraged protein-protein interactions (PPIs) to study proteins in mRNA life-cycle stages. We generated an RNA-aware, RBP-centric PPI map across the mRNA life cycle in human cells by immunopurification-mass spectrometry (IP-MS) of ∼100 endogenous RBPs with and without RNase, augmented by size exclusion chromatography-mass spectrometry (SEC-MS). We identify 8,742 known and 20,802 unreported interactions between 1,125 proteins and determine that 73% of the IP-MS-identified interactions are RNA regulated. Our interactome links many proteins, some with unknown functions, to specific mRNA life-cycle stages, with nearly half associated with multiple stages. We demonstrate the value of this resource by characterizing the splicing and export functions of enhancer of rudimentary homolog (ERH), and by showing that small nuclear ribonucleoprotein U5 subunit 200 (SNRNP200) interacts with stress granule proteins and binds cytoplasmic RNA differently during stress.
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Texto completo: 1 Colección: 01-internacional Banco de datos: MEDLINE Idioma: En Revista: Mol Cell Asunto de la revista: BIOLOGIA MOLECULAR Año: 2024 Tipo del documento: Article País de afiliación: Estados Unidos
Texto completo
Imprimir
XML
PubMed Links
Buscar en Google

Texto completo: 1 Colección: 01-internacional Banco de datos: MEDLINE Idioma: En Revista: Mol Cell Asunto de la revista: BIOLOGIA MOLECULAR Año: 2024 Tipo del documento: Article País de afiliación: Estados Unidos