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The BR-body proteome contains a complex network of protein-protein and protein-RNA interactions.
Nandana, V; Rathnayaka-Mudiyanselage, I W; Muthunayak, N S; Hatami, A; Mousseau, C B; Ortiz-Rodríguez, L A; Vaishnav, J; Collins, M; Gega, A; Mallikaarachchi, K S; Yassine, H; Ghosh, A; Biteen, J S; Zhu, Y; Champion, M M; Childers, W S; Schrader, J M.
Afiliación
  • Nandana V; Wayne State University, Department of Biological Sciences, Detroit, MI.
  • Rathnayaka-Mudiyanselage IW; Wayne State University, Department of Biological Sciences, Detroit, MI.
  • Muthunayak NS; Wayne State University, Department of Chemistry, Detroit, MI.
  • Hatami A; Wayne State University, Department of Biological Sciences, Detroit, MI.
  • Mousseau CB; Wayne State University, Department of Chemical Engineering and Materials Science, Detroit, MI.
  • Ortiz-Rodríguez LA; University of Notre Dame, Department of Chemistry, Notre Dame, IN.
  • Vaishnav J; University of Michigan, Department of Chemistry, Ann Arbor, MI.
  • Collins M; Wayne State University, Department of Chemical Engineering and Materials Science, Detroit, MI.
  • Gega A; University of Pittsburgh, Department of Chemistry, Pittsburgh, PA.
  • Mallikaarachchi KS; Wayne State University, Department of Biological Sciences, Detroit, MI.
  • Yassine H; Wayne State University, Department of Biological Sciences, Detroit, MI.
  • Ghosh A; Wayne State University, Department of Biological Sciences, Detroit, MI.
  • Biteen JS; Wayne State University, Department of Biological Sciences, Detroit, MI.
  • Zhu Y; University of Michigan, Department of Chemistry, Ann Arbor, MI.
  • Champion MM; Wayne State University, Department of Chemical Engineering and Materials Science, Detroit, MI.
  • Childers WS; University of Notre Dame, Department of Chemistry, Notre Dame, IN.
  • Schrader JM; University of Pittsburgh, Department of Chemistry, Pittsburgh, PA.
bioRxiv ; 2023 Jul 13.
Article en En | MEDLINE | ID: mdl-36712072
Bacterial RNP bodies (BR-bodies) are non-membrane-bound structures that facilitate mRNA decay by concentrating mRNA substrates with RNase E and the associated RNA degradosome machinery. However, the full complement of proteins enriched in BR-bodies has not been defined. Here we define the protein components of BR-bodies through enrichment of the bodies followed by mass spectrometry-based proteomic analysis. We found 111 BR-body enriched proteins, including several RNA binding proteins, many of which are also recruited directly to in vitro reconstituted RNase E droplets, showing BR-bodies are more complex than previously assumed. While most BR-body enriched proteins that were tested cannot phase separate, we identified five that undergo RNA-dependent phase separation in vitro, showing other RNP condensates interface with BR-bodies. RNA degradosome protein clients are recruited more strongly to RNase E droplets than droplets of other RNP condensates, implying that client specificity is largely achieved through direct protein-protein interactions. We observe that some RNP condensates assemble with preferred directionally, suggesting that RNA may be trafficked through RNP condensates in an ordered manner to facilitate mRNA processing/decay, and that some BR-body associated proteins have the capacity to dissolve the condensate. Finally, we find that RNA dramatically stimulates the rate of RNase E phase separation in vitro, explaining the dissolution of BR-bodies after cellular mRNA depletion observed previously. Altogether, these results suggest that a complex network of protein-protein and protein-RNA interactions controls BR-body phase separation and RNA processing.

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Idioma: En Revista: BioRxiv Año: 2023 Tipo del documento: Article Pais de publicación: Estados Unidos

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Idioma: En Revista: BioRxiv Año: 2023 Tipo del documento: Article Pais de publicación: Estados Unidos