ReviewFrontiers in molecular biosciences2021
The World of Stable Ribonucleoproteins and Its Mapping With Grad-Seq and Related Approaches.
Review in Frontiers in molecular biosciences, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed, 23 citations in OpenAlex.
- Identification of proteins exhibitingRNA biology · 2026Article
- Cross-species R-DeeP profiling reveals a conserved core of RNA-dependent proteins in yeast.Nucleic acids research · 2026Article
- Translational Fidelity Decline in the Aging Oocyte and Embryo Development.International journal of molecular sciences · 2026Review
- Biological Insights from RNA-RNA Interactomes in Bacteria, as Revealed by RIL-seq.Methods in molecular biology (Clifton, N.J.) · 2025Review
- A global survey of small RNA interactors identifies KhpA and KhpB as major RNA-binding proteins in Fusobacterium nucleatum.Nucleic acids research · 2024Article
- Advantages and limitations of UV cross-linking analysis of protein-RNA interactomes in microbes.Molecular microbiology · 2023Review
- Small RNAs and Hfq capture unfolded RNA target sites during transcription.Molecular cell · 2023Article
- FinO/ProQ-family proteins: an evolutionary perspective.Bioscience reports · 2023Review
- An integrated ion-exchange membrane-based microfluidic device for irreversible dissociation and quantification of miRNA from ribonucleoproteins.Lab on a chip · 2023Article
- Grad-seq analysis ofmicroLife · 2023Article
- An overview of gene regulation in bacteria by small RNAs derived from mRNA 3' ends.FEMS microbiology reviews · 2022Review
- Types and Functions of Mitoribosome-Specific Ribosomal Proteins across Eukaryotes.International journal of molecular sciences · 2022Review
- The current state of SubtiWiki, the database for the model organism Bacillus subtilis.Nucleic acids research · 2022Article
- How global RNA-binding proteins coordinate the behaviour of RNA regulons: An information approach.Computational and structural biotechnology journal · 2022Article
- Specific and Global RNA Regulators inInternational journal of molecular sciences · 2021Review
- Complexome Profiling: Assembly and Remodeling of Protein Complexes.International journal of molecular sciences · 2021Review
- Complexome Profiling-Exploring Mitochondrial Protein Complexes in Health and Disease.Frontiers in cell and developmental biology · 2021Review
Corrections and comments
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Authors and funding
3 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Macromolecular complexes of proteins and RNAs are essential building blocks of cells. These stable supramolecular particles can be viewed as minimal biochemical units whose structural organization, i.e., the way the RNA and the protein interact with each other, is directly linked to their biological function. Whether those are dynamic regulatory ribonucleoproteins (RNPs) or integrated molecular machines involved in gene expression, the comprehensive knowledge of these units is critical to our understanding of key molecular mechanisms and cell physiology phenomena. Such is the goal of diverse complexomic approaches and in particular of the recently developed gradient profiling by sequencing (Grad-seq). By separating cellular protein and RNA complexes on a density gradient and quantifying their distributions genome-wide by mass spectrometry and deep sequencing, Grad-seq charts global landscapes of native macromolecular assemblies. In this review, we propose a function-based ontology of stable RNPs and discuss how Grad-seq and related approaches transformed our perspective of bacterial and eukaryotic ribonucleoproteins by guiding the discovery of new RNA-binding proteins and unusual classes of noncoding RNAs. We highlight some methodological aspects and developments that permit to further boost the power of this technique and to look for exciting new biology in understudied and challenging biological models.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.