ArticleDevelopmental biology2020
A systematic, label-free method for identifying RNA-associated proteins in vivo provides insights into vertebrate ciliary beating machinery.
Article in Developmental biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers, 1 of them a synthesis that pooled it.
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Who cites it
18 citing papers in PubMed, 1 synthesis or guideline pooled it, 30 citations in OpenAlex.
- Meta-analysis defines principles for the design and analysis of co-fractionation mass spectrometry experiments.Nature methods · 2021Pooled it
- A protein interactome for the last eukaryotic common ancestor illuminates the biochemical basis of modern genetic diseases.Cell genomics · 2026Article
- DynAPs and cytoplasmic assembly of axonemal dyneins.Journal of cell science · 2025Article
- An amino acid-resolution interactome for motile cilia identifies the structure and function of ciliopathy protein complexes.Developmental cell · 2025Article
- Ancient eukaryotic protein interactions illuminate modern genetic traits and disorders.bioRxiv : the preprint server for biology · 2024Article
- Label-free proteomic comparison reveals ciliary and nonciliary phenotypes of IFT-A mutants.Molecular biology of the cell · 2024Article
- Identifying Ciliary Proteins in Mammalian Retinas using a Gentle Extraction Method.microPublication biology · 2024Article
- Protein nonadditive expression and solubility contribute to heterosis inFrontiers in plant science · 2023Article
- Cilia proteins getting to work - how do they commute from the cytoplasm to the base of cilia?Journal of cell science · 2022Review
- ARVCF catenin controls force production during vertebrate convergent extension.Developmental cell · 2022Article
- Cilia locally synthesize proteins to sustain their ultrastructure and functions.Nature communications · 2021Article
- Nucleo-cytoplasmic shuttling of splicing factor SRSF1 is required for development and cilia function.eLife · 2021Article
- Twinfilin1 controls lamellipodial protrusive activity and actin turnover during vertebrate gastrulation.Journal of cell science · 2021Article
- Co-fractionation/mass spectrometry to identify protein complexes.STAR protocols · 2021Article
- Systematic Identification of Protein Phosphorylation-Mediated Interactions.Journal of proteome research · 2021Article
- Mass spectrometry based proteomics for developmental neurobiology in the amphibian Xenopus laevis.Current topics in developmental biology · 2021Review
- Article
- mRNA localization mediates maturation of cytoplasmic cilia in Drosophila spermatogenesis.The Journal of cell biology · 2020Article
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Authors and funding
10 authors at 1 institution in 1 country.
Funding
Abstract
Cell-type specific RNA-associated proteins are essential for development and homeostasis in animals. Despite a massive recent effort to systematically identify RNA-associated proteins, we currently have few comprehensive rosters of cell-type specific RNA-associated proteins in vertebrate tissues. Here, we demonstrate the feasibility of determining the RNA-associated proteome of a defined vertebrate embryonic tissue using DIF-FRAC, a systematic and universal (i.e., label-free) method. Application of DIF-FRAC to cultured tissue explants of Xenopus mucociliary epithelium identified dozens of known RNA-associated proteins as expected, but also several novel RNA-associated proteins, including proteins related to assembly of the mitotic spindle and regulation of ciliary beating. In particular, we show that the inner dynein arm tether Cfap44 is an RNA-associated protein that localizes not only to axonemes, but also to liquid-like organelles in the cytoplasm called DynAPs. This result led us to discover that DynAPs are generally enriched for RNA. Together, these data provide a useful resource for a deeper understanding of mucociliary epithelia and demonstrate that DIF-FRAC will be broadly applicable for systematic identification of RNA-associated proteins from embryonic tissues.
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Registered trials
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