- Pak, C. W. et al. Sequence determinants of intracellular phase separation by complex coacervation of a disordered protein. Mol. Cell 63, 72–85 (2016).
CAS PubMed PubMed Central Google Scholar
- Li, P. et al. Phase transitions in the assembly of multivalent signalling proteins. Nature 483, 336–340 (2012).
CAS PubMed PubMed Central Google Scholar
- Martin, E. W. et al. Valence and patterning of aromatic residues determine the phase behavior of prion-like domains. Science 367, 694–699 (2020).
CAS PubMed PubMed Central Google Scholar
- Harmon, T. S., Holehouse, A. S., Rosen, M. K. & Pappu, R. V. Intrinsically disordered linkers determine the interplay between phase separation and gelation in multivalent proteins. eLife 6, e30294 (2017).
PubMed PubMed Central Google Scholar
- Langdon, E. M. et al. mRNA structure determines specificity of a polyQ-driven phase separation. Science 360, 922–927 (2018).
CAS PubMed PubMed Central Google Scholar
- Ries, R. J. et al. m6A enhances the phase separation potential of mRNA. Nature 571, 424–428 (2019).
CAS PubMed PubMed Central Google Scholar
- Elbaum-Garfinkle, S. et al. The disordered P granule protein LAF-1 drives phase separation into droplets with tunable viscosity and dynamics. Proc. Natl Acad. Sci. USA 112, 7189–7194 (2015).
CAS PubMed PubMed Central Google Scholar
- Zhang, H. et al. RNA controls polyQ protein phase transitions. Mol. Cell 60, 220–230 (2015).
CAS PubMed PubMed Central Google Scholar
- Maharana, S. et al. RNA buffers the phase separation behavior of prion-like RNA binding proteins. Science 360, 918–921 (2018).
CAS PubMed PubMed Central Google Scholar
- Milin, A. N. & Deniz, A. A. Reentrant phase transitions and non-equilibrium dynamics in membraneless organelles. Biochemistry 57, 2470–2477 (2018).
CAS PubMed Google Scholar
- Putnam, A., Cassani, M., Smith, J. & Seydoux, G. A gel phase promotes condensation of liquid P granules in Caenorhabditis elegans embryos. Nat. Struct. Mol. Biol. 26, 220–226 (2019).
CAS PubMed PubMed Central Google Scholar
- Lee, C. S. et al. Recruitment of mRNAs to P granules by condensation with intrinsically-disordered proteins. eLife 9, e52896 (2020).
CAS PubMed PubMed Central Google Scholar
- Smith, J. et al. Spatial patterning of P granules by RNA-induced phase separation of the intrinsically-disordered protein MEG-3. eLife 5, e21337 (2016).
PubMed PubMed Central Google Scholar
- Hentze, M. W., Castello, A., Schwarzl, T. & Preiss, T. A brave new world of RNA-binding proteins. Nat. Rev. Mol. Cell Biol. 19, 327–341 (2018).
CAS PubMed Google Scholar
- Franzmann, T. & Alberti, S. Prion-like low-complexity sequences: key regulators of protein solubility and phase behavior. J. Biol. Chem. 294, 7128–7136 (2018).
PubMed PubMed Central Google Scholar
- Mitrea, D. M. et al. Methods for physical characterization of phase-separated bodies and membrane-less organelles. J. Mol. Biol. 430, 4773–4805 (2018).
CAS PubMed PubMed Central Google Scholar
- Nakagawa, S., Naganuma, T., Shioi, G. & Hirose, T. Paraspeckles are subpopulation-specific nuclear bodies that are not essential in mice. J. Cell Biol. 193, 31–39 (2011).
CAS PubMed PubMed Central Google Scholar
- Nakagawa, S. et al. The lncRNA Neat1 is required for corpus luteum formation and the establishment of pregnancy in a subpopulation of mice. Development 141, 4618–4627 (2014).
CAS PubMed PubMed Central Google Scholar
- Standaert, L. et al. The long noncoding RNA Neat1 is required for mammary gland development and lactation. RNA 20, 1844–1849 (2014).
CAS PubMed PubMed Central Google Scholar
- Eulalio, A., Behm-Ansmant, I., Schweizer, D. & Izaurralde, E. P-body formation is a consequence, not the cause, of RNA-mediated gene silencing. Mol. Cell Biol. 27, 3970–3981 (2007).
CAS PubMed PubMed Central Google Scholar
- Brown, D. D. & Gurdon, J. B. Absence of ribosomal RNA synthesis in the anucleolate mutant of Xenopus laevis. Proc. Natl Acad. Sci. USA 51, 139–146 (1964).
CAS PubMed PubMed Central Google Scholar
- Martin, S. et al. Deficiency of G3BP1, the stress granules assembly factor, results in abnormal synaptic plasticity and calcium homeostasis in neurons. J. Neurochem. 125, 175–184 (2013).
CAS PubMed Google Scholar
- Tucker, K. E. et al. Residual Cajal bodies in coilin knockout mice fail to recruit Sm snRNPs and SMN, the spinal muscular atrophy gene product. J. Cell Biol. 154, 293–307 (2001).
CAS PubMed PubMed Central Google Scholar
- Boeynaems, S. et al. Spontaneous driving forces give rise to protein–RNA condensates with coexisting phases and complex material properties. Proc. Natl Acad. Sci. USA 116, 7889–7898 (2019).
CAS PubMed PubMed Central Google Scholar
- Lunde, B. M., Moore, C. & Varani, G. RNA-binding proteins: modular design for efficient function. Nat. Rev. Mol. Cell Biol. 8, 479–490 (2007).
CAS PubMed PubMed Central Google Scholar
- Van Treeck, B. et al. RNA self-assembly contributes to stress granule formation and defining the stress granule transcriptome. Proc. Natl Acad. Sci. USA 115, 2734–2739 (2018).
PubMed PubMed Central Google Scholar
- Schisa, J. A., Pitt, J. N. & Priess, J. R. Analysis of RNA associated with P granules in germ cells of C. elegans adults. Development 128, 1287–1298 (2001).
CAS PubMed Google Scholar
- Trcek, T. et al. Drosophila germ granules are structured and contain homotypic mRNA clusters. Nat. Commun. 6, 7962 (2015).
CAS PubMed PubMed Central Google Scholar
- Wheeler, J. R., Matheny, T., Jain, S., Abrisch, R. & Parker, R. Distinct stages in stress granule assembly and disassembly. eLife 5, e18413 (2016).
PubMed PubMed Central Google Scholar
- Brangwynne, C. P., Mitchison, T. J. & Hyman, A. A. Active liquid-like behavior of nucleoli determines their size and shape in Xenopus laevis oocytes. Proc. Natl Acad. Sci. USA 108, 4334–4339 (2011).
CAS PubMed PubMed Central Google Scholar
- Wheeler, J. R., Jain, S., Khong, A. & Parker, R. Isolation of yeast and mammalian stress granule cores. Methods 126, 12–17 (2017).
CAS PubMed PubMed Central Google Scholar
- Hubstenberger, A. et al. P-body purification reveals the condensation of repressed mRNA regulons. Mol. Cell 68, 144–157.e5 (2017).
CAS PubMed Google Scholar
- Khong, A. et al. The stress granule transcriptome reveals principles of mRNA accumulation in stress granules. Mol. Cell 68, 808–820.e5 (2017).
CAS PubMed PubMed Central Google Scholar
- Han, T. W. et al. Cell-free formation of RNA granules: bound RNAs identify features and components of cellular assemblies. Cell 149, 768–779 (2012).
CAS PubMed Google Scholar
- Bang, I. Untersuchungen über die guanylsäre. Biochemische Z. 26, 293–311 (1910).
CAS Google Scholar
- Nilsen, T. W. & Graveley, B. R. Expansion of the eukaryotic proteome by alternative splicing. Nature 463, 457–463 (2010).
CAS PubMed PubMed Central Google Scholar
- Yang, Y., Hsu, P. J., Chen, Y. S. & Yang, Y. G. Dynamic transcriptomic m6A decoration: writers, erasers, readers and functions in RNA metabolism. Cell Res. 28, 616–624 (2018).
CAS PubMed PubMed Central Google Scholar
- Clemson, C. M. et al. An architectural role for a nuclear noncoding RNA: NEAT1 RNA is essential for the structure of paraspeckles. Mol. Cell 33, 717–726 (2009).
CAS PubMed PubMed Central Google Scholar
- Li, R., Harvey, A. R., Hodgetts, S. I. & Fox, A. H. Functional dissection of NEAT1 using genome editing reveals substantial localization of the NEAT1_1 isoform outside paraspeckles. RNA 23, 872–881 (2017).
CAS PubMed PubMed Central Google Scholar
- Mito, M., Kawaguchi, T., Hirose, T. & Nakagawa, S. Simultaneous multicolor detection of RNA and proteins using super-resolution microscopy. Methods 98, 158–165 (2016).
CAS PubMed Google Scholar
- Jain, A. & Vale, R. D. RNA phase transitions in repeat expansion disorders. Nature 546, 243–247 (2017).
CAS PubMed PubMed Central Google Scholar
- Lee, Y. B. et al. Hexanucleotide repeats in ALS/FTD form length-dependent RNA foci, sequester RNA binding proteins, and are neurotoxic. Cell Rep. 5, 1178–1186 (2013).
CAS PubMed PubMed Central Google Scholar
- Estan, M. C. et al. Recessive mutations in muscle-specific isoforms of FXR1 cause congenital multi-minicore myopathy. Nat. Commun. 10, 797 (2019).
CAS PubMed PubMed Central Google Scholar
- Smith, J. A. et al. FXR1 splicing is important for muscle development and biomolecular condensates in muscle cells. J. Cell Biol. 219, e201911129 (2020).
CAS PubMed PubMed Central Google Scholar
- Roundtree, I. A., Evans, M. E., Pan, T. & He, C. Dynamic RNA modifications in gene expression regulation. Cell 169, 1187–1200 (2017).
CAS PubMed PubMed Central Google Scholar
- Gilbert, W. V., Bell, T. A. & Schaening, C. Messenger RNA modifications: form, distribution, and function. Science 352, 1408–1412 (2016).
CAS PubMed PubMed Central Google Scholar
- Liu, N. et al. _N_6-methyladenosine-dependent RNA structural switches regulate RNA–protein interactions. Nature 518, 560–564 (2015).
CAS PubMed PubMed Central Google Scholar
- Dominissini, D. et al. Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq. Nature 485, 201–206 (2012).
CAS PubMed Google Scholar
- Meyer, K. D. & Jaffrey, S. R. The dynamic epitranscriptome: _N_6-methyladenosine and gene expression control. Nat. Rev. Mol. Cell Biol. 15, 313–326 (2014).
CAS PubMed PubMed Central Google Scholar
- Zaccara, S., Ries, R. J. & Jaffrey, S. R. Reading, writing and erasing mRNA methylation. Nat. Rev. Mol. Cell Biol. 20, 608–624 (2019).
CAS PubMed Google Scholar
- Zhuang, Y. F. X. m6A-binding YTHDF proteins promote stress granule formation. Nat. Chem. Biol. https://doi.org/10.1038/s41589-020-0524-y (2020).
- Salter, J. D., Bennett, R. P. & Smith, H. C. The APOBEC protein family: united by structure, divergent in function. Trends Biochem. Sci. 41, 578–594 (2016).
CAS PubMed PubMed Central Google Scholar
- Miyamura, Y. et al. Mutations of the RNA-specific adenosine deaminase gene (DSRAD) are involved in dyschromatosis symmetrica hereditaria. Am. J. Hum. Genet. 73, 693–699 (2003).
CAS PubMed PubMed Central Google Scholar
- Rice, G. I. et al. Mutations in ADAR1 cause Aicardi–Goutieres syndrome associated with a type I interferon signature. Nat. Genet. 44, 1243–1248 (2012).
CAS PubMed PubMed Central Google Scholar
- Bansal, H. et al. WTAP is a novel oncogenic protein in acute myeloid leukemia. Leukemia 28, 1171–1174 (2014).
CAS PubMed PubMed Central Google Scholar
- Jonkhout, N. et al. The RNA modification landscape in human disease. RNA 23, 1754–1769 (2017).
CAS PubMed PubMed Central Google Scholar
- Gokhale, N. S. & Horner, S. M. RNA modifications go viral. PLoS Pathog. 13, e1006188 (2017).
PubMed PubMed Central Google Scholar
- Solomon, O. et al. RNA editing by ADAR1 leads to context-dependent transcriptome-wide changes in RNA secondary structure. Nat. Commun. 8, 1440 (2017).
PubMed PubMed Central Google Scholar
- Butcher, S. E. & Pyle, A. M. The molecular interactions that stabilize RNA tertiary structure: RNA motifs, patterns, and networks. Acc. Chem. Res. 44, 1302–1311 (2011).
CAS PubMed Google Scholar
- Ganser, L. R., Kelly, M. L., Herschlag, D. & Al-Hashimi, H. M. The roles of structural dynamics in the cellular functions of RNAs. Nat. Rev. Mol. Cell Biol. 20, 474–489 (2019).
CAS PubMed PubMed Central Google Scholar
- Siegfried, N. A., Busan, S., Rice, G. M., Nelson, J. A. & Weeks, K. M. RNA motif discovery by SHAPE and mutational profiling (SHAPE-MaP). Nat. Methods 11, 959–965 (2014).
CAS PubMed PubMed Central Google Scholar
- Smola, M. J. & Weeks, K. M. In-cell RNA structure probing with SHAPE-MaP. Nat. Protoc. 13, 1181–1195 (2018).
CAS PubMed PubMed Central Google Scholar
- Lu, Z., Gong, J. & Zhang, Q. C. PARIS: psoralen analysis of RNA interactions and structures with high throughput and resolution. Methods Mol. Biol. 1649, 59–84 (2018).
CAS PubMed PubMed Central Google Scholar
- Ding, Y., Chan, C. Y. & Lawrence, C. E. Sfold web server for statistical folding and rational design of nucleic acids. Nucleic Acids Res. 32, W135–W141 (2004).
CAS PubMed PubMed Central Google Scholar
- Ding, Y., Chan, C. Y. & Lawrence, C. E. RNA secondary structure prediction by centroids in a Boltzmann weighted ensemble. RNA 11, 1157–1166 (2005).
CAS PubMed PubMed Central Google Scholar
- Lorenz, R. et al. Vienna RNA package 2.0. Algorithms Mol. Biol. 6, 26 (2011).
PubMed PubMed Central Google Scholar
- Gruber, A. R., Lorenz, R., Bernhart, S. H., Neubock, R. & Hofacker, I. L. The Vienna RNA websuite. Nucleic Acids Res. 36, W70–W74 (2008).
CAS PubMed PubMed Central Google Scholar
- Alberti, S. et al. A user’s guide for phase separation assays with purified proteins. J. Mol. Biol. 430, 4806–4820 (2018).
CAS PubMed PubMed Central Google Scholar
- Volkov, V. Quantitative description of ion transport via plasma membrane of yeast and small cells. Front. Plant. Sci. 6, 425 (2015).
PubMed PubMed Central Google Scholar
- Bhattacharyya, D., Mirihana Arachchilage, G. & Basu, S. Metal cations in G-quadruplex folding and stability. Front. Chem. 4, 38 (2016).
PubMed PubMed Central Google Scholar
- Zhang, Y. et al. G-quadruplex structures trigger RNA phase separation. Nucleic Acids Res. 47, 11746–11754 (2019).
CAS PubMed PubMed Central Google Scholar
- Strulson, C. A., Boyer, J. A., Whitman, E. E. & Bevilacqua, P. C. Molecular crowders and cosolutes promote folding cooperativity of RNA under physiological ionic conditions. RNA 20, 331–347 (2014).
CAS PubMed PubMed Central Google Scholar
- Yamagami, R., Bingaman, J. L., Frankel, E. A. & Bevilacqua, P. C. Cellular conditions of weakly chelated magnesium ions strongly promote RNA stability and catalysis. Nat. Commun. 9, 2149 (2018).
PubMed PubMed Central Google Scholar
- Denesyuk, N. A. & Thirumalai, D. Crowding promotes the switch from hairpin to pseudoknot conformation in human telomerase RNA. J. Am. Chem. Soc. 133, 11858–11861 (2011).
CAS PubMed Google Scholar
- Dupuis, N. F., Holmstrom, E. D. & Nesbitt, D. J. Molecular-crowding effects on single-molecule RNA folding/unfolding thermodynamics and kinetics. Proc. Natl Acad. Sci. USA 111, 8464–8469 (2014).
CAS PubMed PubMed Central Google Scholar
- Kilburn, D., Roh, J. H., Guo, L., Briber, R. M. & Woodson, S. A. Molecular crowding stabilizes folded RNA structure by the excluded volume effect. J. Am. Chem. Soc. 132, 8690–8696 (2010).
CAS PubMed PubMed Central Google Scholar
- Nakano, S., Karimata, H. T., Kitagawa, Y. & Sugimoto, N. Facilitation of RNA enzyme activity in the molecular crowding media of cosolutes. J. Am. Chem. Soc. 131, 16881–16888 (2009).
CAS PubMed Google Scholar
- Lee, H. T., Kilburn, D., Behrouzi, R., Briber, R. M. & Woodson, S. A. Molecular crowding overcomes the destabilizing effects of mutations in a bacterial ribozyme. Nucleic Acids Res. 43, 1170–1176 (2015).
CAS PubMed Google Scholar
- Bernhardt, H. S. & Tate, W. P. Primordial soup or vinaigrette: did the RNA world evolve at acidic pH? Biol. Direct 7, 4 (2012).
CAS PubMed PubMed Central Google Scholar
- Mariani, A., Bonfio, C., Johnson, C. M. & Sutherland, J. D. pH-driven RNA strand separation under prebiotically plausible conditions. Biochemistry 57, 6382–6386 (2018).
CAS PubMed Google Scholar
- Smola, M. J., Rice, G. M., Busan, S., Siegfried, N. A. & Weeks, K. M. Selective 2′-hydroxyl acylation analyzed by primer extension and mutational profiling (SHAPE-MaP) for direct, versatile and accurate RNA structure analysis. Nat. Protoc. 10, 1643–1669 (2015).
CAS PubMed PubMed Central Google Scholar
- Munder, M. C. et al. A pH-driven transition of the cytoplasm from a fluid- to a solid-like state promotes entry into dormancy. eLife 5, e09347 (2016).
PubMed PubMed Central Google Scholar
- Sun, L. et al. RNA structure maps across mammalian cellular compartments. Nat. Struct. Mol. Biol. 26, 322–330 (2019).
CAS PubMed PubMed Central Google Scholar
- Cordin, O., Banroques, J., Tanner, N. K. & Linder, P. The DEAD-box protein family of RNA helicases. Gene 367, 17–37 (2006).
CAS PubMed Google Scholar
- Rajkowitsch, L. et al. RNA chaperones, RNA annealers and RNA helicases. RNA Biol. 4, 118–130 (2007).
CAS PubMed Google Scholar
- Hondele, M. et al. DEAD-box ATPases are global regulators of phase-separated organelles. Nature 573, 144–148 (2019).
CAS PubMed Google Scholar
- Kim, Y. & Myong, S. RNA remodeling activity of DEAD box proteins tuned by protein concentration, RNA length, and ATP. Mol. Cell 63, 865–876 (2016).
CAS PubMed PubMed Central Google Scholar
- Rouskin, S., Zubradt, M., Washietl, S., Kellis, M. & Weissman, J. S. Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo. Nature 505, 701–705 (2014).
CAS PubMed Google Scholar
- Buratti, E. & Baralle, F. E. Influence of RNA secondary structure on the pre-mRNA splicing process. Mol. Cell Biol. 24, 10505–10514 (2004).
CAS PubMed PubMed Central Google Scholar
- Van Treeck, B. & Parker, R. Emerging roles for intermolecular RNA–RNA interactions in RNP assemblies. Cell 174, 791–802 (2018).
PubMed PubMed Central Google Scholar
- Trcek, T. et al. Sequence-independent self-assembly of germ granule mRNAs into homotypic clusters. Mol. Cell 78, 1–10 (2020).
Google Scholar
- Sharma, E., Sterne-Weiler, T., O’Hanlon, D. & Blencowe, B. J. Global mapping of human RNA–RNA interactions. Mol. Cell 62, 618–626 (2016).
CAS PubMed Google Scholar
- Engreitz, J. M. et al. RNA–RNA interactions enable specific targeting of noncoding RNAs to nascent pre-mRNAs and chromatin sites. Cell 159, 188–199 (2014).
CAS PubMed PubMed Central Google Scholar
- Mustoe, A. M., Lama, N. N., Irving, P. S., Olson, S. W. & Weeks, K. M. RNA base-pairing complexity in living cells visualized by correlated chemical probing. Proc. Natl Acad. Sci. USA 116, 24574–24582 (2019).
CAS PubMed PubMed Central Google Scholar
- Rehmsmeier, M., Steffen, P., Hochsmann, M. & Giegerich, R. Fast and effective prediction of microRNA/target duplexes. RNA 10, 1507–1517 (2004).
CAS PubMed PubMed Central Google Scholar
- Berry, J., Weber, S. C., Vaidya, N., Haataja, M. & Brangwynne, C. P. RNA transcription modulates phase transition-driven nuclear body assembly. Proc. Natl Acad. Sci. USA 112, E5237–E5245 (2015).
CAS PubMed PubMed Central Google Scholar
- Shelkovnikova, T. A., Robinson, H. K., Southcombe, J. A., Ninkina, N. & Buchman, V. L. Multistep process of FUS aggregation in the cell cytoplasm involves RNA-dependent and RNA-independent mechanisms. Hum. Mol. Genet. 23, 5211–5226 (2014).
CAS PubMed PubMed Central Google Scholar
- Murakami, T. et al. ALS/FTD mutation-induced phase transition of FUS liquid droplets and reversible hydrogels into irreversible hydrogels impairs RNP granule function. Neuron 88, 678–690 (2015).
CAS PubMed PubMed Central Google Scholar
- Lin, Y., Protter, D. S., Rosen, M. K. & Parker, R. Formation and maturation of phase-separated liquid droplets by RNA-binding proteins. Mol. Cell 60, 208–219 (2015).
CAS PubMed PubMed Central Google Scholar
- Molliex, A. et al. Phase separation by low complexity domains promotes stress granule assembly and drives pathological fibrillization. Cell 163, 123–133 (2015).
CAS PubMed PubMed Central Google Scholar
- Patel, A. et al. A liquid-to-solid phase transition of the ALS protein FUS accelerated by disease mutation. Cell 162, 1066–1077 (2015).
CAS PubMed Google Scholar
- Kiledjian, M. & Dreyfuss, G. Primary structure and binding activity of the hnRNP U protein: binding RNA through RGG box. EMBO J. 11, 2655–2664 (1992).
CAS PubMed PubMed Central Google Scholar
- Yamazaki, T. et al. Functional domains of NEAT1 architectural lncRNA induce paraspeckle assembly through phase separation. Mol. Cell 70, 1038–1053.e7 (2018).
CAS PubMed Google Scholar
- Lee, C., Occhipinti, P. & Gladfelter, A. S. PolyQ-dependent RNA-protein assemblies control symmetry breaking. J. Cell Biol. 208, 533–544 (2015).
CAS PubMed PubMed Central Google Scholar
- Lee, C. et al. Protein aggregation behavior regulates cyclin transcript localization and cell-cycle control. Dev. Cell 25, 572–584 (2013).
CAS PubMed PubMed Central Google Scholar
- Heraud-Farlow, J. E. & Kiebler, M. A. The multifunctional Staufen proteins: conserved roles from neurogenesis to synaptic plasticity. Trends Neurosci. 37, 470–479 (2014).
CAS PubMed PubMed Central Google Scholar
- Langdon, E. M. & Gladfelter, A. S. A new lens for RNA localization: liquid–liquid phase separation. Annu. Rev. Microbiol. 72, 255–271 (2018).
CAS PubMed Google Scholar
- Ferrandon, D., Elphick, L., Nusslein-Volhard, C. & St Johnston, D. Staufen protein associates with the 3′UTR of bicoid mRNA to form particles that move in a microtubule-dependent manner. Cell 79, 1221–1232 (1994).
CAS PubMed Google Scholar
- Liao, Y. C. et al. RNA granules hitchhike on lysosomes for long-distance transport, using annexin A11 as a molecular tether. Cell 179, 147–164.e20 (2019).
CAS PubMed PubMed Central Google Scholar
- Kanai, Y., Dohmae, N. & Hirokawa, N. Kinesin transports RNA: isolation and characterization of an RNA-transporting granule. Neuron 43, 513–525 (2004).
CAS PubMed Google Scholar
- Kiebler, M. A. & Bassell, G. J. Neuronal RNA granules: movers and makers. Neuron 51, 685–690 (2006).
CAS PubMed Google Scholar
- Conlon, E. G. & Manley, J. L. RNA-binding proteins in neurodegeneration: mechanisms in aggregate. Genes Dev. 31, 1509–1528 (2017).
CAS PubMed PubMed Central Google Scholar
- Becht, P., Konig, J. & Feldbrugge, M. The RNA-binding protein Rrm4 is essential for polarity in Ustilago maydis and shuttles along microtubules. J. Cell Sci. 119, 4964–4973 (2006).
CAS PubMed Google Scholar
- Zarnack, K. & Feldbrugge, M. mRNA trafficking in fungi. Mol. Genet. Genomics 278, 347–359 (2007).
CAS PubMed Google Scholar
- Konig, J. et al. The fungal RNA-binding protein Rrm4 mediates long-distance transport of ubi1 and rho3 mRNAs. EMBO J. 28, 1855–1866 (2009).
PubMed PubMed Central Google Scholar
- Baumann, S., Pohlmann, T., Jungbluth, M., Brachmann, A. & Feldbrugge, M. Kinesin-3 and dynein mediate microtubule-dependent co-transport of mRNPs and endosomes. J. Cell Sci. 125, 2740–2752 (2012).
CAS PubMed Google Scholar
- Baumann, S., Konig, J., Koepke, J. & Feldbrugge, M. Endosomal transport of septin mRNA and protein indicates local translation on endosomes and is required for correct septin filamentation. EMBO Rep. 15, 94–102 (2014).
CAS PubMed Google Scholar
- Vogler, T. O. et al. TDP-43 and RNA form amyloid-like myo-granules in regenerating muscle. Nature 563, 508–513 (2018).
CAS PubMed PubMed Central Google Scholar
- Smith, J. A. et al. Regulation of FXR1 by alternative splicing is required for muscle development and controls liquid-like condensates in muscle cells. Preprint at bioRxiv https://doi.org/10.1101/818476 (2019).
Article Google Scholar
- Orr-Weaver, T. L. When bigger is better: the role of polyploidy in organogenesis. Trends Genet. 31, 307–315 (2015).
CAS PubMed PubMed Central Google Scholar
- Cho, W. K. et al. Mediator and RNA polymerase II clusters associate in transcription-dependent condensates. Science 361, 412–415 (2018).
CAS PubMed PubMed Central Google Scholar
- Hnisz, D., Shrinivas, K., Young, R. A., Chakraborty, A. K. & Sharp, P. A. A phase separation model for transcriptional control. Cell 169, 13–23 (2017).
CAS PubMed PubMed Central Google Scholar
- Jordina Guille´ n-Boixet, A. K., Holehouse, Alex S., Pappu, Rohit V. & Simon Alberti, T. M. F. RNA-induced conformational switching and clustering of G3BP drive stress granule assembly by condensation. Cell 18, 1–16 (2020).
Google Scholar
- Lu, H. et al. Phase-separation mechanism for C-terminal hyperphosphorylation of RNA polymerase II. Nature 558, 318–323 (2018).
CAS PubMed PubMed Central Google Scholar
- Galganski, L., Urbanek, M. O. & Krzyzosiak, W. J. Nuclear speckles: molecular organization, biological function and role in disease. Nucleic Acids Res. 45, 10350–10368 (2017).
CAS PubMed PubMed Central Google Scholar
- Falahati, H., Pelham-Webb, B., Blythe, S. & Wieschaus, E. Nucleation by rRNA dictates the precision of nucleolus assembly. Curr. Biol. 26, 277–285 (2016).
CAS PubMed PubMed Central Google Scholar
- Fang, X. et al. Arabidopsis FLL2 promotes liquid–liquid phase separation of polyadenylation complexes. Nature 569, 265–269 (2019).
CAS PubMed PubMed Central Google Scholar
- Luo, Y., Na, Z. & Slavoff, S. A. P-bodies: composition, properties, and functions. Biochemistry 57, 2424–2431 (2018).
CAS PubMed Google Scholar
- Nott, T. J. et al. Phase transition of a disordered nuage protein generates environmentally responsive membraneless organelles. Mol. Cell 57, 936–947 (2015).
CAS PubMed PubMed Central Google Scholar
- Saha, S. et al. Polar positioning of phase-separated liquid compartments in cells regulated by an mRNA competition mechanism. Cell 166, 1572–1584.e16 (2016).
CAS PubMed PubMed Central Google Scholar
- Tsang, B. et al. Phosphoregulated FMRP phase separation models activity-dependent translation through bidirectional control of mRNA granule formation. Proc. Natl Acad. Sci. USA 116, 4218–4227 (2019).
CAS PubMed PubMed Central Google Scholar
- Wang, J. T. & Seydoux, G. P granules. Curr. Biol. 24, R637–R638 (2014).
CAS PubMed PubMed Central Google Scholar
- Seydoux, G. & Braun, R. E. Pathway to totipotency: lessons from germ cells. Cell 127, 891–904 (2006).
CAS PubMed Google Scholar
- Congdon, E. E. & Duff, K. E. Is tau aggregation toxic or protective? J. Alzheimers Dis. 14, 453–457 (2008).
PubMed Google Scholar
- Greenblatt, E. J. & Spradling, A. C. Fragile X mental retardation 1 gene enhances the translation of large autism-related proteins. Science 361, 709–712 (2018).
CAS PubMed PubMed Central Google Scholar
- Marozzi, A. et al. Association between idiopathic premature ovarian failure and fragile X premutation. Hum. Reprod. 15, 197–202 (2000).
CAS PubMed Google Scholar
- Sullivan, A. K. et al. Association of FMR1 repeat size with ovarian dysfunction. Hum. Reprod. 20, 402–412 (2005).
CAS PubMed Google Scholar
- Boke, E. et al. Amyloid-like self-assembly of a cellular compartment. Cell 166, 637–650 (2016).
CAS PubMed PubMed Central Google Scholar
- Mugler, C. F. et al. ATPase activity of the DEAD-box protein Dhh1 controls processing body formation. eLife 5, e18746 (2016).
PubMed PubMed Central Google Scholar
- Rai, A. K., Chen, J. X., Selbach, M. & Pelkmans, L. Kinase-controlled phase transition of membraneless organelles in mitosis. Nature 559, 211–216 (2018).
CAS PubMed Google Scholar
- Wang, J. T. et al. Regulation of RNA granule dynamics by phosphorylation of serine-rich, intrinsically disordered proteins in C. elegans. eLife 3, e04591 (2014).
PubMed PubMed Central Google Scholar
- Wippich, F. et al. Dual specificity kinase DYRK3 couples stress granule condensation/dissolution to mTORC1 signaling. Cell 152, 791–805 (2013).
CAS PubMed Google Scholar
- Walters, R. W., Muhlrad, D., Garcia, J. & Parker, R. Differential effects of Ydj1 and Sis1 on Hsp70-mediated clearance of stress granules in Saccharomyces cerevisiae. RNA 21, 1660–1671 (2015).
CAS PubMed PubMed Central Google Scholar
- Liu, Y., Beyer, A. & Aebersold, R. On the dependency of cellular protein levels on mRNA abundance. Cell 165, 535–550 (2016).
CAS PubMed Google Scholar
- Klosin, A. et al. Phase separation provides a mechanism to reduce noise in cells. Science 367, 464–468 (2020).
CAS PubMed Google Scholar
- Riback, J. A. et al. Composition-dependent thermodynamics of intracellular phase separation. Nature 581, 209–214 (2020).
CAS PubMed PubMed Central Google Scholar
- Du, M. & Chen, Z. J. DNA-induced liquid phase condensation of cGAS activates innate immune signaling. Science 361, 704–709 (2018).
CAS PubMed Google Scholar
- Protter, D. S. W. & Parker, R. Principles and properties of stress granules. Trends Cell Biol. 26, 668–679 (2016).
CAS PubMed PubMed Central Google Scholar
- Decker, C. J. & Parker, R. P-bodies and stress granules: possible roles in the control of translation and mRNA degradation. Cold Spring Harb. Perspect. Biol. 4, a012286 (2012).
PubMed PubMed Central Google Scholar
- Riback, J. A. et al. Stress-triggered phase separation is an adaptive, evolutionarily tuned response. Cell 168, 1028–1040.e19 (2017).
CAS PubMed PubMed Central Google Scholar