Abstract
Amyotrophic lateral sclerosis (ALS) is a fatal disease characterized by the premature loss of motor neurons. While the underlying cellular mechanisms of neuron degeneration are unknown, the cytoplasmic aggregation of several proteins is associated with sporadic and familial forms of the disease. Both wild-type and mutant forms of the RNA-binding proteins FUS and TDP-43 accumulate in cytoplasmic inclusions in the neurons of ALS patients. It is not known if these so-called proteinopathies are due to a loss of function or a gain of toxicity resulting from the formation of cytoplasmic aggregates. Here we present a model of FUS toxicity using the yeast Saccharomyces cerevisiae in which toxicity is associated with greater expression and accumulation of FUS in cytoplasmic aggregates. We find that FUS and TDP-43 have a high propensity for co-aggregation, unlike the aggregation patterns of several other aggregation-prone proteins. Moreover, the biophysical properties of FUS aggregates in yeast are distinctly different from many amyloidogenic proteins, suggesting they are not composed of amyloid.
Keywords: amyotrophic lateral sclerosis (ALS), fused in sarcoma (FUS), TLS, proteinopathy, yeast
References
- Alberti S., Halfmann R., King O., Kapila A., Lindquist S. A systematic survey identifies prions and illuminates sequence features of prionogenic proteins. Cell. 2009;137:146–158. doi: 10.1016/j.cell.2009.02.044. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Ayala Y.M., Zago P., D’Ambrogio A., Xu Y.F., Petrucelli L., Buratti E., Baralle F.E. Structural determinants of the cellular localization and shuttling of TDP-43. J Cell Sci. 2008;121:3778–3785. doi: 10.1242/jcs.038950. [DOI] [PubMed] [Google Scholar]
- Bharadwaj P., Martins R., Macreadie I. Yeast as a model for studying Alzheimer’s disease. FEMS Yeast Res. 2010;10:961–969. doi: 10.1111/j.1567-1364.2010.00658.x. [DOI] [PubMed] [Google Scholar]
- Bosco D.A., Lemay N., Ko H.K., Zhou H., Burke C., Kwiatkowski T.J., Jr, Sapp P., McKenna-Yasek D., Brown R.H., Jr, Hayward L.J. Mutant FUS proteins that cause amyotrophic lateral sclerosis incorporate into stress granules. Hum Mol Genet. 2010;19:4160–4175. doi: 10.1093/hmg/ddq335. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Braun R.J., Büttner S., Ring J., Kroemer G., Madeo F. Nervous yeast: modeling neurotoxic cell death. Trends Biochem Sci. 2010;35:135–144. doi: 10.1016/j.tibs.2009.10.005. [DOI] [PubMed] [Google Scholar]
- Buchan J.R., Muhlrad D., Parker R. P bodies promote stress granule assembly in Saccharomyces cerevisiae. J Cell Biol. 2008;183:441–455. doi: 10.1083/jcb.200807043. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Buchan J.R., Parker R. Eukaryotic stress granules: the ins and outs of translation. Mol Cell. 2009;36:932–941. doi: 10.1016/j.molcel.2009.11.020. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Chernoff Y.O., Galkin A.P., Lewitin E., Chernova T.A., Newnam G. P., Belenkiy S.M. Evolutionary conservation of prionforming abilities of the yeast Sup35 protein. Mol Microbiol. 2000;35:865–876. doi: 10.1046/j.1365-2958.2000.01761.x. [DOI] [PubMed] [Google Scholar]
- Chernoff Y.O., Lindquist S.L., Ono B., Inge-Vechtomov S.G., Liebman S.W. Role of the chaperone protein Hsp104 in propagation of the yeast prion-like factor [psi +] Science. 1995;268:880–884. doi: 10.1126/science.7754373. [DOI] [PubMed] [Google Scholar]
- Colombrita C., Zennaro E., Fallini C., Weber M., Sommacal A., Buratti E., Silani V., Ratti A. TDP-43 is recruited to stress granules in conditions of oxidative insult. J Neurochem. 2009;111:1051–1061. doi: 10.1111/j.1471-4159.2009.06383.x. [DOI] [PubMed] [Google Scholar]
- Cooper A.A., Gitler A.D., Cashikar A., Haynes C.M., Hill K.J., Bhullar B., Liu K., Xu K., Strathearn K.E., Liu F., et al. Alpha-synuclein blocks ER-Golgi traffic and Rab1 rescues neuron loss in Parkinson’s models. Science. 2006;313:324–328. doi: 10.1126/science.1129462. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Cushman M., Johnson B.S., King O.D., Gitler A.D., Shorter J. Prion-like disorders: blurring the divide between transmissibility and infectivity. J Cell Sci. 2010;123:1191–1201. doi: 10.1242/jcs.051672. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Deng H.X., Zhai H., Bigio E.H., Yan J., Fecto F., Ajroud K., Mishra M., Ajroud-Driss S., Heller S., Sufit R., et al. FUS-immunoreactive inclusions are a common feature in sporadic and non-SOD1 familial amyotrophic lateral sclerosis. Ann Neurol. 2010;67:739–748. doi: 10.1002/ana.22051. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Doi H., Okamura K., Bauer P.O., Furukawa Y., Shimizu H., Kurosawa M., Machida Y., Miyazaki H., Mitsui K., Kuroiwa Y., et al. RNA-binding protein TLS is a major nuclear aggregate-interacting protein in huntingtin exon 1 with expanded polyglutamine-expressing cells. J Biol Chem. 2008;283:6489–6500. doi: 10.1074/jbc.M705306200. [DOI] [PubMed] [Google Scholar]
- Duennwald M.L., Lindquist S. Impaired ERAD and ER stress are early and specific events in polyglutamine toxicity. Genes Dev. 2008;22:3308–3319. doi: 10.1101/gad.1673408. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Elden A.C., Kim H.J., Hart M.P., Chen-Plotkin A.S., Johnson B.S., Fang X., Armakola M., Geser F., Greene R., Lu M.M., et al. Ataxin-2 intermediate-length polyglutamine expansions are associated with increased risk for ALS. Nature. 2010;466:1069–1075. doi: 10.1038/nature09320. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Fuentealba R.A., Udan M., Bell S., Wegorzewska I., Shao J., Diamond M.I., Weihl C.C., Baloh R.H. Interaction with polyglutamine aggregates reveals a Q/N-rich domain in TDP-43. J Biol Chem. 2010;285:26304–26314. doi: 10.1074/jbc.M110.125039. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Fushimi K., Long C., Jayaram N., Chen X., Li L., Wu J.Y. Expression of human FUS/TLS in yeast leads to protein aggregation and cytotoxicity, recapitulating key features of FUS proteinopathy. Protein Cell. 2011;2:141–149. doi: 10.1007/s13238-011-1014-5. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Gal, J., Zhang, J., Kwinter, D.M., Zhai, J., Jia, H., Jia, J., and Zhu, H. (2010). Nuclear localization sequence of FUS and induction of stress granules by ALS mutants. Neurobiol Aging. Jul 29. [Epub ahead of print]. doi:10.1016/j.neurobiolaging.2010.06.010. [DOI] [PMC free article] [PubMed]
- Iko Y., Kodama T.S., Kasai N., Oyama T., Morita E.H., Muto T., Okumura M., Fujii R., Takumi T., Tate S., et al. Domain architectures and characterization of an RNA-binding protein, TLS. J Biol Chem. 2004;279:44834–44840. doi: 10.1074/jbc.M408552200. [DOI] [PubMed] [Google Scholar]
- Ito D., Seki M., Tsunoda Y., Uchiyama H., Suzuki N. Nuclear transport impairment of amyotrophic lateral sclerosislinked mutations in FUS/TLS. Ann Neurol. 2011;69:152–162. doi: 10.1002/ana.22246. [DOI] [PubMed] [Google Scholar]
- Johnson B.S., McCaffery J.M., Lindquist S., Gitler A.D. A yeast TDP-43 proteinopathy model: Exploring the molecular determinants of TDP-43 aggregation and cellular toxicity. Proc Natl Acad Sci U S A. 2008;105:6439–6444. doi: 10.1073/pnas.0802082105. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Kaganovich D., Kopito R., Frydman J. Misfolded proteins partition between two distinct quality control compartments. Nature. 2008;454:1088–1095. doi: 10.1038/nature07195. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Khurana V., Lindquist S. Modelling neurodegeneration in Saccharomyces cerevisiae: why cook with baker’s yeast? Nat Rev Neurosci. 2010;11:436–449. doi: 10.1038/nrn2809. [DOI] [PubMed] [Google Scholar]
- Kim S.H., Shanware N.P., Bowler M.J., Tibbetts R.S. Amyotrophic lateral sclerosis-associated proteins TDP-43 and FUS/TLS function in a common biochemical complex to coregulate HDAC6 mRNA. J Biol Chem. 2010;285:34097–34105. doi: 10.1074/jbc.M110.154831. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Krobitsch S., Lindquist S. Aggregation of huntingtin in yeast varies with the length of the polyglutamine expansion and the expression of chaperone proteins. Proc Natl Acad Sci U S A. 2000;97:1589–1594. doi: 10.1073/pnas.97.4.1589. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Kryndushkin D.S., Alexandrov I.M., Ter-Avanesyan M.D., Kushnirov V.V. Yeast [PSI +] prion aggregates are formed by small Sup35 polymers fragmented by Hsp104. J Biol Chem. 2003;278:49636–49643. doi: 10.1074/jbc.M307996200. [DOI] [PubMed] [Google Scholar]
- Kushnirov V.V., Alexandrov I.M., Mitkevich O.V., Shkundina I.S., Ter-Avanesyan M.D. Purification and analysis of prion and amyloid aggregates. Methods. 2006;39:50–55. doi: 10.1016/j.ymeth.2006.04.007. [DOI] [PubMed] [Google Scholar]
- Kushnirov V.V., Kochneva-Pervukhova N.V., Chechenova M.B., Frolova N.S., Ter-Avanesyan M.D. Prion properties of the Sup35 protein of yeast Pichia methanolica. EMBO J. 2000;19:324–331. doi: 10.1093/emboj/19.3.324. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Kwiatkowski T.J., Jr, Bosco D.A., Leclerc A.L., Tamrazian E., Vanderburg C.R., Russ C., Davis A., Gilchrist J., Kasarskis E. J., Munsat T., et al. Mutations in the FUS/TLS gene on chromosome 16 cause familial amyotrophic lateral sclerosis. Science. 2009;323:1205–1208. doi: 10.1126/science.1166066. [DOI] [PubMed] [Google Scholar]
- Lagier-Tourenne C., Polymenidou M., Cleveland D.W. TDP-43 and FUS/TLS: emerging roles in RNA processing and neurodegeneration. Hum Mol Genet. 2010;19:R46–R64. doi: 10.1093/hmg/ddq137. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Ling S.C., Albuquerque C.P., Han J.S., Lagier-Tourenne C., Tokunaga S., Zhou H., Cleveland D.W. ALSassociated mutations in TDP-43 increase its stability and promote TDP-43 complexes with FUS/TLS. Proc Natl Acad Sci U S A. 2010;107:13318–13323. doi: 10.1073/pnas.1008227107. [DOI] [PMC free article] [PubMed] [Google Scholar]
- McGlinchey, R., Kryndushkin, D., and Wickner, R.B. (2011). Suicidal [PSI +] is a lethal yeast prion. Proc Natl Acad Sci U S A. (In press) [DOI] [PMC free article] [PubMed]
- Meriin A.B., Zhang X., He X., Newnam G.P., Chernoff Y.O., Sherman M.Y. Huntington toxicity in yeast model depends on polyglutamine aggregation mediated by a prion-like protein Rnq1. J Cell Biol. 2002;157:997–1004. doi: 10.1083/jcb.200112104. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Meriin A.B., Zhang X., Miliaras N.B., Kazantsev A., Chernoff Y.O., McCaffery J.M., Wendland B., Sherman M.Y. Aggregation of expanded polyglutamine domain in yeast leads to defects in endocytosis. Mol Cell Biol. 2003;23:7554–7565. doi: 10.1128/MCB.23.21.7554-7565.2003. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Muchowski P.J., Schaffar G., Sittler A., Wanker E.E., Hayer-Hartl M.K., Hartl F.U. Hsp70 and hsp40 chaperones can inhibit self-assembly of polyglutamine proteins into amyloid-like fibrils. Proc Natl Acad Sci U S A. 2000;97:7841–7846. doi: 10.1073/pnas.140202897. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Neumann M., Roeber S., Kretzschmar H.A., Rademakers R., Baker M., Mackenzie I.R. Abundant FUS-immunoreactive pathology in neuronal intermediate filament inclusion disease. Acta Neuropathol. 2009;118:605–616. doi: 10.1007/s00401-009-0581-5. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Nonhoff U., Ralser M., Welzel F., Piccini I., Balzereit D., Yaspo M. L., Lehrach H., Krobitsch S. Ataxin-2 interacts with the DEAD/H-box RNA helicase DDX6 and interferes with P-bodies and stress granules. Mol Biol Cell. 2007;18:1385–1396. doi: 10.1091/mbc.E06-12-1120. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Outeiro T.F., Lindquist S. Yeast cells provide insight into alpha-synuclein biology and pathobiology. Science. 2003;302:1772–1775. doi: 10.1126/science.1090439. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Rosen D.R., Siddique T., Patterson D., Figlewicz D.A., Sapp P., Hentati A., Donaldson D., Goto J., O’Regan J.P., Deng H.X., et al. Mutations in Cu/Zn superoxide dismutase gene are associated with familial amyotrophic lateral sclerosis. Nature. 1993;362:59–62. doi: 10.1038/362059a0. [DOI] [PubMed] [Google Scholar]
- Salnikova A.B., Kryndushkin D.S., Smirnov V.N., Kushnirov V.V., Ter-Avanesyan M.D. Nonsense suppression in yeast cells overproducing Sup35 (eRF3) is caused by its non-heritable amyloids. J Biol Chem. 2005;280:8808–8812. doi: 10.1074/jbc.M410150200. [DOI] [PubMed] [Google Scholar]
- Santoso A., Chien P., Osherovich L.Z., Weissman J.S. Molecular basis of a yeast prion species barrier. Cell. 2000;100:277–288. doi: 10.1016/S0092-8674(00)81565-2. [DOI] [PubMed] [Google Scholar]
- Serio T.R., Cashikar A.G., Kowal A.S., Sawicki G.J., Moslehi J.J., Serpell L., Arnsdorf M.F., Lindquist S.L. Nucleated conformational conversion and the replication of conformational information by a prion determinant. Science. 2000;289:1317–1321. doi: 10.1126/science.289.5483.1317. [DOI] [PubMed] [Google Scholar]
- Sharma N., Brandis K.A., Herrera S.K., Johnson B.E., Vaidya T., Shrestha R., Debburman S.K. alpha-Synuclein budding yeast model: toxicity enhanced by impaired proteasome and oxidative stress. J Mol Neurosci. 2006;28:161–178. doi: 10.1385/JMN:28:2:161. [DOI] [PubMed] [Google Scholar]
- Speransky V.V., Taylor K.L., Edskes H.K., Wickner R.B., Steven A.C. Prion filament networks in [URE3] cells of Saccharomyces cerevisiae. J Cell Biol. 2001;153:1327–1336. doi: 10.1083/jcb.153.6.1327. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Sreedharan J., Blair I.P., Tripathi V.B., Hu X., Vance C., Rogelj B., Ackerley S., Durnall J.C., Williams K.L., Buratti E., et al. TDP-43 mutations in familial and sporadic amyotrophic lateral sclerosis. Science. 2008;319:1668–1672. doi: 10.1126/science.1154584. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Toombs J.A., McCarty B.R., Ross E.D. Compositional determinants of prion formation in yeast. Mol Cell Biol. 2010;30:319–332. doi: 10.1128/MCB.01140-09. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Udan M., Baloh R.H. Implications of the prion-related Q/N domains in TDP-43 and FUS. Prion. 2011;5:1–5. doi: 10.4161/pri.5.1.14265. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Vance C., Rogelj B., Hortobágyi T., De Vos K.J., Nishimura A.L., Sreedharan J., Hu X., Smith B., Ruddy D., Wright P., et al. Mutations in FUS, an RNA processing protein, cause familial amyotrophic lateral sclerosis type 6. Science. 2009;323:1208–1211. doi: 10.1126/science.1165942. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Wickner R.B., Edskes H.K., Shewmaker F. How to find a prion: [URE3], [PSI +] and [beta] [beta] Methods. 2006;39:3–8. doi: 10.1016/j.ymeth.2006.04.009. [DOI] [PubMed] [Google Scholar]
- Wickner R.B., Shewmaker F., Edskes H., Kryndushkin D., Nemecek J., McGlinchey R., Bateman D., Winchester C. L. Prion amyloid structure explains templating: how proteins can be genes. FEMS Yeast Res. 2010;10:980–991. doi: 10.1111/j.1567-1364.2010.00666.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Woulfe J., Gray D.A., Mackenzie I.R. FUS-immunoreactive intranuclear inclusions in neurodegenerative disease. Brain Pathol. 2010;20:589–597. doi: 10.1111/j.1750-3639.2009.00337.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Yeger-Lotem E., Riva L., Su L.J., Gitler A.D., Cashikar A.G., King O.D., Auluck P.K., Geddie M.L., Valastyan J.S., Karger D.R., et al. Bridging high-throughput genetic and transcriptional data reveals cellular responses to alpha-synuclein toxicity. Nat Genet. 2009;41:316–323. doi: 10.1038/ng.337. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Zinszner H., Sok J., Immanuel D., Yin Y., Ron D. TLS (FUS) binds RNA in vivo and engages in nucleo-cytoplasmic shuttling. J Cell Sci. 1997;110:1741–1750. doi: 10.1242/jcs.110.15.1741. [DOI] [PubMed] [Google Scholar]
