Prions and prion-like phenomena in epigenetic inheritance

Handbook of Epigenetics

Volumn , Issue , 2011, Pages 63-76

  Lalucque, Hervé ^a   Malagnac, Fabienne ^a   Silar, Philippe ^a  

^a UNIVERSITÉ PARIS SACLAY   (France)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 84862568872     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.1016/B978-0-12-375709-8.00005-8     Document Type: Chapter

References (117)

1. Nanney DL Epigenetic control systems. Proc Natl Acad Sci USA 1958, 44:712-717.
2. Delbrück M Comment of an article. Unités biologiques douées de continuité génétique 1949, 33-34. CNRS, Paris France. T.M. Sonneborn, G.H. Beale (Eds.).
3. Marcou D Notion de longévité et nature cytoplasmique du déterminant de la sénescence chez quelques champignons. Ann Sci Nat Bot Sér 1961, 12(2):653-764.
4. Novick A, Weiner M Enzyme induction as an all-or-none phenomenon. Proc Natl Acad Sci USA 1957, 43:553-566.
5. Beisson J, Sonneborn TM Cytoplasmic inheritance of the organization of the cell cortex in Paramecium aurelia. Proc Natl Acad Sci USA 1965, 53:275-282.
6. Beisson J Non-nucleic acid inheritance and epigenetic phenomena. Cell Biology 1977, Vol. 1. Academic Press Inc., San Francisco USA, 375-421.
7. Kirk JTO Roots: The discovery of chloroplast DNA. BioEssays 1986, 4:36-38.
8. Mounolou JC, Lacroute F Mitochondrial DNA: an advance in eukaryotic cell biology in the 1960s. Biol Cell 2005, 97:743-748.
9. Wickner RB [URE3] as an altered URE2 protein: evidence for a prion analog in Saccharomyces cerevisiae. Science 1994, 264:566-569.
10. Prusiner SB Novel proteinaceous infectious particles cause scrapie. Science 1982, 216:136-144.
11. Legname G, Baskakov IV, Nguyen HO, Riesner D, Cohen FE, DeArmond SJ, et al. Synthetic mammalian prions. Science 2004, 305:673-676.
12. Wickner RB, Shewmaker F, Kryndushkin D, Edskes HK Protein inheritance (prions) based on parallel in-register beta-sheet amyloid structures. Bioessays 2008, 30:955-964.
13. True HL, Berlin I, Lindquist SL Epigenetic regulation of translation reveals hidden genetic variation to produce complex traits. Nature 2004, 431:184-187.
14. Maddelein ML, Dos Reis S, Duvezin-Caubet S, Coulary-Salin B, Saupe SJ Amyloid aggregates of the HET-s prion protein are infectious. Proc Natl Acad Sci USA 2002, 99:7402-7407.
15. Coustou V, Deleu C, Saupe S, Begueret J The protein product of the het-s heterokaryon incompatibility gene of the fungus Podospora anserina behaves as a prion analog. Proc Natl Acad Sci USA 1997, 94:9773-9778.
16. Avery OT, McLeod CM, McCarty M Studies on the chemical nature of the substance inducing transformation of pneumococcal types. J Exp Med 1944, 79:137-158.
17. Si K, Lindquist S, Kandel ER A neuronal isoform of the aplysia CPEB has prion-like properties. Cell 2003, 115:879-891.
18. Li L, Lindquist S Creating a protein-based element of inheritance. Science 2000, 287:661-664.
19. Patino MM, Liu JJ, Glover JR, Lindquist S Support for the prion hypothesis for inheritance of a phenotypic trait in yeast. Science 1996, 273:622-626.
20. Ross ED, Baxa U, Wickner RB Scrambled prion domains form prions and amyloid. Mol Cell Biol 2004, 24:7206-7213.
21. Sondheimer N, Lindquist S Rnq1: an epigenetic modifier of protein function in yeast. Mol Cell 2000, 5:163-172.
22. Baxa U, Cassese T, Kajava AV, Steven AC Structure, function, and amyloidogenesis of fungal prions: filament polymorphism and prion variants. Adv Protein Chem 2006, 73:125-180.
23. Tessier PM, Lindquist S Unraveling infectious structures, strain variants and species barriers for the yeast prion [PSI+]. Nat Struct Mol Biol 2009, 16:598-605.
24. ChernoffYO, Lindquist SL, Ono B, Inge-Vechtomov SG, Liebman SW Role of the chaperone protein Hsp104 in propagation of the yeast prion-like factor [psi+]. Science 1995, 268:880-884.
25. Nemecek J, Nakayashiki T, Wickner RB A prion of yeast metacaspase homolog (Mca1p) detected by a genetic screen. Proc Natl Acad Sci USA 2009, 106:1892-1896.
26. Jung G, Masison DC Guanidine hydrochloride inhibits Hsp104 activity in vivo: a possible explanation for its effect in curing yeast prions. Curr Microbiol 2001, 43:7-10.
27. Rikhvanov EG, Romanova NV, ChernoffYO Chaperone effects on prion and nonprion aggregates. Prion 2007, 1:217-222.
28. Derkatch IL, Bradley ME, Zhou P, ChernoffYO, Liebman SW Genetic and environmental factors affecting the de novo appearance of the [PSI+] prion in Saccharomyces cerevisiae. Genetics 1997, 147:507-519.
29. Derkatch IL, Bradley ME, Hong JY, Liebman SW Prions affect the appearance of other prions: the story of [PIN(+)]. Cell 2001, 106:171-182.
30. Bradley ME, Edskes HK, Hong JY, Wickner RB, Liebman SW Interactions among prions and prion "strains" in yeast. Proc Natl Acad Sci USA 2002, 99(Suppl 4):16392-16399.
31. Schwimmer C, Masison DC Antagonistic interactions between yeast [PSI(+)] and [URE3] prions and curing of [URE3] by Hsp70 protein chaperone Ssa1p but not by Ssa2p. Mol Cell Biol 2002, 22:3590-3598.
32. Bradley ME, Liebman SW Destabilizing interactions among [PSI(+)] and [PIN(+)] yeast prion variants. Genetics 2003, 165:1675-1685.
33. Derkatch IL, ChernoffYO, Kushnirov VV, Inge-Vechtomov SG, Liebman SW Genesis and variability of [PSI] prion factors in Saccharomyces cerevisiae. Genetics 1996, 144:1375-1386.
34. Schlumpberger M, Wille H, Baldwin MA, Butler DA, Herskowitz I, Prusiner SB The prion domain of yeast Ure2p induces autocatalytic formation of amyloid fibers by a recombinant fusion protein. Protein Sci 2000, 9:440-451.
35. Morales R, Abid K, Soto C The prion strain phenomenon: molecular basis and unprecedented features. Biochim Biophys Acta 2007, 1772:681-691.
36. Tanaka M, Chien P, Naber N, Cooke R, Weissman JS Conformational variations in an infectious protein determine prion strain differences. Nature 2004, 428:323-328.
37. Pattison IH, Millson GC Further experimental observations on scrapie. J Comp Pathol 1961, 71:350-359.
38. Pattison IH, Millson GC Scrapie produced experimentally in goats with special reference to the clinical syndrome. J Comp Pathol 1961, 71:101-109.
39. King CY, Diaz-Avalos R Protein-only transmission of three yeast prion strains. Nature 2004, 428:319-323.
40. Tanaka M, Collins SR, Toyama BH, Weissman JS The physical basis of how prion conformations determine strain phenotypes. Nature 2006, 442:585-589.
41. Tanaka M, Chien P, Yonekura K, Weissman JS Mechanism of cross-species prion transmission: an infectious conformation compatible with two highly divergent yeast prion proteins. Cell 2005, 121:49-62.
42. Nakayashiki T, Kurtzman CP, Edskes HK, Wickner RB Yeast prions [URE3] and [PSI+] are diseases. Proc Natl Acad Sci USA 2005, 102:10575-10580.
43. Cheng MY, Hartl FU, Horwich AL The mitochondrial chaperonin hsp60 is required for its own assembly. Nature 1990, 348:455-458.
44. Sonneborn TM The determinants and evolution of life. The differentiation of cells. Proc Natl Acad Sci USA 1964, 51:915-929.
45. Ng SF, Frankel J 180 degrees rotation of ciliary rows and its morphogenetic implications in Tetrahymena pyriformis. Proc Natl Acad Sci USA 1977, 74:1115-1119.
46. Feldman JL, Geimer S, Marshall WF The mother centriole plays an instructive role in defining cell geometry. PLoS Biol 2007, 5:e149.
47. Moreira-Leite FF, Sherwin T, Kohl L, Gull K A trypanosome structure involved in transmitting cytoplasmic information during cell division. Science 2001, 294:610-612.
48. Nelsen EM, Frankel J Maintenance and regulation of cellular handedness in Tetrahymena. Development 1989, 105:457-471.
49. Nelsen EM, Frankel J, Jenkins LM Non-genic inheritance of cellular handedness. Development 1989, 105:447-456.
50. Frankel J What do genic mutations tell us about the structural patterning of a complex single-celled organism?. Eukaryot Cell 2008, 7:1617-1639.
51. Chen T, Hiroko T, Chaudhuri A, Inose F, Lord M, Tanaka S, et al. Multigenerational cortical inheritance of the Rax2 protein in orienting polarity and division in yeast. Science 2000, 290:1975-1978.
52. Iftode F, Fleury-Aubusson A Structural inheritance in Paramecium: ultrastructural evidence for basal body and associated rootlets polarity transmission through binary fission. Biol Cell 2003, 95:39-51.
53. Roberts BT, Wickner RB Heritable activity: a prion that propagates by covalent autoactivation. Genes Dev 2003, 17:2083-2087.
54. Roberts BT, Wickner RB A new kind of prion: a modified protein necessary for its own modification. Cell Cycle 2004, 3:100-103.
55. Brandman O, Meyer T Feedback loops shape cellular signals in space and time. Science 2008, 322:390-395.
56. Drubin DA, Way JC, Silver PA Designing biological systems. Genes Dev 2007, 21:242-254.
57. Sprinzak D, Elowitz MB Reconstruction of genetic circuits. Nature 2005, 438:443-448.
58. Becskei A, Seraphin B, Serrano L Positive feedback in eukaryotic gene networks: cell differentiation by graded to binary response conversion. Embo J 2001, 20:2528-2535.
59. Gardner TS, Cantor CR, Collins JJ Construction of a genetic toggle switch in Escherichia coli. Nature 2000, 403:339-342.
60. Kobayashi H, Kaern M, Araki M, Chung K, Gardner TS, Cantor CR, et al. Programmable cells: interfacing natural and engineered gene networks. Proc Natl Acad Sci USA 2004, 101:8414-8419.
61. Tchuraev RN, Stupak IV, Tropynina TS, Stupak EE Epigenes: design and construction of new hereditary units. FEBS Lett 2000, 486:200-202.
62. Toman Z, Dambly C, Radman M Induction of a stable, heritable epigenetic change by mutagenic carcinogens: a new test system. IARC Sci Publ 1980, 243-255.
63. Ajo-Franklin CM, Drubin DA, Eskin JA, Gee EP, Landgraf D, Phillips I, et al. Rational design of memory in eukaryotic cells. Genes Dev 2007, 21:2271-2276.
64. Cohn M, Horibata K Analysis of the differentiation and of the heterogeneity within a population of Escherichia coli undergoing induced beta-galactosidase synthesis. J Bacteriol 1959, 78:613-623.
65. Cohn M, Horibata K Inhibition by glucose of the induced synthesis of the beta-galactoside-enzyme system of Escherichia coli. Analysis of maintenance. J Bacteriol 1959, 78:601-612.
66. Cohn M, Horibata K Physiology of the inhibition by glucose of the induced synthesis of the beta-galactoside enzyme system of Escherichia coli. J Bacteriol 1959, 78:624-635.
67. Choi PJ, Cai L, Frieda K, Xie XS A stochastic single-molecule event triggers phenotype switching of a bacterial cell. Science 2008, 322:442-446.
68. Ozbudak EM, Thattai M, Lim HN, Shraiman BI, Van Oudenaarden A Multistability in the lactose utilization network of Escherichia coli. Nature 2004, 427:737-740.
69. Laurent M, Kellershohn N Multistability: a major means of differentiation and evolution in biological systems. Trends Biochem Sci 1999, 24:418-422.
70. Santillan M, Mackey MC Quantitative approaches to the study of bistability in the lac operon of Escherichia coli. J R Soc Interface 2008, 5(Suppl 1):S29-S39.
71. Toman Z, Dambly-Chaudiere C, Tenenbaum L, Radman M A system for detection of genetic and epigenetic alterations in Escherichia coli induced by DNA-damaging agents. J Mol Biol 1985, 186:97-105.
72. Silar P, Haedens V, Rossignol M, Lalucque H Propagation of a novel cytoplasmic, infectious and deleterious determinant is controlled by translational accuracy in Podospora anserina. Genetics 1999, 151:87-95.
73. Haedens V, Malagnac F, Silar P Genetic control of an epigenetic cell degeneration syndrome in Podospora anserina. Fungal Genet Biol 2005, 42:564-577.
74. Silar P, Daboussi MJ Non-conventional infectious elements in filamentous fungi. Trends Genet 1999, 15:141-145.
75. Graziani S, Silar P, Daboussi MJ Bistability and hysteresis of the 'Secteur' differentiation are controlled by a two-gene locus in Nectria haematococca. BMC Biol 2004, 2:18.
76. Kicka S, Silar P PaASK1, a mitogen-activated protein kinase kinase kinase that controls cell degeneration and cell differentiation in Podospora anserina. Genetics 2004, 166:1241-1252.
77. Kicka S, Bonnet C, Sobering AK, Ganesan LP, Silar P A mitotically inheritable unit containing a MAP kinase module. Proc Natl Acad Sci USA 2006, 103:13445-13450.
78. Bagowski CP, Ferrell JE Bistability in the JNK cascade. Curr Biol 2001, 11:1176-1182.
79. Jamet-Vierny C, Debuchy R, Prigent M, Silar P IDC1, a Pezizomycotina-specific gene that belongs to the PaMpk1 MAP kinase transduction cascade of the filamentous fungus Podospora anserina. Fungal Genet Biol 2007, 44:1219-1230.
80. Bhalla US, Ram PT, Iyengar R MAP kinase phosphatase as a locus of flexibility in a mitogen-activated protein kinase signaling network. Science 2002, 297:1018-1023.
81. Clemons KV, Hanson LC, Stevens DA Colony phenotype switching in clinical and non-clinical isolates of Saccharomyces cerevisiae. J Med Vet Mycol 1996, 34:259-264.
82. Lachke SA, Joly S, Daniels K, Soll DR Phenotypic switching and filamentation in Candida glabrata. Microbiology 2002, 148:2661-2674.
83. Lachke SA, Srikantha T, Tsai LK, Daniels K, Soll DR Phenotypic switching in Candida glabrata involves phase-specific regulation of the metallothionein gene MT-II and the newly discovered hemolysin gene HLP. Infect Immun 2000, 68:884-895.
84. Fries BC, Goldman DL, Casadevall A Phenotypic switching in Cryptococcus neoformans. Microbes Infect 2002, 4:1345-1352.
85. Enger L, Joly S, Pujol C, Simonson P, Pfaller M, Soll DR Cloning and characterization of a complex DNA fingerprinting probe for Candida parapsilosis. J Clin Microbiol 2001, 39:658-669.
86. Joly S, Pujol C, Schroppel K, Soll DR Development of two species-specific fingerprinting probes for broad computer-assisted epidemiological studies of Candida tropicalis. J Clin Microbiol 1996, 34:3063-3071.
87. Slutsky B, Staebell M, Anderson J, Risen L, Pfaller M, Soll DR "White-opaque transition": a second high-frequency switching system in Candida albicans. J Bacteriol 1987, 169:189-197.
88. Miller MG, Johnson AD White-opaque switching in Candida albicans is controlled by mating-type locus homeodomain proteins and allows efficient mating. Cell 2002, 110:293-302.
89. Lockhart SR, Pujol C, Daniels KJ, Miller MG, Johnson AD, Pfaller MA, et al. In Candida albicans, white-opaque switchers are homozygous for mating type. Genetics 2002, 162:737-745.
90. Soll DR High-frequency switching in Candida albicans. Clin Microbiol Rev 1992, 5:183-203.
91. Soll DR Gene regulation during high-frequency switching in Candida albicans. Microbiology 1997, 143(Pt 2):279-288.
92. Lan CY, Newport G, Murillo LA, Jones T, Scherer S, Davis RW, et al. Metabolic specialization associated with phenotypic switching in Candida albicans. Proc Natl Acad Sci USA 2002, 99:14907-14912.
93. Vargas K, Messer SA, Pfaller M, Lockhart SR, Stapleton JT, Hellstein J, et al. Elevated phenotypic switching and drug resistance of Candida albicans from human immunodeficiency virus-positive individuals prior to first thrush episode. J Clin Microbiol 2000, 38:3595-3607.
94. Lohse MB, Johnson AD Differential phagocytosis of white versus opaque Candida albicans by Drosophila and mouse phagocytes. PLoS One 2008, 3:e1473.
95. Huang G, Wang H, Chou S, Nie X, Chen J, Liu H Bistable expression of WOR1, a master regulator of white-opaque switching in Candida albicans. Proc Natl Acad Sci USA 2006, 103:12813-12818.
96. Srikantha T, Borneman AR, Daniels KJ, Pujol C, Wu W, Seringhaus MR, et al. TOS9 regulates white-opaque switching in Candida albicans. Eukaryot Cell 2006, 5:1674-1687.
97. Zordan RE, Galgoczy DJ, Johnson AD Epigenetic properties of white-opaque switching in Candida albicans are based on a self-sustaining transcriptional feedback loop. Proc Natl Acad Sci USA 2006, 103:12807-12812.
98. Zordan RE, Miller MG, Galgoczy DJ, Tuch BB, Johnson AD Interlocking transcriptional feedback loops control white-opaque switching in Candida albicans. PLoS Biol 2007, 5:e256.
99. Sonneborn A, Tebarth B, Ernst JF Control of white-opaque phenotypic switching in Candida albicans by the Efg1p morphogenetic regulator. Infect Immun 1999, 67:4655-4660.
100. Perez-Martin J, Uria JA, Johnson AD Phenotypic switching in Candida albicans is controlled by a SIR2 gene. Embo J 1999, 18:2580-2592.
101. Klar AJ, Srikantha T, Soll DR A histone deacetylation inhibitor and mutant promote colony-type switching of the human pathogen Candida albicans. Genetics 2001, 158:919-924.
102. Srikantha T, Tsai L, Daniels K, Klar AJ, Soll DR The histone deacetylase genes HDA1 and RPD3 play distinct roles in regulation of high-frequency phenotypic switching in Candida albicans. J Bacteriol 2001, 183:4614-4625.
103. Rikkerink EH, Magee BB, Magee PT Opaque-white phenotype transition: a programmed morphological transition in Candida albicans. J Bacteriol 1988, 170:895-899.
104. Huang G, Srikantha T, Sahni N, Yi S, Soll DR CO(2) regulates white-to-opaque switching in Candida albicans. Curr Biol 2009, 19:330-334.
105. Ramirez-Zavala B, Reuss O, Park YN, Ohlsen K, Morschhauser J Environmental induction of white-opaque switching in Candida albicans. PLoS Pathog 2008, 4:e1000089.
106. Alby K, Bennett R Stress-induced phenotypic switching in Candida albicans. Mol Biol Cell 2009, 20:3178-3191.
107. Lockshon D A heritable structural alteration of the yeast mitochondrion. Genetics 2002, 161:1425-1435.
108. Malagnac F, Silar P Regulation, cell differentiation and protein-based inheritance. Cell Cycle 2006, 5:2584-2587.
109. Blagosklonny MV Molecular theory of cancer. Cancer Biol Ther 2005, 4:621-627.
110. Sparrer HE, Santoso A, Szoka FC, Weissman JS Evidence for the prion hypothesis: induction of the yeast [PSI+] factor by in vitro-converted Sup35 protein. Science 2000, 289:595-599.
111. Tanaka M, Chien P, Naber N, Cooke R, Weissman JS Conformational variations in an infectious protein determine prion strain differences. Nature 2004, 428:323-328.
112. Brachmann A, Baxa U, Wickner RB Prion generation in vitro: amyloid of Ure2p is infectious. Embo J 2005, 24:3082-3092.
113. Patel BK, Liebman SW "Prion-proof" for [PIN+]: infection with in vitro-made amyloid aggregates of Rnq1p-(132-405) induces [PIN+. J Mol Biol 2007, 365:773-782.
114. Du Z, Park KW, Yu H, Fan Q, Li L Newly identified prion linked to the chromatin-remodeling factor Swi1 in Saccharomyces cerevisiae. Nat Genet 2008, 40:460-465.
115. Patel BK, Gavin-Smyth J, Liebman SW The yeast global transcriptional co-repressor protein Cyc8 can propagate as a prion. Nat Cell Biol 2009, 11:344-349.
116. Brown JC, Lindquist S A heritable switch in carbon source utilization driven by an unusual yeast prion. Genes Dev 2009, 23:2320-2332.
117. 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.