메뉴 건너뛰기




Volumn 3, Issue , 2008, Pages

The evolution of strand preference in simulated RNA replicators with strand displacement: Implications for the origin of transcription

Author keywords

[No Author keywords available]

Indexed keywords

DOUBLE STRANDED RNA;

EID: 61749091147     PISSN: None     EISSN: 17456150     Source Type: Journal    
DOI: 10.1186/1745-6150-3-33     Document Type: Article
Times cited : (14)

References (43)
  • 1
    • 0002146655 scopus 로고    scopus 로고
    • Re-creating an RNA replicase
    • Cold Spring Harbor:Cold Spring Harbor Laboratory Press Gesteland RF, Cech TR, Atkins JF 2
    • Bartel DP Re-creating an RNA replicase The RNA world Cold Spring Harbor:COld Spring Harbor Laboratory Press Gesteland RF, Cech TR, Atkins JF 2 1998:143-162.
    • (1998) The RNA World , pp. 143-162
    • Bartel, D.P.1
  • 2
    • 0346750657 scopus 로고    scopus 로고
    • An overlooked riddle of life's origins: Energy-dependent nucleic acid unzipping
    • 10.1007/s00239-003-0026-z 15008415
    • Kováč L Nosek J Tamáška L An overlooked riddle of life's origins: Energy-dependent nucleic acid unzipping J Mol Evol 2003, 57:S182-S189. 10.1007/s00239-003-0026-z 15008415
    • (2003) J Mol Evol , vol.57
    • Kováč, L.1    Nosek, J.2    Tamáška, L.3
  • 3
    • 0018406819 scopus 로고
    • Competitive coexistence of self-reproducing macromolecules
    • 10.1016/0022-5193(79)90269-8 491716
    • Epstein IR Competitive coexistence of self-reproducing macromolecules J Theor Biol 1979, 78:271-298. 10.1016/0022-5193(79)90269-8 491716
    • (1979) J Theor Biol , vol.78 , pp. 271-298
    • Epstein, I.R.1
  • 4
    • 0022384429 scopus 로고
    • Kinetics of RNA replication: Competition and selection among self-replicating RNA species
    • 10.1021/bi00344a037 2417621
    • Biebricher CK Eigen M Gardiner WC Jr Kinetics of RNA replication: competition and selection among self-replicating RNA species Biochemistry 1985, 24:6550-6560. 10.1021/bi00344a037 2417621
    • (1985) Biochemistry , vol.24 , pp. 6550-6560
    • Biebricher, C.K.1    Eigen, M.2    Gardiner Jr., W.C.3
  • 5
    • 0024377957 scopus 로고
    • Sub-exponential growth and coexistence of non-enzymatically replicating templates
    • 10.1016/S0022-5193(89)80177-8 2483243
    • Szathmáry E Gladkih I Sub-exponential growth and coexistence of non-enzymatically replicating templates J Theor Biol 1989, 138:55-58. 10.1016/S0022-5193(89)80177-8 2483243
    • (1989) J Theor Biol , vol.138 , pp. 55-58
    • Szathmáry, E.1    Gladkih, I.2
  • 6
    • 0032213787 scopus 로고    scopus 로고
    • Selection dynamics in autocatalytic systems: Templates replicating through binary ligation
    • 10.1016/S0092-8240(98)90003-9 9866451
    • Wills PR Kauffman SA Stadler BMR Stadler PF Selection dynamics in autocatalytic systems: Templates replicating through binary ligation Bull Math Biol 1998, 60:1073-1098. 10.1016/S0092-8240(98)90003-9 9866451
    • (1998) Bull Math Biol , vol.60 , pp. 1073-1098
    • Wills, P.R.1    Kauffman, S.A.2    Stadler, B.M.R.3    Stadler, P.F.4
  • 7
    • 0033592246 scopus 로고    scopus 로고
    • A model of prebiotic replication: Survival of the fittest versus extinction of the unfittest
    • 10.1006/jtbi.1999.0969 10441460
    • Lifson S Lifson H A model of prebiotic replication: Survival of the fittest versus extinction of the unfittest J Theor Biol 1999, 199:425-433. 10.1006/jtbi.1999.0969 10441460
    • (1999) J Theor Biol , vol.199 , pp. 425-433
    • Lifson, S.1    Lifson, H.2
  • 8
    • 0001322265 scopus 로고    scopus 로고
    • Selection versus coexistence of parabolic replicators spreading on surfaces
    • 10.1556/Select.1.2000.1-3.17
    • von Kiedrowski G Szathmáry E Selection versus coexistence of parabolic replicators spreading on surfaces Selection 2000, 1:173-179. 10.1556/Select.1.2000.1-3.17
    • (2000) Selection , vol.1 , pp. 173-179
    • von Kiedrowski, G.1    Szathmáry, E.2
  • 9
    • 0035823234 scopus 로고    scopus 로고
    • Survival of replicators with parabolic growth tendency and exponential decay
    • 10.1006/jtbi.2001.2360 11527448
    • Scheuring I Szathmáry E Survival of replicators with parabolic growth tendency and exponential decay J Theor Biol 2001, 212:99-105. 10.1006/jtbi.2001.2360 11527448
    • (2001) J Theor Biol , vol.212 , pp. 99-105
    • Scheuring, I.1    Szathmáry, E.2
  • 10
    • 33845462003 scopus 로고    scopus 로고
    • Protocells: Genetic polymers inside membrane vesicles
    • Cold Spring Harbor: Cold Spring Harbor Laboratory Press Gesteland RF, Cech TR, Atkins JF 3
    • Chen IA Hanczyc MM Sazani PL Szostak JW Protocells: Genetic polymers inside membrane vesicles The RNA world Cold Spring Harbor: Cold Spring Harbor Laboratory Press Gesteland RF, Cech TR, Atkins JF 3 2006:57-88.
    • (2006) The RNA World , pp. 57-88
    • Chen, I.A.1    Hanczyc, M.M.2    Sazani, P.L.3    Szostak, J.W.4
  • 11
    • 44249094377 scopus 로고    scopus 로고
    • Evolution of complexity in RNA-like replicator systems
    • 2390529 18371199 10.1186/1745-6150-3-11
    • Takeuchi N Hogeweg P Evolution of complexity in RNA-like replicator systems Biol Direct 2008, 3:11. 2390529 18371199 10.1186/1745-6150-3-11
    • (2008) Biol Direct , vol.3 , pp. 11
    • Takeuchi, N.1    Hogeweg, P.2
  • 12
    • 18744431786 scopus 로고    scopus 로고
    • Evolutionary stabilization of generous replicases by complex formation
    • 10.1140/epjb/e2004-00105-2
    • Füchslin RM Altmeyer S McCaskill JS Evolutionary stabilization of generous replicases by complex formation Eur Phys J B 2004, 38:103-110. 10.1140/epjb/e2004-00105-2
    • (2004) Eur Phys J B , vol.38 , pp. 103-110
    • Füchslin, R.M.1    Altmeyer, S.2    McCaskill, J.S.3
  • 13
    • 0542432939 scopus 로고
    • A theory of group selection
    • 432258 1054490 10.1073/pnas.72.1.143
    • Wilson DS A theory of group selection Proc Natl Acad Sci USA 1975, 72:143-146. 432258 1054490 10.1073/pnas.72.1.143
    • (1975) Proc Natl Acad Sci USA , vol.72 , pp. 143-146
    • Wilson, D.S.1
  • 14
    • 0017030517 scopus 로고
    • A general method for numerically simulating the stochastic time evolution of coupled chemical reactions
    • 10.1016/0021-9991(76)90041-3
    • Gillespie DT A general method for numerically simulating the stochastic time evolution of coupled chemical reactions J Comput Phys 1976, 22:403-434. 10.1016/0021-9991(76)90041-3
    • (1976) J Comput Phys , vol.22 , pp. 403-434
    • Gillespie, D.T.1
  • 15
    • 0020865570 scopus 로고
    • Population biology of the first replicators: On the origin of the genotype, phenotype and organism
    • Michod RE Population biology of the first replicators: On the origin of the genotype, phenotype and organism Am Zool 1983, 23:5-14.
    • (1983) Am Zool , vol.23 , pp. 5-14
    • Michod, R.E.1
  • 16
    • 0028552640 scopus 로고
    • Stochastic spatial models: A user's guide to ecological applications
    • 10.1098/rstb.1994.0028
    • Durrett R Levin SA Stochastic spatial models: A user's guide to ecological applications Phil Trans R Soc Lond B 1994, 343:329-350. 10.1098/rstb.1994.0028
    • (1994) Phil Trans R Soc Lond B , vol.343 , pp. 329-350
    • Durrett, R.1    Levin, S.A.2
  • 17
    • 0035230816 scopus 로고    scopus 로고
    • The effect of secondary structure on cleavage of the phosphodiester bonds of RNA
    • 10.1385/CBB:34:1:95
    • Mikkola S Kaukinen U Lönnberg H The effect of secondary structure on cleavage of the phosphodiester bonds of RNA Cell Biochem and Biophys 2001, 34:95-119. 10.1385/CBB:34:1:95
    • (2001) Cell Biochem and Biophys , vol.34 , pp. 95-119
    • Mikkola, S.1    Kaukinen, U.2    Lönnberg, H.3
  • 18
    • 0033595250 scopus 로고    scopus 로고
    • On the origin of species by sympatric speciation
    • 10.1038/22521 10432112
    • Dieckmann U Doebeli M On the origin of species by sympatric speciation Nature 1999, 400:354-357. 10.1038/22521 10432112
    • (1999) Nature , vol.400 , pp. 354-357
    • Dieckmann, U.1    Doebeli, M.2
  • 19
    • 37549070647 scopus 로고    scopus 로고
    • The role of complex formation and deleterious mutations for the stability of RNA-like replicator systems
    • 10.1007/s00239-007-9044-6 17955153
    • Takeuchi N Hogeweg P The role of complex formation and deleterious mutations for the stability of RNA-like replicator systems J Mol Evol 2007, 65:668-686. 10.1007/s00239-007-9044-6 17955153
    • (2007) J Mol Evol , vol.65 , pp. 668-686
    • Takeuchi, N.1    Hogeweg, P.2
  • 20
    • 0035906978 scopus 로고    scopus 로고
    • RNA-catalyzed RNA polymerization: Accurate and general RNA-templated primer extension
    • 10.1126/science.1060786 11358999
    • Johnston WK Unrau PJ Lawrence MS Glasner ME Bartel DP RNA-catalyzed RNA polymerization: Accurate and general RNA-templated primer extension Science 2001, 292:1319-1325. 10.1126/science.1060786 11358999
    • (2001) Science , vol.292 , pp. 1319-1325
    • Johnston, W.K.1    Unrau, P.J.2    Lawrence, M.S.3    Glasner, M.E.4    Bartel, D.P.5
  • 21
    • 34250860849 scopus 로고    scopus 로고
    • Selection of an improved RNA polymerase ribozyme with superior extension and fidelity
    • 1894930 17586759 10.1261/rna.548807
    • Zaher HS Unrau PJ Selection of an improved RNA polymerase ribozyme with superior extension and fidelity RNA 2007, 13:1017-1026. 1894930 17586759 10.1261/rna.548807
    • (2007) RNA , vol.13 , pp. 1017-1026
    • Zaher, H.S.1    Unrau, P.J.2
  • 22
    • 40449092294 scopus 로고    scopus 로고
    • Improved polymerase ribozyme efficiency on hydrophobic assemblies
    • 10.1261/rna.494508 18230767 2248263
    • Muller UF Bartel DP Improved polymerase ribozyme efficiency on hydrophobic assemblies RNA 2008, 14:552-562. 10.1261/rna.494508 18230767 2248263
    • (2008) RNA , vol.14 , pp. 552-562
    • Muller, U.F.1    Bartel, D.P.2
  • 23
    • 44949280567 scopus 로고
    • Spiral wave structure in pre-biotic evolution: Hypercycles stable against parasites
    • 10.1016/0167-2789(91)90049-F
    • Boerlijst MC Hogeweg P Spiral wave structure in pre-biotic evolution: Hypercycles stable against parasites Physica D 1991, 48:17-28. 10.1016/ 0167-2789(91)90049-F
    • (1991) Physica D , vol.48 , pp. 17-28
    • Boerlijst, M.C.1    Hogeweg, P.2
  • 24
    • 0037153134 scopus 로고    scopus 로고
    • In silico simulations reveal that replicators with limited dispersal evolve towards higher efficiency and fidelity
    • 10.1038/nature01187 12447445
    • Szabó P Scheruing I Czárán T Szathmáry E In silico simulations reveal that replicators with limited dispersal evolve towards higher efficiency and fidelity Nature 2002, 420:340-343. 10.1038/ nature01187 12447445
    • (2002) Nature , vol.420 , pp. 340-343
    • Szabó, P.1    Scheruing, I.2    Czárán, T.3    Szathmáry, E.4
  • 25
    • 0019449079 scopus 로고
    • Enhancement of peptide bond formation by polyribonucleotides on clay surfaces in fluctuating environments
    • 10.1007/BF01792420
    • White DH Erickson JC Enhancement of peptide bond formation by polyribonucleotides on clay surfaces in fluctuating environments J Mol Evol 1981, 17:19-26. 10.1007/BF01792420
    • (1981) J Mol Evol , vol.17 , pp. 19-26
    • White, D.H.1    Erickson, J.C.2
  • 26
    • 0029876064 scopus 로고    scopus 로고
    • Synthesis of long prebiotic oligomers on mineral surfaces
    • 10.1038/381059a0 8609988
    • Ferris JP Hill AR Jr Liu R Orgel LE Synthesis of long prebiotic oligomers on mineral surfaces Nature 1996, 381:59-61. 10.1038/381059a0 8609988
    • (1996) Nature , vol.381 , pp. 59-61
    • Ferris, J.P.1    Hill Jr., A.R.2    Liu, R.3    Orgel, L.E.4
  • 27
    • 33846414371 scopus 로고    scopus 로고
    • Looking for the primordial genetic honeycomb
    • 10.1007/s11084-006-9054-1 17136428
    • Gallori E Biondi E Branciamore S Looking for the primordial genetic honeycomb Orig Life Evol Biosph 2006, 36:493-499. 10.1007/ s11084-006-9054-1 17136428
    • (2006) Orig Life Evol Biosph , vol.36 , pp. 493-499
    • Gallori, E.1    Biondi, E.2    Branciamore, S.3
  • 28
    • 0024254814 scopus 로고
    • Before enzymes and templates: Theory of surface metabolism
    • 3070320 373159
    • Wächtershäuser G Before enzymes and templates: Theory of surface metabolism Microbiol Rev 1988, 52(4):452-484. 3070320 373159
    • (1988) Microbiol Rev , vol.52 , Issue.4 , pp. 452-484
    • Wächtershäuser, G.1
  • 29
    • 0025887477 scopus 로고
    • Two-dimensional life?
    • 52857 11538487 10.1073/pnas.88.22.10014
    • de Duve C Miller SL Two-dimensional life? Proc Natl Acad Sci USA 1991, 88:10014-10017. 52857 11538487 10.1073/pnas.88.22.10014
    • (1991) Proc Natl Acad Sci USA , vol.88 , pp. 10014-10017
    • de Duve, C.1    Miller, S.L.2
  • 30
    • 0030563176 scopus 로고    scopus 로고
    • Primordial soup or crêpes?
    • 10.1038/381020a0 8609978
    • von Kiedrowski G Primordial soup or crêpes? Nature 1996, 381:20-21. 10.1038/381020a0 8609978
    • (1996) Nature , vol.381 , pp. 20-21
    • von Kiedrowski, G.1
  • 31
    • 33646080332 scopus 로고    scopus 로고
    • Progress toward understanding the origins of the RNA world
    • Cold Spring Harbor: Cold Spring Harbor Laboratory Press Gesteland RF, Cech TR, Atkins JF 3
    • Joyce GF Orgel LE Progress toward understanding the origins of the RNA world The RNA world Cold Spring Harbor: Cold Spring Harbor Laboratory Press Gesteland RF, Cech TR, Atkins JF 3 2006:23-56.
    • (2006) The RNA World , pp. 23-56
    • Joyce, G.F.1    Orgel, L.E.2
  • 32
    • 43849094337 scopus 로고    scopus 로고
    • Adsorption and polymerization of amino acids on mineral surfaces: A review
    • 10.1007/s11084-008-9128-3 18344011
    • Lambert JF Adsorption and polymerization of amino acids on mineral surfaces: A review Orig Life Evol Biosph 2008, 38:211-242. 10.1007/ s11084-008-9128-3 18344011
    • (2008) Orig Life Evol Biosph , vol.38 , pp. 211-242
    • Lambert, J.F.1
  • 33
    • 0001639994 scopus 로고
    • Selfstructuring and selection: Spiral waves as a substrate for prebiotic evolution
    • Massachusetts: Addison Wesley Langton CG, Taylor C, Farmer JD, Rasmussen S
    • Boerlijst MA Hogeweg P Selfstructuring and selection: Spiral waves as a substrate for prebiotic evolution Artificial Life II Massachusetts: Addison Wesley Langton CG, Taylor C, Farmer JD, Rasmussen S 1991:255-276.
    • (1991) Artificial Life II , pp. 255-276
    • Boerlijst, M.A.1    Hogeweg, P.2
  • 34
    • 0031558475 scopus 로고    scopus 로고
    • Self-reinforcing spatial patterns enslave evolution in a host-parasitoid system
    • 10.1006/jtbi.1997.0448 9299306
    • Savill NJ Rohani P Hogeweg P Self-reinforcing spatial patterns enslave evolution in a host-parasitoid system J Theor Biol 1997, 188:11-20. 10.1006/jtbi.1997.0448 9299306
    • (1997) J Theor Biol , vol.188 , pp. 11-20
    • Savill, N.J.1    Rohani, P.2    Hogeweg, P.3
  • 35
    • 0033865292 scopus 로고    scopus 로고
    • Individual- and population-based diversity in restriction-modification systems
    • 10.1006/bulm.2000.0177 10938631
    • Pagie L Hogeweg P Individual- and population-based diversity in restriction-modification systems Bull Math Biol 2000, 62:759-774. 10.1006/bulm.2000.0177 10938631
    • (2000) Bull Math Biol , vol.62 , pp. 759-774
    • Pagie, L.1    Hogeweg, P.2
  • 36
    • 11144237747 scopus 로고    scopus 로고
    • Emergent trade-offs and selection for outbreak frequency in spatial epidemics
    • 539754 15604150 10.1073/pnas.0405682101
    • van Ballegooijen WM Boerlijst MC Emergent trade-offs and selection for outbreak frequency in spatial epidemics Proc Natl Acad Sci USA 2004, 101:18246-18250. 539754 15604150 10.1073/pnas.0405682101
    • (2004) Proc Natl Acad Sci USA , vol.101 , pp. 18246-18250
    • van Ballegooijen, W.M.1    Boerlijst, M.C.2
  • 37
    • 38649125925 scopus 로고    scopus 로고
    • Self-structuring in spatial evolutionary ecology
    • 10.1111/j.1461-0248.2007.01132.x 18070102
    • Lion S van Baalen M Self-structuring in spatial evolutionary ecology Ecol Lett 2008, 11:277-295. 10.1111/j.1461-0248.2007.01132.x 18070102
    • (2008) Ecol Lett , vol.11 , pp. 277-295
    • Lion, S.1    van Baalen, M.2
  • 38
    • 0000638214 scopus 로고
    • Tempo and mode in evolution: Acritical review
    • 10.2307/1931666
    • Wright S Tempo and mode in evolution: Acritical review Ecology 1945, 26:415-419. 10.2307/1931666
    • (1945) Ecology , vol.26 , pp. 415-419
    • Wright, S.1
  • 39
    • 0023661947 scopus 로고
    • Group selection of early replicators and the origin of life
    • 10.1016/S0022-5193(87)80191-1 2451771
    • Szathmáry E Demeter L Group selection of early replicators and the origin of life J Theor Biol 1987, 128:463-486. 10.1016/ S0022-5193(87)80191-1 2451771
    • (1987) J Theor Biol , vol.128 , pp. 463-486
    • Szathmáry, E.1    Demeter, L.2
  • 40
    • 33644620554 scopus 로고    scopus 로고
    • Coexistence and error propagation in pre-biotic vesicle models: A group selection approach
    • 10.1016/j.jtbi.2005.08.039 16243358
    • Fontanari JF Santos M Szathmáry E Coexistence and error propagation in pre-biotic vesicle models: A group selection approach J Theor Biol 2006, 239:247-256. 10.1016/j.jtbi.2005.08.039 16243358
    • (2006) J Theor Biol , vol.239 , pp. 247-256
    • Fontanari, J.F.1    Santos, M.2    Szathmáry, E.3
  • 41
    • 0142135399 scopus 로고    scopus 로고
    • Multilevel selection in models of prebiotic evolution: Compartments and spatial self-organization
    • 10.1023/A:1025754907141 14604183
    • Hogeweg P Takeuchi N Multilevel selection in models of prebiotic evolution: Compartments and spatial self-organization Orig Life Evol Biosph 2003, 33:375-403. 10.1023/A:1025754907141 14604183
    • (2003) Orig Life Evol Biosph , vol.33 , pp. 375-403
    • Hogeweg, P.1    Takeuchi, N.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.