Gerald Joyce

Professor

Jack H. Skirball Center for Chemical Biology and Proteomics

Salk Institute for Biological Studies - Publications

all Publications


2019

Horning, D.P., Bala, S., Chaput, J.C., Joyce, G.F. RNA-Catalyzed Polymerization of Deoxyribose, Threose, and Arabinose Nucleic Acids. (2019) ACS Synthetic Biology. 8(5):955-961. DOI: 10.1021/acssynbio.9b00044

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Pressman, A.D., Liu, Z., Janzen, E., Blanco, C., Müller, U.F., Joyce, G.F., Pascal, R., Chen, I.A. Mapping a systematic ribozyme fitness landscape reveals a frustrated evolutionary network for self-aminoacylating RNA. (2019) Journal of the American Chemical Society. DOI: 10.1021/jacs.8b13298

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2018

Joyce, G.F., Szostak, J.W. Protocells and RNA Self-Replication. (2018) Cold Spring Harbor Perspectives in Biology. 10(9). DOI: 10.1101/cshperspect.a034801

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Samanta, B., Horning, D.P., Joyce, G.F. 3'-End labeling of nucleic acids by a polymerase ribozyme. (2018) Nucleic Acids Res. DOI: 10.1093/nar/gky513

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2017

Joyce, G.F., Samanta, B. A reverse transcriptase ribozyme. (2017) Elife. 6. DOI: 10.7554/eLife.31153

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2016

Olea, C., Joyce, G.F. Real-Time Detection of a Self-Replicating RNA Enzyme. (2016) Molecules. 21(10). DOI: 10.3390/molecules21101310

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Horning, D.P., Joyce, G.F. Amplification of RNA by an RNA polymerase ribozyme. (2016) Proceedings of the National Academy of Sciences of the United States of America. 113(35):9786-91. DOI: 10.1073/pnas.1610103113

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2015

Sczepanski, J.T., Joyce, G.F. Specific Inhibition of MicroRNA Processing Using L-RNA Aptamers. (2015) Journal of the American Chemical Society. 137(51):16032-7. DOI: 10.1021/jacs.5b06696

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Joyce, G.F. Reflections of a Darwinian Engineer. (2015) Journal of Molecular Evolution. 81(5-6):146-9. DOI: 10.1007/s00239-015-9724-6


Olea, C., Weidmann, J., Dawson, P.E., Joyce, G.F. An L-RNA Aptamer that Binds and Inhibits RNase. (2015) Chemistry & Biology. 22(11):1437-1441. DOI: 10.1016/j.chembiol.2015.09.017

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Olea, C., Joyce, G.F. Ligand-dependent exponential amplification of self-replicating RNA enzymes. (2015) Meth. Enzymol. 550:23-39. DOI: 10.1016/bs.mie.2014.10.030

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2014

Sczepanski, J.T., Joyce, G.F. A cross-chiral RNA polymerase ribozyme. (2014) Nature. 515(7527):440-2. DOI: 10.1038/nature13900

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Petrie, K.L., Joyce, G.F. Limits of neutral drift: lessons from the in vitro evolution of two ribozymes. (2014) J. Mol. Evol. 79(3-4):75-90. DOI: 10.1007/s00239-014-9642-z

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Breaker, R.R., Joyce, G.F. The expanding view of RNA and DNA function. (2014) Chemistry & Biology. 21(9):1059-65. DOI: 10.1016/j.chembiol.2014.07.008

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Robertson, M.P., Joyce, G.F. Highly efficient self-replicating RNA enzymes. (2014) Chemistry & Biology. 21(2):238-45. DOI: 10.1016/j.chembiol.2013.12.004

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2013

Sczepanski, J.T., Joyce, G.F. Binding of a structured D-RNA molecule by an L-RNA aptamer. (2013) Journal of the American Chemical Society. 135(36):13290-3. DOI: 10.1021/ja406634g

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Ferretti, A.C., Joyce, G.F. Kinetic properties of an RNA enzyme that undergoes self-sustained exponential amplification. (2013) Biochemistry. 52(7):1227-35. DOI: 10.1021/bi301646n

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2012

Sczepanski, J.T., Joyce, G.F. Synthetic evolving systems that implement a user-specified genetic code of arbitrary design. (2012) Chemistry & Biology. 19(10):1324-32. DOI: 10.1016/j.chembiol.2012.08.017

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Joyce, G.F. Bit by bit: the Darwinian basis of life. (2012) PLOS Biology. 10(5):e1001323. DOI: 10.1371/journal.pbio.1001323

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Olea, C., Horning, D.P., Joyce, G.F. Ligand-dependent exponential amplification of a self-replicating L-RNA enzyme. (2012) Journal of the American Chemical Society. 134(19):8050-3. DOI: 10.1021/ja302197x

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Joyce, G.F. Evolution. Toward an alternative biology. (2012) Science. 336(6079):307-8. DOI: 10.1126/science.1221724


2011

Lam, B.J., Joyce, G.F. An isothermal system that couples ligand-dependent catalysis to ligand-independent exponential amplification. (2011) Journal of the American Chemical Society. 133(9):3191-7. DOI: 10.1021/ja111136d

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2010

Petrie, K.L., Joyce, G.F. Deep sequencing analysis of mutations resulting from the incorporation of dNTP analogs. (2010) Nucleic Acids Res. 38(22):8095-104. DOI: 10.1093/nar/gkq685

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Paegel, B.M., Joyce, G.F. Microfluidic compartmentalized directed evolution. (2010) Chemistry & Biology. 17(7):717-24. DOI: 10.1016/j.chembiol.2010.05.021

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2009

Joyce, G.F. Evolution in an RNA world. (2009) Cold Spring Harbor Symposia on Quantitative Biology. 74:17-23. DOI: 10.1101/sqb.2009.74.004

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Voytek, S.B., Joyce, G.F. Niche partitioning in the coevolution of 2 distinct RNA enzymes. (2009) Proceedings of the National Academy of Sciences of the United States of America. 106(19):7780-5. DOI: 10.1073/pnas.0903397106

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Lam, B.J., Joyce, G.F. Autocatalytic aptazymes enable ligand-dependent exponential amplification of RNA. (2009) Nature Biotechnology. 27(3):288-92. DOI: 10.1038/nbt.1528

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Lincoln, T.A., Joyce, G.F. Self-sustained replication of an RNA enzyme. (2009) Science. 323(5918):1229-32. DOI: 10.1126/science.1167856

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2008

Paegel, B.M., Joyce, G.F. Darwinian evolution on a chip. (2008) PLOS Biology. 6(4):e85. DOI: 10.1371/journal.pbio.0060085

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2007

Joyce, G.F. Obituary: Leslie Orgel (1927-2007). (2007) Nature. 450(7170):627. DOI: 10.1038/450627a


Voytek, S.B., Joyce, G.F. Emergence of a fast-reacting ribozyme that is capable of undergoing continuous evolution. (2007) Proceedings of the National Academy of Sciences of the United States of America. 104(39):15288-93. DOI: 10.1073/pnas.0707490104

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Joyce, G.F. Forty years of in vitro evolution. (2007) Angew. Chem. Int. Ed. Engl. 46(34):6420-36. DOI: 10.1002/anie.200701369

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Joyce, G.F. Structural biology. A glimpse of biology's first enzyme. (2007) Science. 315(5818):1507-8. DOI: 10.1126/science.1140736


2006

Paegel, B.M., Grover, W.H., Skelley, A.M., Mathies, R.A., Joyce, G.F. Microfluidic serial dilution circuit. (2006) Analytical Chemistry. 78(21):7522-7. DOI: 10.1021/ac0608265

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Paul, N., Springsteen, G., Joyce, G.F. Conversion of a ribozyme to a deoxyribozyme through in vitro evolution. (2006) Chemistry & Biology. 13(3):329-38. DOI: 10.1016/j.chembiol.2006.01.007

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2005

Oberhuber, M., Joyce, G.F. A DNA-templated aldol reaction as a model for the formation of pentose sugars in the RNA world. (2005) Angewandte Chemie. 44(46):7580-3. DOI: 10.1002/anie.200503387


Johns, G.C., Joyce, G.F. The promise and peril of continuous in vitro evolution. (2005) J. Mol. Evol. 61(2):253-63. DOI: 10.1007/s00239-004-0307-1

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2004

Paul, N., Joyce, G.F. Minimal self-replicating systems. (2004) Current Opinion in Chemical Biology. 8(6):634-9. DOI: 10.1016/j.cbpa.2004.09.005

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Kim, D.E., Joyce, G.F. Cross-catalytic replication of an RNA ligase ribozyme. (2004) Chemistry & Biology. 11(11):1505-12. DOI: 10.1016/j.chembiol.2004.08.021

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Springsteen, G., Joyce, G.F. Selective derivatization and sequestration of ribose from a prebiotic mix. (2004) Journal of the American Chemical Society. 126(31):9578-83. DOI: 10.1021/ja0483692

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Joyce, G.F. Directed evolution of nucleic acid enzymes. (2004) Annual Review of Biochemistry. 73:791-836. DOI: 10.1146/annurev.biochem.73.011303.073717

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Shih, W.M., Quispe, J.D., Joyce, G.F. A 1.7-kilobase single-stranded DNA that folds into a nanoscale octahedron. (2004) Nature. 427(6975):618-21. DOI: 10.1038/nature02307

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2003

Kühne, H., Joyce, G.F. Continuous in vitro evolution of ribozymes that operate under conditions of extreme pH. (2003) J. Mol. Evol. 57(3):292-8. DOI: 10.1007/s00239-003-2480-z

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Kumar, R.M., Joyce, G.F. A modular, bifunctional RNA that integrates itself into a target RNA. (2003) Proceedings of the National Academy of Sciences of the United States of America. 100(17):9738-43. DOI: 10.1073/pnas.1334190100

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Kuhns, S.T., Joyce, G.F. Perfectly complementary nucleic acid enzymes. (2003) J. Mol. Evol. 56(6):711-7. DOI: 10.1007/s00239-002-2445-7

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McGinness, K.E., Joyce, G.F. In search of an RNA replicase ribozyme. (2003) Chemistry & Biology. 10(1):5-14.

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Paul, N., Joyce, G.F. Self-replication. (2003) Current Biology. 13(2):R46.


2002

Reader, J.S., Joyce, G.F. A ribozyme composed of only two different nucleotides. (2002) Nature. 420(6917):841-4. DOI: 10.1038/nature01185

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Joyce, G.F. Molecular evolution: booting up life. (2002) Nature. 420(6913):278-9. DOI: 10.1038/420278a


Ordoukhanian, P., Joyce, G.F. RNA-cleaving DNA enzymes with altered regio- or enantioselectivity. (2002) Journal of the American Chemical Society. 124(42):12499-506.

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Paul, N., Joyce, G.F. A self-replicating ligase ribozyme. (2002) Proceedings of the National Academy of Sciences of the United States of America. 99(20):12733-40. DOI: 10.1073/pnas.202471099

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Joyce, G.F. The antiquity of RNA-based evolution. (2002) Nature. 418(6894):214-21. DOI: 10.1038/418214a

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McGinness, K.E., Wright, M.C., Joyce, G.F. Continuous in vitro evolution of a ribozyme that catalyzes three successive nucleotidyl addition reactions. (2002) Chemistry & Biology. 9(5):585-96.

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McGinness, K.E., Joyce, G.F. RNA-catalyzed RNA ligation on an external RNA template. (2002) Chemistry & Biology. 9(3):297-307.

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McGinness, K.E., Joyce, G.F. Substitution of ribonucleotides in the T7 RNA polymerase promoter element. (2002) Journal of Biological Chemistry. 277(4):2987-91. DOI: 10.1074/jbc.M108820200

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2001

Rogers, J., Joyce, G.F. The effect of cytidine on the structure and function of an RNA ligase ribozyme. (2001) RNA. 7(3):395-404.

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Joyce, G.F. RNA cleavage by the 10-23 DNA enzyme. (2001) Meth. Enzymol. 341:503-17.


2000

Sheppard, T.L., Wong, C.H., Joyce, G.F. Nucleoglycoconjugates: design and synthesis of a new class of DNA-carbohydrate conjugates. (2000) Angewandte Chemie. 39(20):3660-3.


Dai, X., Joyce, G.F. In vitro evolution of a ribozyme that contains 5-bromouridine. (2000) Helv. Chim. Acta. 83(8):1701-10. DOI: 10.1002/1522-2675(20000809)83:8<1701::AID-HLCA1701

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Joyce, G.F. RNA structure. Ribozyme evolution at the crossroads. (2000) Science. 289(5478):401-2.

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Sheppard, T.L., Ordoukhanian, P., Joyce, G.F. A DNA enzyme with N-glycosylase activity. (2000) Proceedings of the National Academy of Sciences of the United States of America. 97(14):7802-7.

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Nowakowski, J., Shim, P.J., Stout, C.D., Joyce, G.F. Alternative conformations of a nucleic acid four-way junction. (2000) Journal of Molecular Biology. 300(1):93-102. DOI: 10.1006/jmbi.2000.3826

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Santoro, S.W., Joyce, G.F., Sakthivel, K., Gramatikova, S., Barbas CF 3rd. RNA cleavage by a DNA enzyme with extended chemical functionality. (2000) Journal of the American Chemical Society. 122(11):2433-9.

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1999

Ordoukhanian, P., Joyce, G.F. A molecular description of the evolution of resistance. (1999) Chemistry & Biology. 6(12):881-9.

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Jaeger, L., Wright, M.C., Joyce, G.F. A complex ligase ribozyme evolved in vitro from a group I ribozyme domain. (1999) Proceedings of the National Academy of Sciences of the United States of America. 96(26):14712-7.

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Rogers, J., Joyce, G.F. A ribozyme that lacks cytidine. (1999) Nature. 402(6759):323-5. DOI: 10.1038/46335

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Nowakowski, J., Shim, P.J., Joyce, G.F., Stout, C.D. Crystallization of the 10-23 DNA enzyme using a combinatorial screen of paired oligonucleotides. (1999) Acta Crystallogr. D Biol. Crystallogr. 55(Pt 11):1885-92.

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Joyce, G.F. The counterforce. (1999) Current Biology. 9(14):R500-1.


Nowakowski, J., Shim, P.J., Prasad, G.S., Stout, C.D., Joyce, G.F. Crystal structure of an 82-nucleotide RNA-DNA complex formed by the 10-23 DNA enzyme. (1999) Nature Structural Biology. 6(2):151-6. DOI: 10.1038/5839

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1998

Santoro, S.W., Joyce, G.F. Mechanism and utility of an RNA-cleaving DNA enzyme. (1998) Biochemistry. 37(38):13330-42. DOI: 10.1021/bi9812221

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Joyce, G.F. Nucleic acid enzymes: playing with a fuller deck. (1998) Proceedings of the National Academy of Sciences of the United States of America. 95(11):5845-7.


Joyce, G.F., Orgel, L.E. The origins of life--a status report. (1998) Am Biol Teach. 60(1):10-2.


1997

Joyce, G.F. Evolutionary chemistry: getting there from here. (1997) Science. 276(5319):1658-9.


Joyce, G.F., Still, W.C., Chapman, K.T. Combinatorial chemistry searching for a winning combination (1997) Current Opinion in Chemical Biology. 1(1):3-4.


Santoro, S.W., Joyce, G.F. A general purpose RNA-cleaving DNA enzyme. (1997) Proceedings of the National Academy of Sciences of the United States of America. 94(9):4262-6.

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Hendrix, M., Priestley, E.S., Joyce, G.F., Wong, C.H. Direct observation of aminoglycoside-RNA interactions by surface plasmon resonance. (1997) Journal of the American Chemical Society. 119(16):3641-8.

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Bruick, R.K., Koppitz, M., Joyce, G.F., Orgel, L.E. A simple procedure for constructing 5'-amino-terminated oligodeoxynucleotides in aqueous solution. (1997) Nucleic Acids Res. 25(6):1309-10.

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1996

Tsang, J., Joyce, G.F. Specialization of the DNA-cleaving activity of a group I ribozyme through in vitro evolution. (1996) Journal of Molecular Biology. 262(1):31-42. DOI: 10.1006/jmbi.1996.0496

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Raillard, S.A., Joyce, G.F. Targeting sites within HIV-1 cDNA with a DNA-cleaving ribozyme. (1996) Biochemistry. 35(36):11693-701. DOI: 10.1021/bi960845g

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Joyce, G.F. Building the RNA world. Ribozymes. (1996) Current Biology. 6(8):965-7.

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Tsang, J., Joyce, G.F. In vitro evolution of randomized ribozymes. (1996) Meth. Enzymol. 267:410-26.


Bruick, R.K., Dawson, P.E., Kent, S.B., Usman, N., Joyce, G.F. Template-directed ligation of peptides to oligonucleotides. (1996) Chemistry & Biology. 3(1):49-56.

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1995

Breaker, R.R., Joyce, G.F. A DNA enzyme with Mg(2+)-dependent RNA phosphoesterase activity. (1995) Chemistry & Biology. 2(10):655-60.

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Breaker, R.R., Joyce, G.F. Self-incorporation of coenzymes by ribozymes. (1995) J. Mol. Evol. 40(6):551-8.

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Dai, X., De Mesmaeker, A., Joyce, G.F. Cleavage of an amide bond by a ribozyme. (1995) Science. 267(5195):237-40.

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1994

Breaker, R.R., Joyce, G.F. A DNA enzyme that cleaves RNA. (1994) Chemistry & Biology. 1(4):223-9.

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Chakrabarti, A.C., Breaker, R.R., Joyce, G.F., Deamer, D.W. Production of RNA by a polymerase protein encapsulated within phospholipid vesicles. (1994) J. Mol. Evol. 39(6):555-9.

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Breaker, R.R., Banerji, A., Joyce, G.F. Continuous in vitro evolution of bacteriophage RNA polymerase promoters. (1994) Biochemistry. 33(39):11980-6.

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Breaker, R.R., Joyce, G.F. Inventing and improving ribozyme function: rational design versus iterative selection methods. (1994) Trends in Biotechnology. 12(7):268-75. DOI: 10.1016/0167-7799(94)90138-4

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Breaker, R.R., Joyce, G.F. Emergence of a replicating species from an in vitro RNA evolution reaction. (1994) Proceedings of the National Academy of Sciences of the United States of America. 91(13):6093-7.

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Cadwell, R.C., Joyce, G.F. Mutagenic PCR. (1994) PCR Methods Appl. 3(6):S136-40.


Tsang, J., Joyce, G.F. Evolutionary optimization of the catalytic properties of a DNA-cleaving ribozyme. (1994) Biochemistry. 33(19):5966-73.

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Joyce, G.F. In vitro evolution of nucleic acids. (1994) Current Opinion in Structural Biology. 4:331-6.


1993

Lehman, N., Joyce, G.F. Evolution in vitro: analysis of a lineage of ribozymes. (1993) Current Biology. 3(11):723-34.

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Joyce, G.F. Evolution of catalytic function. (1993) Pure Appl. Chem. 65(6):1205-12.

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Joyce, G.F. Climbing Darwin's ladder. (1993) Current Biology. 3(10):703-4.


Lehman, N., Joyce, G.F. Evolution in vitro of an RNA enzyme with altered metal dependence. (1993) Nature. 361(6408):182-5. DOI: 10.1038/361182a0

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1992

Joyce, G.F. Directed molecular evolution. (1992) Sci. Am. 267(6):90-7.


Cadwell, R.C., Joyce, G.F. Randomization of genes by PCR mutagenesis. (1992) PCR Methods Appl. 2(1):28-33.

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Beaudry, A.A., Joyce, G.F. Directed evolution of an RNA enzyme. (1992) Science. 257(5070):635-41.

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1991

Joyce, G.F. RNA today. Molecular Evolution of Introns and Other RNA Elements: a Keystone Symposium, Taos, NM, USA, February 2-8, 1991. (1991) New Biol. 3(6):565-9.

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Joyce, G.F. The rise and fall of the RNA world. (1991) New Biol. 3(4):399-407.

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1990

Beaudry, A.A., Joyce, G.F. Minimum secondary structure requirements for catalytic activity of a self-splicing group I intron. (1990) Biochemistry. 29(27):6534-9.

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Robertson, D.L., Joyce, G.F. Selection in vitro of an RNA enzyme that specifically cleaves single-stranded DNA. (1990) Nature. 344(6265):467-8. DOI: 10.1038/344467a0

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1989

Joyce, G.F. Amplification, mutation and selection of catalytic RNA. (1989) Gene. 82(1):83-7.

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Joyce, G.F., van der Horst, G., Inoue, T. Catalytic activity is retained in the Tetrahymena group I intron despite removal of the large extension of element P5. (1989) Nucleic Acids Res. 17(19):7879-89.

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Joyce, G.F. RNA evolution and the origins of life. (1989) Nature. 338(6212):217-24. DOI: 10.1038/338217a0

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Joyce, G.F., Inoue, T. A novel technique for the rapid preparation of mutant RNAs. (1989) Nucleic Acids Res. 17(2):711-22.

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1988

Joyce, G.F., Orgel, L.E. Non-enzymatic template-directed synthesis on RNA random copolymers. Poly(C,A) templates. (1988) Journal of Molecular Biology. 202(3):677-81.

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1987

Joyce, G.F., Inoue, T. Structure of the catalytic core of the Tetrahymena ribozyme as indicated by reactive abbreviated forms of the molecule. (1987) Nucleic Acids Res. 15(23):9825-40.

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Joyce, G.F., Schwartz, A.W., Miller, S.L., Orgel, L.E. The case for an ancestral genetic system involving simple analogues of the nucleotides. (1987) Proceedings of the National Academy of Sciences of the United States of America. 84(13):4398-402.

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Joyce, G.F. Nonenzymatic template-directed synthesis of informational macromolecules. (1987) Cold Spring Harbor Symposia on Quantitative Biology. 52:41-51.


1984

Joyce, G.F. Non-enzymatic template-directed synthesis of RNA copolymers. (1984) Orig. Life. 14(1-4):613-20.

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Inoue, T., Joyce, G.F., Grzeskowiak, K., Orgel, L.E., Brown, J.M., Reese, C.B. Template-directed synthesis on the pentanucleotide CpCpGpCpC. (1984) Journal of Molecular Biology. 178(3):669-76.

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Joyce, G.F., Visser, G.M., van Boeckel, C.A., van Boom, J.H., Orgel, L.E., van Westrenen, J. Chiral selection in poly(C)-directed synthesis of oligo(G). (1984) Nature. 310(5978):602-4.

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Joyce, G.F., Inoue, T., Orgel, L.E. Non-enzymatic template-directed synthesis on RNA random copolymers. Poly(C, U) templates. (1984) Journal of Molecular Biology. 176(2):279-306.

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Joyce, G.F., Tschirgi, R.D. Automata simulation of the selection process. (1984) BioSystems. 17(1):65-72.

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1983

Joyce, G.F. The instability of the autogen. (1983) J. Mol. Evol. 19(2):192-4.

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Education

BA, Biological Sciences, The University of Chicago
PhD, Neurosciences / Chemistry, University of California, San Diego
MD, Medicine, University of California, San Diego


Awards & Honors

  • Director of the Genomics Institute of the Novartis Research Foundation (GNF)
  • 2017 American Association for the Advancement of Science Fellow
  • 2014 Member, Institute of Medicine at the National Academy of Medicine
  • Head of Faculty in Chemical Biology, Faculty of 1000
  • 2012 Member, American Academy of Arts and Sciences
  • 2010 U.S. National Academy of Sciences Miller Award
  • 2009 Dannie Heineman Prize
  • 2005 H.C. Urey Award
  • 2001 Member, U.S. National Academy of Sciences
  • 2001 Linnaeus Lecturer, Uppsala University
  • 1997 Hans Sigrist Prize
  • 1997 Herbert W. Dickerman Award
  • 1995 Pfizer Award in Enzyme Chemistry
  • 1994 U.S. National Academy of Sciences Award in Molecular Biology