Shelley Copley
Title | Professor |
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Institution | University of Colorado Boulder |
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Department | Biology-MCD Instruction |
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Phone | 303/492-6328 |
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Research R01GM135364 (COPLEY, SHELLEY D.)May 1, 2020 - Feb 29, 2024 NIH Promiscuity, serendipity, and metabolic innovation Role: Principal Investigator |
| R01GM134044 (COPLEY, SHELLEY D.)Aug 12, 2019 - Jul 31, 2023 NIH Gene duplication and divergence: the bigger picture Role: Principal Investigator |
| R01GM124365 (COPLEY, SHELLEY D.)Sep 1, 2017 - May 31, 2021 NIH The Cellular and Molecular Effects of Synonymous Mutations Role: Principal Investigator |
| R01GM083285 (COPLEY, SHELLEY D.)Jul 1, 2008 - Apr 30, 2018 NIH Elucidation and Evolutionary Potential of a Latent Pathway for PLP Synthesis Role: Principal Investigator |
| R01GM078554 (COPLEY, SHELLEY D.)Jul 1, 2008 - Apr 30, 2013 NIH The Evolutionary Origin and Potential of Newly Recruited Enzymes Role: Principal Investigator |
| R56GM067749 (COPLEY, SHELLEY D.)May 1, 2003 - Jul 31, 2009 NIH Mechanisms and Evolutionary Potential of Promiscuous Enzyme Activities Role: Principal Investigator |
| R01GM067749 (COPLEY, SHELLEY D.)May 1, 2003 - Aug 2, 2007 NIH Recruitment of Enzymes to Serve New Functions Role: Principal Investigator |
Bibliographic
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Copley SD, Newton MS, Widney KA. How to Recruit a Promiscuous Enzyme to Serve a New Function. Biochemistry. 2022 Jun 21. PMID: 35729117.
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Morgenthaler AB, Fritts RK, Copley SD. Amplicon Remodeling and Genomic Mutations Drive Population Dynamics after Segmental Amplification. Mol Biol Evol. 2022 01 07; 39(1). PMID: 34581806.
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Copley SD. Setting the stage for evolution of a new enzyme. Curr Opin Struct Biol. 2021 08; 69:41-49. PMID: 33865035.
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Choudhury A, Fankhauser RG, Freed EF, Oh EJ, Morgenthaler AB, Bassalo MC, Copley SD, Kaar JL, Gill RT. Determinants for Efficient Editing with Cas9-Mediated Recombineering in Escherichia coli. ACS Synth Biol. 2020 05 15; 9(5):1083-1099. PMID: 32298586.
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Copley SD. Evolution of new enzymes by gene duplication and divergence. FEBS J. 2020 04; 287(7):1262-1283. PMID: 32250558.
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Kim J, Flood JJ, Kristofich MR, Gidfar C, Morgenthaler AB, Fuhrer T, Sauer U, Snyder D, Cooper VS, Ebmeier CC, Old WM, Copley SD. Hidden resources in the Escherichia coli genome restore PLP synthesis and robust growth after deletion of the essential gene pdxB. Proc Natl Acad Sci U S A. 2019 11 26; 116(48):24164-24173. PMID: 31712440.
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Flood JJ, Copley SD. Genome-Wide Analysis of Transcriptional Changes and Genes That Contribute to Fitness during Degradation of the Anthropogenic Pollutant Pentachlorophenol by Sphingobium chlorophenolicum. mSystems. 2018 Nov-Dec; 3(6). PMID: 30505947.
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Rulifson G, Bielefeldt AR. Evolution of Students' Varied Conceptualizations About Socially Responsible Engineering: A Four Year Longitudinal Study. Sci Eng Ethics. 2019 06; 25(3):939-974. PMID: 31815667.
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Rulifson G, Bielefeldt AR. Evolution of Students' Varied Conceptualizations About Socially Responsible Engineering: A Four Year Longitudinal Study. Sci Eng Ethics. 2019 06; 25(3):939-974. PMID: 32244231.
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Rulifson G, Bielefeldt AR. Evolution of Students' Varied Conceptualizations About Socially Responsible Engineering: A Four Year Longitudinal Study. Sci Eng Ethics. 2019 06; 25(3):939-974. PMID: 30148850.
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Rulifson G, Bielefeldt AR. Evolution of Students' Varied Conceptualizations About Socially Responsible Engineering: A Four Year Longitudinal Study. Sci Eng Ethics. 2019 06; 25(3):939-974. PMID: 20831184.
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Rulifson G, Bielefeldt AR. Evolution of Students' Varied Conceptualizations About Socially Responsible Engineering: A Four Year Longitudinal Study. Sci Eng Ethics. 2019 06; 25(3):939-974. PMID: 18706079.
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Rulifson G, Bielefeldt AR. Evolution of Students' Varied Conceptualizations About Socially Responsible Engineering: A Four Year Longitudinal Study. Sci Eng Ethics. 2019 06; 25(3):939-974. PMID: 16042413.
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Rulifson G, Bielefeldt AR. Evolution of Students' Varied Conceptualizations About Socially Responsible Engineering: A Four Year Longitudinal Study. Sci Eng Ethics. 2019 06; 25(3):939-974. PMID: 15764708.
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Rulifson G, Bielefeldt AR. Evolution of Students' Varied Conceptualizations About Socially Responsible Engineering: A Four Year Longitudinal Study. Sci Eng Ethics. 2019 06; 25(3):939-974. PMID: 7918379.
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Rulifson G, Bielefeldt AR. Evolution of Students' Varied Conceptualizations About Socially Responsible Engineering: A Four Year Longitudinal Study. Sci Eng Ethics. 2019 06; 25(3):939-974. PMID: 8939704.
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Rulifson G, Bielefeldt AR. Evolution of Students' Varied Conceptualizations About Socially Responsible Engineering: A Four Year Longitudinal Study. Sci Eng Ethics. 2019 06; 25(3):939-974. PMID: 11802731.
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Rulifson G, Bielefeldt AR. Evolution of Students' Varied Conceptualizations About Socially Responsible Engineering: A Four Year Longitudinal Study. Sci Eng Ethics. 2019 06; 25(3):939-974. PMID: 23560638.
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Rulifson G, Bielefeldt AR. Evolution of Students' Varied Conceptualizations About Socially Responsible Engineering: A Four Year Longitudinal Study. Sci Eng Ethics. 2019 06; 25(3):939-974. PMID: 17355122.
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Rulifson G, Bielefeldt AR. Evolution of Students' Varied Conceptualizations About Socially Responsible Engineering: A Four Year Longitudinal Study. Sci Eng Ethics. 2019 06; 25(3):939-974. PMID: 19481500.
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Rulifson G, Bielefeldt AR. Evolution of Students' Varied Conceptualizations About Socially Responsible Engineering: A Four Year Longitudinal Study. Sci Eng Ethics. 2019 06; 25(3):939-974. PMID: 8931562.
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Rulifson G, Bielefeldt AR. Evolution of Students' Varied Conceptualizations About Socially Responsible Engineering: A Four Year Longitudinal Study. Sci Eng Ethics. 2019 06; 25(3):939-974. PMID: 1621954.
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Rulifson G, Bielefeldt AR. Evolution of Students' Varied Conceptualizations About Socially Responsible Engineering: A Four Year Longitudinal Study. Sci Eng Ethics. 2019 06; 25(3):939-974. PMID: 9115409.
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Rulifson G, Bielefeldt AR. Evolution of Students' Varied Conceptualizations About Socially Responsible Engineering: A Four Year Longitudinal Study. Sci Eng Ethics. 2019 06; 25(3):939-974. PMID: 21119630.
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Mikkonen A, Yläranta K, Tiirola M, Dutra LAL, Salmi P, Romantschuk M, Copley S, Ikäheimo J, Sinkkonen A. Successful aerobic bioremediation of groundwater contaminated with higher chlorinated phenols by indigenous degrader bacteria. Water Res. 2018 07 01; 138:118-128. PMID: 29574199.
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Copley SD. Shining a light on enzyme promiscuity. Curr Opin Struct Biol. 2017 12; 47:167-175. PMID: 29169066.
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Kershner JP, Yu McLoughlin S, Kim J, Morgenthaler A, Ebmeier CC, Old WM, Copley SD. A Synonymous Mutation Upstream of the Gene Encoding a Weak-Link Enzyme Causes an Ultrasensitive Response in Growth Rate. J Bacteriol. 2016 10 15; 198(20):2853-63. PMID: 27501982.
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Thiaville JJ, Flood J, Yurgel S, Prunetti L, Elbadawi-Sidhu M, Hutinet G, Forouhar F, Zhang X, Ganesan V, Reddy P, Fiehn O, Gerlt JA, Hunt JF, Copley SD, de Crécy-Lagard V. Members of a Novel Kinase Family (DUF1537) Can Recycle Toxic Intermediates into an Essential Metabolite. ACS Chem Biol. 2016 08 19; 11(8):2304-11. PMID: 27294475.
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Copley SD. An evolutionary biochemist's perspective on promiscuity. Trends Biochem Sci. 2015 Feb; 40(2):72-8. PMID: 25573004.
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Copley SD. An evolutionary perspective on protein moonlighting. Biochem Soc Trans. 2014 Dec; 42(6):1684-91. PMID: 25399590.
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Rudolph J, Erbse AH, Behlen LS, Copley SD. A radical intermediate in the conversion of pentachlorophenol to tetrachlorohydroquinone by Sphingobium chlorophenolicum. Biochemistry. 2014 Oct 21; 53(41):6539-49. PMID: 25238136.
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Kim J, Webb AM, Kershner JP, Blaskowski S, Copley SD. A versatile and highly efficient method for scarless genome editing in Escherichia coli and Salmonella enterica. BMC Biotechnol. 2014 Sep 25; 14:84. PMID: 25255806.
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Khanal A, Yu McLoughlin S, Kershner JP, Copley SD. Differential effects of a mutation on the normal and promiscuous activities of orthologs: implications for natural and directed evolution. Mol Biol Evol. 2015 Jan; 32(1):100-8. PMID: 25246702.
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Rokicki J, Knox D, Dowell RD, Copley SD. CodaChrome: a tool for the visualization of proteome conservation across all fully sequenced bacterial genomes. BMC Genomics. 2014 Jan 24; 15:65. PMID: 24460813.
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Novikov Y, Copley SD. Reactivity landscape of pyruvate under simulated hydrothermal vent conditions. Proc Natl Acad Sci U S A. 2013 Aug 13; 110(33):13283-8. PMID: 23872841.
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Yadid I, Rudolph J, Hlouchova K, Copley SD. Sequestration of a highly reactive intermediate in an evolving pathway for degradation of pentachlorophenol. Proc Natl Acad Sci U S A. 2013 Jun 11; 110(24):E2182-90. PMID: 23676275.
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Kim J, Copley SD. Inhibitory cross-talk upon introduction of a new metabolic pathway into an existing metabolic network. Proc Natl Acad Sci U S A. 2012 Oct 16; 109(42):E2856-64. PMID: 22984162.
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Copley SD. Moonlighting is mainstream: paradigm adjustment required. Bioessays. 2012 Jul; 34(7):578-88. PMID: 22696112.
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Hlouchova K, Rudolph J, Pietari JM, Behlen LS, Copley SD. Pentachlorophenol hydroxylase, a poorly functioning enzyme required for degradation of pentachlorophenol by Sphingobium chlorophenolicum. Biochemistry. 2012 May 08; 51(18):3848-60. PMID: 22482720.
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Copley SD, Rokicki J, Turner P, Daligault H, Nolan M, Land M. The whole genome sequence of Sphingobium chlorophenolicum L-1: insights into the evolution of the pentachlorophenol degradation pathway. Genome Biol Evol. 2012; 4(2):184-98. PMID: 22179583.
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Copley SD. Toward a systems biology perspective on enzyme evolution. J Biol Chem. 2012 Jan 02; 287(1):3-10. PMID: 22069330.
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Chumachenko N, Novikov Y, Shoemaker RK, Copley SD. A dimethyl ketal-protected benzoin-based linker suitable for photolytic release of unprotected peptides. J Org Chem. 2011 Nov 18; 76(22):9409-16. PMID: 21950361.
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Novikov Y, Copley SD, Eaton BE. A Simple Route for Synthesis of 4-Phospho-D-Erythronate. Tetrahedron Lett. 2011 Apr 20; 52(16):1913-1915. PMID: 22200980.
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Copley SD. Prediction of function in protein superfamilies. F1000 Biol Rep. 2009 Dec 09; 1:91. PMID: 20948600.
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Copley SD. Evolution of efficient pathways for degradation of anthropogenic chemicals. Nat Chem Biol. 2009 Aug; 5(8):559-66. PMID: 19620997.
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McLoughlin SY, Copley SD. A compromise required by gene sharing enables survival: Implications for evolution of new enzyme activities. Proc Natl Acad Sci U S A. 2008 Sep 09; 105(36):13497-502. PMID: 18757760.
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Warner JR, Behlen LS, Copley SD. A trade-off between catalytic power and substrate inhibition in TCHQ dehalogenase. Biochemistry. 2008 Mar 11; 47(10):3258-65. PMID: 18275157.
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Warner JR, Copley SD. Pre-steady-state kinetic studies of the reductive dehalogenation catalyzed by tetrachlorohydroquinone dehalogenase. Biochemistry. 2007 Nov 13; 46(45):13211-22. PMID: 17956123.
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Kim J, Copley SD. Why metabolic enzymes are essential or nonessential for growth of Escherichia coli K12 on glucose. Biochemistry. 2007 Nov 06; 46(44):12501-11. PMID: 17935357.
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Copley SD, Smith E, Morowitz HJ. The origin of the RNA world: co-evolution of genes and metabolism. Bioorg Chem. 2007 Dec; 35(6):430-43. PMID: 17897696.
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Dai M, Ziesman S, Ratcliffe T, Gill RT, Copley SD. Visualization of protoplast fusion and quantitation of recombination in fused protoplasts of auxotrophic strains of Escherichia coli. Metab Eng. 2005 Jan; 7(1):45-52. PMID: 15974564.
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Copley SD, Novak WR, Babbitt PC. Divergence of function in the thioredoxin fold suprafamily: evidence for evolution of peroxiredoxins from a thioredoxin-like ancestor. Biochemistry. 2004 Nov 09; 43(44):13981-95. PMID: 15518547.
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Dai M, Copley SD. Genome shuffling improves degradation of the anthropogenic pesticide pentachlorophenol by Sphingobium chlorophenolicum ATCC 39723. Appl Environ Microbiol. 2004 Apr; 70(4):2391-7. PMID: 15066836.
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Copley SD. Enzymes with extra talents: moonlighting functions and catalytic promiscuity. Curr Opin Chem Biol. 2003 Apr; 7(2):265-72. PMID: 12714060.
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Dai M, Rogers JB, Warner JR, Copley SD. A previously unrecognized step in pentachlorophenol degradation in Sphingobium chlorophenolicum is catalyzed by tetrachlorobenzoquinone reductase (PcpD). J Bacteriol. 2003 Jan; 185(1):302-10. PMID: 12486067.
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Copley SD, Dhillon JK. Lateral gene transfer and parallel evolution in the history of glutathione biosynthesis genes. Genome Biol. 2002; 3(5):research0025. PMID: 12049666.
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Kiefer PM, Copley SD. Characterization of the initial steps in the reductive dehalogenation catalyzed by tetrachlorohydroquinone dehalogenase. Biochemistry. 2002 Jan 29; 41(4):1315-22. PMID: 11802732.
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Copley SD. Evolution of a metabolic pathway for degradation of a toxic xenobiotic: the patchwork approach. Trends Biochem Sci. 2000 Jun; 25(6):261-5. PMID: 10838562.
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Anandarajah K, Kiefer PM, Donohoe BS, Copley SD. Recruitment of a double bond isomerase to serve as a reductive dehalogenase during biodegradation of pentachlorophenol. Biochemistry. 2000 May 09; 39(18):5303-11. PMID: 10820000.
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Fall R, Copley SD. Bacterial sources and sinks of isoprene, a reactive atmospheric hydrocarbon. Environ Microbiol. 2000 Apr; 2(2):123-30. PMID: 11220299.
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Xu L, Resing K, Lawson SL, Babbitt PC, Copley SD. Evidence that pcpA encodes 2,6-dichlorohydroquinone dioxygenase, the ring cleavage enzyme required for pentachlorophenol degradation in Sphingomonas chlorophenolica strain ATCC 39723. Biochemistry. 1999 Jun 15; 38(24):7659-69. PMID: 10387005.
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Copley SD. Microbial dehalogenases: enzymes recruited to convert xenobiotic substrates. Curr Opin Chem Biol. 1998 Oct; 2(5):613-7. PMID: 9818187.
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McCarthy DL, Claude AA, Copley SD. In vivo levels of chlorinated hydroquinones in a pentachlorophenol-degrading bacterium. Appl Environ Microbiol. 1997 May; 63(5):1883-8. PMID: 9143119.
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Copley SD, Crooks GP. Enzymic Dehalogenation of 4-Chlorobenzoyl Coenzyme A in Acinetobacter sp. Strain 4-CB1. Appl Environ Microbiol. 1992 Apr; 58(4):1385-7. PMID: 16348702.
This graph shows the total number of publications by year, by first, middle/unknown, or last author.
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Year | Publications |
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1992 | 1 | 1997 | 1 | 1998 | 1 | 1999 | 1 | 2000 | 3 | 2002 | 2 | 2003 | 2 | 2004 | 2 | 2005 | 1 | 2007 | 3 | 2008 | 2 | 2009 | 2 | 2011 | 4 | 2012 | 3 | 2013 | 2 | 2014 | 5 | 2015 | 1 | 2016 | 2 | 2017 | 1 | 2018 | 19 | 2019 | 1 | 2020 | 2 | 2021 | 1 | 2022 | 2 |
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