Directed evolution 2.0: improving and deciphering enzyme properties

被引:140
作者
Cheng, Feng [1 ]
Zhu, Leilei [1 ]
Schwaneberg, Ulrich [1 ,2 ]
机构
[1] Rhein Westfal TH Aachen, Lehrstuhl Biotechnol, D-52074 Aachen, Germany
[2] DWI Leibniz Inst Interact Mat, D-52056 Aachen, Germany
关键词
POTENTIAL ANTITUMOR DRUG; PROTEIN-SEQUENCE SPACE; IN-VITRO RECOMBINATION; SODIUM DODECYL-SULFATE; ARGININE DEIMINASE; SUBTILISIN-E; GUANIDINIUM CHLORIDE; MOLECULAR EVOLUTION; THERMAL-RESISTANCE; SCREENING SYSTEMS;
D O I
10.1039/c5cc01594d
中图分类号
O6 [化学];
学科分类号
0703 ;
摘要
Directed evolution has matured to a routinely applied algorithm to tailor enzyme properties to meet the demands in various applications. In order to free directed enzyme evolution from methodological restraints and to efficiently explore its potential, many different strategies have been used in directed evolution campaigns. Analysis of directed evolution campaigns reveals that traditional approaches, in which several iterative rounds of diversity generation and screening are performed, are gradually replaced by strategies which require less time, less screening efforts, and generate a molecular understanding of the targeted properties. In this review, conceptual advances in knowledge generating directed evolution strategies are summarized, compared to each other and to traditional directed evolution strategies. Finally, a 'KnowVolution' (knowledge gaining directed evolution) termed strategy is proposed.
引用
收藏
页码:9760 / 9772
页数:13
相关论文
共 87 条
[1]   When blind is better: Protein design by evolution [J].
Arnold, FH .
NATURE BIOTECHNOLOGY, 1998, 16 (07) :617-618
[2]   ConSurf 2010: calculating evolutionary conservation in sequence and structure of proteins and nucleic acids [J].
Ashkenazy, Haim ;
Erez, Elana ;
Martz, Eric ;
Pupko, Tal ;
Ben-Tal, Nir .
NUCLEIC ACIDS RESEARCH, 2010, 38 :W529-W533
[3]   Amino acids: Chemistry, functionality and selected non-enzymatic post-translational modifications [J].
Bischoff, Rainer ;
Schlueter, Hartmut .
JOURNAL OF PROTEOMICS, 2012, 75 (08) :2275-2296
[4]   Precision is essential for efficient catalysis in an evolved Kemp eliminase [J].
Blomberg, Rebecca ;
Kries, Hajo ;
Pinkas, Daniel M. ;
Mittl, Peer R. E. ;
Gruetter, Markus G. ;
Privett, Heidi K. ;
Mayo, Stephen L. ;
Hilvert, Donald .
NATURE, 2013, 503 (7476) :418-+
[5]   Protein Engineering as a Tool for the Development of Novel Bioproduction Systems [J].
Bornscheuer, Uwe T. .
FUNDAMENTALS AND APPLICATION OF NEW BIOPRODUCTION SYSTEMS, 2013, 137 :25-40
[6]   Directed evolution and axial chirality:: optimization of the enantioselectivity of Pseudomonas aeruginosa lipase towards the kinetic resolution of a racemic allene [J].
Carballeira, Jose Daniel ;
Krumlinde, Patrik ;
Bocola, Marco ;
Vogel, Andreas ;
Reetz, Manfred T. ;
Baeckvall, Jan-E. .
CHEMICAL COMMUNICATIONS, 2007, (19) :1913-1915
[7]   Reconstructed evolutionary adaptive paths give polymerases accepting reversible terminators for sequencing and SNP detection [J].
Chen, Fei ;
Gaucher, Eric A. ;
Leal, Nicole A. ;
Hutter, Daniel ;
Havemann, Stephanie A. ;
Govindarajan, Sridhar ;
Ortlund, Eric A. ;
Benner, Steven A. .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2010, 107 (05) :1948-1953
[8]   TUNING THE ACTIVITY OF AN ENZYME FOR UNUSUAL ENVIRONMENTS - SEQUENTIAL RANDOM MUTAGENESIS OF SUBTILISIN-E FOR CATALYSIS IN DIMETHYLFORMAMIDE [J].
CHEN, KQ ;
ARNOLD, FH .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1993, 90 (12) :5618-5622
[9]   A Competitive Flow Cytometry Screening System for Directed Evolution of Therapeutic Enzyme [J].
Cheng, Feng ;
Kardashliev, Tsvetan ;
Pitzler, Christian ;
Shehzad, Aamir ;
Lue, Hongqi ;
Bernhagen, Juergen ;
Zhu, Leilei ;
Schwaneberg, Ulrich .
ACS SYNTHETIC BIOLOGY, 2015, 4 (07) :768-775
[10]   Directed arginine deiminase evolution for efficient inhibition of arginine-auxotrophic melanomas [J].
Cheng, Feng ;
Zhu, Leilei ;
Lue, Hongqi ;
Bernhagen, Juergen ;
Schwaneberg, Ulrich .
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY, 2015, 99 (03) :1237-1247