Mapping of Amino Acid Substitutions Conferring Herbicide Resistance in Wheat Glutathione Transferase

被引:25
作者
Govindarajan, Sridhar [1 ]
Mannervik, Bengt [2 ]
Silverman, Joshua A. [3 ]
Wright, Kathy [1 ]
Regitsky, Drew [3 ]
Hegazy, Usama [4 ]
Purcell, Thomas J. [1 ]
Welch, Mark [1 ]
Minshull, Jeremy [1 ]
Gustafsson, Claes [1 ]
机构
[1] DNA2 0 Inc, Menlo Pk, CA 94025 USA
[2] Stockholm Univ, Dept Neurochem, SE-10691 Stockholm, Sweden
[3] Calysta, Menlo Pk, CA 94025 USA
[4] Natl Res Ctr, Cairo 12311, Egypt
来源
ACS SYNTHETIC BIOLOGY | 2015年 / 4卷 / 03期
基金
瑞典研究理事会;
关键词
synthetic biology; machine learning; design of experiment; enzymes; sequence space; optimization; bioengineering; herbicide resistance; S-TRANSFERASE; ENZYME FUNCTION; EVOLUTION; DETOXIFICATION; LANDSCAPE; DESIGN; PURIFICATION; EXPRESSION; PROTEINS; SEQUENCE;
D O I
10.1021/sb500242x
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
We have used design of experiments (DOE) and systematic variance to efficiently explore glutathione transferase substrate specificities caused by amino acid substitutions. Amino acid substitutions selected using phylogenetic analysis were synthetically combined using a DOE design to create an information-rich set of gene variants, termed infologs. We used machine learning to identify and quantify protein sequence-function relationships against 14 different substrates The resulting models were quantitative and predictive, serving as a guide for engineering of glutathione transferase activity toward a diverse set of herbicides Predictive quantitative models like those presented here have broad applicability for bioengineering.
引用
收藏
页码:221 / 227
页数:7
相关论文
共 39 条
  • [1] BASIC LOCAL ALIGNMENT SEARCH TOOL
    ALTSCHUL, SF
    GISH, W
    MILLER, W
    MYERS, EW
    LIPMAN, DJ
    [J]. JOURNAL OF MOLECULAR BIOLOGY, 1990, 215 (03) : 403 - 410
  • [2] [Anonymous], GENET ENG BIOTECHNOL
  • [3] Glutathione Transferases Are Structural and Functional Outliers in the Thioredoxin Fold
    Atkinson, Holly J.
    Babbitt, Patricia C.
    [J]. BIOCHEMISTRY, 2009, 48 (46) : 11108 - 11116
  • [4] An exciting but challenging road ahead for computational enzyme design
    Baker, David
    [J]. PROTEIN SCIENCE, 2010, 19 (10) : 1817 - 1819
  • [5] Reconstructed evolutionary adaptive paths give polymerases accepting reversible terminators for sequencing and SNP detection
    Chen, Fei
    Gaucher, Eric A.
    Leal, Nicole A.
    Hutter, Daniel
    Havemann, Stephanie A.
    Govindarajan, Sridhar
    Ortlund, Eric A.
    Benner, Steven A.
    [J]. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2010, 107 (05) : 1948 - 1953
  • [6] Purification of multiple glutathione transferases involved in herbicide detoxification from wheat (Triticum aestivum L.) treated with the safener fenchlorazole-ethyl
    Cummins, I
    Cole, DJ
    Edwards, R
    [J]. PESTICIDE BIOCHEMISTRY AND PHYSIOLOGY, 1997, 59 (01) : 35 - 49
  • [7] Multiple roles for plant glutathione transferases in xenobiotic detoxification
    Cummins, Ian
    Dixon, David P.
    Freitag-Pohl, Stefanie
    Skipsey, Mark
    Edwards, Robert
    [J]. DRUG METABOLISM REVIEWS, 2011, 43 (02) : 266 - 280
  • [8] Forced evolution of a herbicide detoxifying glutathione transferase
    Dixon, DP
    McEwen, AG
    Lapthorn, AJ
    Edwards, R
    [J]. JOURNAL OF BIOLOGICAL CHEMISTRY, 2003, 278 (26) : 23930 - 23935
  • [9] Plant glutathione S-transferases:: enzymes with multiple functions in sickness and in health
    Edwards, R
    Dixon, DP
    Walbot, V
    [J]. TRENDS IN PLANT SCIENCE, 2000, 5 (05) : 193 - 198
  • [10] Protein engineering of improved prolyl endopeptidases for celiac sprue therapy
    Ehren, Jennifer
    Govindarajan, Sridhar
    Moron, Belen
    Minshull, Jeremy
    Khosla, Chaitan
    [J]. PROTEIN ENGINEERING DESIGN & SELECTION, 2008, 21 (12) : 699 - 707