Towards the engineering of in vitro systems

被引:29
作者
Hold, Christoph [1 ]
Panke, Sven [1 ]
机构
[1] Swiss Fed Inst Technol, Dept Biosyst Sci & Engn, CH-4058 Basel, Switzerland
关键词
in vitro systems; enzymatic reaction network; glycolysis; INTRACELLULAR METABOLITE DYNAMICS; ESCHERICHIA-COLI K-12; SUBSECOND TIME-SCALE; SYNTHETIC BIOLOGY; PYRUVATE KINASES; LINLOG KINETICS; VIVO ANALYSIS; SACCHAROMYCES-CEREVISIAE; REGULATORY PROPERTIES; TRYPANOSOMA-BRUCEI;
D O I
10.1098/rsif.2009.0110.focus
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
Synthetic biology aims at rationally implementing biological systems from scratch. Given the complexity of living systems and our current lack of understanding of many aspects of living cells, this is a major undertaking. The design of in vitro systems can be considerably easier, because they can consist of fewer constituents, are quasi time invariant, their parameter space can be better accessed and they can be much more easily perturbed and then analysed chemically and mathematically. However, even for simplified in vitro systems, following a comprehensively rational design procedure is still difficult. When looking at a comparatively simple system, such as a medium-sized enzymatic reaction network as it is represented by glycolysis, major issues such as a lack of comprehensive enzyme kinetics and of suitable knowledge on crucial design parameters remain. Nevertheless, in vitro systems are very suitable to overcome these obstacles and therefore well placed to act as a stepping stone to engineering living systems.
引用
收藏
页码:S507 / S521
页数:15
相关论文
共 107 条
[1]   CHEMOTAXIS TOWARD SUGARS IN ESCHERICHIA-COLI [J].
ADLER, J ;
HAZELBAUER, GL ;
DAHL, MM .
JOURNAL OF BACTERIOLOGY, 1973, 115 (03) :824-847
[2]   ON THE 3-DIMENSIONAL STRUCTURE AND CATALYTIC MECHANISM OF TRIOSE PHOSPHATE ISOMERASE [J].
ALBER, T ;
BANNER, DW ;
BLOOMER, AC ;
PETSKO, GA ;
PHILLIPS, D ;
RIVERS, PS ;
WILSON, IA .
PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY OF LONDON SERIES B-BIOLOGICAL SCIENCES, 1981, 293 (1063) :159-171
[3]   Experimental and in silico analyses of glycolytic flux control in bloodstream form Trypanosoma brucei [J].
Albert, MA ;
Haanstra, JR ;
Hannaert, V ;
Van Roy, J ;
Opperdoes, FR ;
Bakker, BM ;
Michels, PAM .
JOURNAL OF BIOLOGICAL CHEMISTRY, 2005, 280 (31) :28306-28315
[4]   Environmentally controlled invasion of cancer cells by engineered bacteria [J].
Anderson, JC ;
Clarke, EJ ;
Arkin, AP ;
Voigt, CA .
JOURNAL OF MOLECULAR BIOLOGY, 2006, 355 (04) :619-627
[5]   Model-based inference of gene expression dynamics from sequence information [J].
Arnold, S ;
Siemann-Herzberg, M ;
Schmid, J ;
Reuss, M .
BIOTECHNOLOGY FOR THE FUTURE, 2005, 100 :89-179
[6]   NOVEL KINETIC AND STRUCTURAL-PROPERTIES OF CLASS-ID-FRUCTOSE 1,6-BISPHOSPHATE ALDOLASE FROM ESCHERICHIA-COLI (CROOKES STRAIN) [J].
BALDWIN, SA ;
PERHAM, RN .
BIOCHEMICAL JOURNAL, 1978, 169 (03) :643-652
[7]   A modelling study of feedforward activation in human erythrocyte glycolysis [J].
Bali, M ;
Thomas, S .
COMPTES RENDUS DE L ACADEMIE DES SCIENCES SERIE III-SCIENCES DE LA VIE-LIFE SCIENCES, 2001, 324 (03) :185-199
[8]   Dynamic model of Escherichia coli tryptophan operon shows an optimal structural design [J].
Bhartiya, S ;
Rawool, S ;
Venkatesh, KV .
EUROPEAN JOURNAL OF BIOCHEMISTRY, 2003, 270 (12) :2644-2651
[9]   KINETICS OF ALLOSTERIC INTERACTIONS OF PHOSPHOFRUCTOKINASE FROM ESCHERICHIA COLI [J].
BLANGY, D ;
BUC, H ;
MONOD, J .
JOURNAL OF MOLECULAR BIOLOGY, 1968, 31 (01) :13-&
[10]   Quantification of intracellular metabolites in Escherichia coli K12 using liquid chromatographic-electrospray ionization tandem mass spectrometric techniques [J].
Buchholz, A ;
Takors, R ;
Wandrey, C .
ANALYTICAL BIOCHEMISTRY, 2001, 295 (02) :129-137