Metabolic flux analysis of Escherichia coli knockouts: lessons from the Keio collection and future outlook

被引：45

作者：

Long, Christopher P. ^{[1
]}

Antoniewicz, Maciek R. ^{[1
]}

机构：

[1] Univ Delaware, Dept Chem & Biomol Engn, Metab Engn & Syst Biol Lab, Newark, DE 19716 USA

来源：

CURRENT OPINION IN BIOTECHNOLOGY | 2014年 / 28卷

基金：

美国国家科学基金会;

关键词：

PARALLEL LABELING EXPERIMENTS; CENTRAL CARBON METABOLISM; SINGLE-GENE KNOCKOUT; ENZYME-ACTIVITIES; C-13-LABELING EXPERIMENTS; TRANSCRIPTIONAL REGULATION; PHOSPHOGLUCOSE ISOMERASE; WILD-TYPE; NETWORK; RESPONSES;

D O I：

10.1016/j.copbio.2014.02.006

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

Cellular metabolic and regulatory systems are of fundamental interest to biologists and engineers. Incomplete understanding of these complex systems remains an obstacle to progress in biotechnology and metabolic engineering. An established method for obtaining new information on network structure, regulation and dynamics is to study the cellular system following a perturbation such as a genetic knockout. The Keio collection of all viable Escherichia coli single-gene knockouts is facilitating a systematic investigation of the regulation and metabolism of E. coli. Of all omics measurements available, the metabolic flux profile (the fluxome) provides the most direct and relevant representation of the cellular phenotype. Recent advances in C-13-metabolic flux analysis are now permitting highly precise and accurate flux measurements for investigating cellular systems and guiding metabolic engineering efforts.

引用

页码：127 / 133

页数：7

共 70 条

[1] Parallel labeling experiments with [1,2-13C]glucose and [U-13C]glutamine provide new insights into CHO cell metabolism [J].

Ahn, Woo Suk ;

Antoniewicz, Maciek R. .

METABOLIC ENGINEERING, 2013, 15 :34-47

[2] Determination of confidence intervals of metabolic fluxes estimated from stable isotope measurements [J].

Antoniewicz, Maciek R. ;

Kelleher, Joanne K. ;

Stephanopoulos, Gregory .

METABOLIC ENGINEERING, 2006, 8 (04) :324-337

[3] Tandem mass spectrometry for measuring stable-isotope labeling [J].

Antoniewicz, Maciek R. .

CURRENT OPINION IN BIOTECHNOLOGY, 2013, 24 (01) :48-53

[4]

Antoniewicz MR, 2013, CURR OPIN BIOTECH, P24

[5] Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants:: the Keio collection [J].

Baba, Tomoya ;

Ara, Takeshi ;

Hasegawa, Miki ;

Takai, Yuki ;

Okumura, Yoshiko ;

Baba, Miki ;

Datsenko, Kirill A. ;

Tomita, Masaru ;

Wanner, Barry L. ;

Mori, Hirotada .

MOLECULAR SYSTEMS BIOLOGY, 2006, 2 (1) :2006.0008

[6] TOWARD A SCIENCE OF METABOLIC ENGINEERING [J].

BAILEY, JE .

SCIENCE, 1991, 252 (5013) :1668-1675

[7] Structural robustness of metabolic networks with respect to multiple knockouts [J].

Behre, Joern ;

Wilhelm, Thomas ;

von Kamp, Axel ;

Ruppin, Eytan ;

Schuster, Stefan .

JOURNAL OF THEORETICAL BIOLOGY, 2008, 252 (03) :433-441

[8] Probing the performance limits of the Escherichia coli metabolic network subject to gene additions or deletions [J].

Burgard, AP ;

Maranas, CD .

BIOTECHNOLOGY AND BIOENGINEERING, 2001, 74 (05) :364-375

[9] Flux coupling analysis of genome-scale metabolic network reconstructions [J].

Burgard, AP ;

Nikolaev, EV ;

Schilling, CH ;

Maranas, CD .

GENOME RESEARCH, 2004, 14 (02) :301-312

[10]

Canonaco F, 2001, FEMS MICROBIOL LETT, V204, P247, DOI 10.1111/j.1574-6968.2001.tb10892.x

← 1 2 3 4 5 6 7 →