New surveyor tools for charting microbial metabolic maps

被引：69

作者：

Breitling, Rainer ^{[1
]}

Vitkup, Dennis ^{[2
]}

Barrett, Michael P. ^{[3
]}

机构：

[1] Univ Groningen, Groningen Biomol Sci & Biotechnol Inst, Groningen Bioinformat Ctr, NL-9751 NN Haren, Netherlands

[2] Columbia Univ, Dept Biomed Informat, Ctr Computat Biol & Bioinformat, New York, NY 10032 USA

[3] Univ Glasgow, Inst Biomed & Life Sci, Div Infect & Immun, Glasgow G12 8QQ, Lanark, Scotland

来源：

NATURE REVIEWS MICROBIOLOGY | 2008年 / 6卷 / 02期

关键词：

D O I：

10.1038/nrmicro1797

中图分类号：

Q93 [微生物学];

学科分类号：

071005 ; 100705 ;

摘要：

The computational reconstruction and analysis of cellular models of microbial metabolism is one of the great success stories of systems biology. The extent and quality of metabolic network reconstructions is, however, limited by the current state of biochemical knowledge. Can experimental high-throughput data be used to improve and expand network reconstructions to include unexplored areas of metabolism? Recent advances in experimental technology and analytical methods bring this aim an important step closer to realization. Data integration will play a particularly important part in exploiting the new experimental opportunities.

引用

收藏

页码：156 / 161

页数：6

相关论文

共 67 条

[51] Accelerating the reconstruction of genome-scale metabolic networks [J].

Notebaart, Richard A. ;

Van Enckevort, Frank H. J. ;

Francke, Christof ;

Siezen, Roland J. ;

Teusink, Bas .

BMC BIOINFORMATICS, 2006, 7 (1)

[52] Genome-scale reconstruction of metabolic network in Bacillus subtilis based on high-throughput phenotyping and gene essentiality data [J].

Oh, You-Kwan ;

Palsson, Bernhard O. ;

Park, Sung M. ;

Schilling, Christophe H. ;

Mahadevan, Radhakrishnan .

JOURNAL OF BIOLOGICAL CHEMISTRY, 2007, 282 (39) :28791-28799

[53] Adaptive evolution of bacterial metabolic networks by horizontal gene transfer [J].

Pál, C ;

Papp, B ;

Lercher, MJ .

NATURE GENETICS, 2005, 37 (12) :1372-1375

[54] Genome-scale models of microbial cells: Evaluating the consequences of constraints [J].

Price, ND ;

Reed, JL ;

Palsson, BO .

NATURE REVIEWS MICROBIOLOGY, 2004, 2 (11) :886-897

[55] Systems approach to refining genome annotation [J].

Reed, Jennifer L. ;

Patel, Trina R. ;

Chen, Keri H. ;

Joyce, Andrew R. ;

Applebee, Margaret K. ;

Herring, Christopher D. ;

Bui, Olivia T. ;

Knight, Eric M. ;

Fong, Stephen S. ;

Palsson, Bernhard O. .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2006, 103 (46) :17480-17484

[56] An expanded genome-scale model of Escherichia coli K-12 (iJR904 GSM/GPR) -: art. no. R54 [J].

Reed, JL ;

Vo, TD ;

Schilling, CH ;

Palsson, BO .

GENOME BIOLOGY, 2003, 4 (09)

[57] Towards multidimensional genome annotation [J].

Reed, JL ;

Famili, I ;

Thiele, I ;

Palsson, BO .

NATURE REVIEWS GENETICS, 2006, 7 (02) :130-141

[58] High-throughput phenomics: experimental methods for mapping fluxomes [J].

Sauer, U .

CURRENT OPINION IN BIOTECHNOLOGY, 2004, 15 (01) :58-63

[59] Metabolic networks in motion:: 13C-based flux analysis [J].

Sauer, Uwe .

MOLECULAR SYSTEMS BIOLOGY, 2006, 2 (1)

[60] Analysis of optimality in natural and perturbed metabolic networks [J].

Segrè, D ;

Vitkup, D ;

Church, GM .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2002, 99 (23) :15112-15117

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