Experimental determination and system level analysis of essential genes in Escherichia coli MG1655

被引：559

作者：

Gerdes, SY

Scholle, MD

Campbell, JW

Balázsi, G

Ravasz, E

Daugherty, MD

Somera, AL

Kyrpides, NC

Anderson, I

Gelfand, MS

Bhattacharya, A

Kapatral, V

D'Souza, M

Baev, MV

Grechkin, Y

Mseeh, F

Fonstein, MY

Overbeek, R

Barabási, AL

Oltvai, ZN

Osterman, AL

机构：

[1] Northwestern Univ, Dept Pathol, Chicago, IL 60611 USA

[2] Integrated Genomics Inc, Chicago, IL 60612 USA

[3] Univ Notre Dame, Dept Phys, Notre Dame, IN 46556 USA

来源：

JOURNAL OF BACTERIOLOGY | 2003年 / 185卷 / 19期

关键词：

D O I：

10.1128/JB.185.19.5673-5684.2003

中图分类号：

Q93 [微生物学];

学科分类号：

071005 ; 100705 ;

摘要：

Defining the gene products that play an essential role in an organism's functional repertoire is vital to understanding the system level organization of living cells. We used a genetic footprinting technique for a genome-wide assessment of genes required for robust aerobic growth of Escherichia coli in rich media. We identified 620 genes as essential and 3,126 genes as dispensable for growth under these conditions. Functional context analysis of these data allows individual functional assignments to be refined. Evolutionary context analysis demonstrates a significant tendency of essential E. coli genes to be preserved throughout the bacterial kingdom. Projection of these data over metabolic subsystems reveals topologic modules with essential and evolutionarily preserved enzymes with reduced capacity for error tolerance.

引用

页码：5673 / 5684

页数：12

共 39 条

[1] A genome-scale analysis for identification of genes required for growth or survival of Haemophilus influenzae [J].

Akerley, BJ ;

Rubin, EJ ;

Novick, VL ;

Amaya, K ;

Judson, N ;

Mekalanos, JJ .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2002, 99 (02) :966-971

[2] TANDEM CHROMOSOMAL DUPLICATIONS IN SALMONELLA-TYPHIMURIUM - FUSION OF HISTIDINE GENES TO NOVEL PROMOTERS [J].

ANDERSON, RP ;

ROTH, JR .

JOURNAL OF MOLECULAR BIOLOGY, 1978, 119 (01) :147-166

[3] Selection analyses of insertional mutants using subgenic-resolution arrays [J].

Badarinarayana, V ;

Estep, PW ;

Shendure, J ;

Edwards, J ;

Tavazoie, S ;

Lam, F ;

Church, GM .

NATURE BIOTECHNOLOGY, 2001, 19 (11) :1060-1065

[4] The complete genome sequence of Escherichia coli K-12 [J].

Blattner, FR ;

Plunkett, G ;

Bloch, CA ;

Perna, NT ;

Burland, V ;

Riley, M ;

ColladoVides, J ;

Glasner, JD ;

Rode, CK ;

Mayhew, GF ;

Gregor, J ;

Davis, NW ;

Kirkpatrick, HA ;

Goeden, MA ;

Rose, DJ ;

Mau, B ;

Shao, Y .

SCIENCE, 1997, 277 (5331) :1453-+

[5] Reverse engineering of biological complexity [J].

Csete, ME ;

Doyle, JC .

SCIENCE, 2002, 295 (5560) :1664-1669

[6] Metabolic modelling of microbes: the flux-balance approach [J].

Edwards, JS ;

Covert, M ;

Palsson, B .

ENVIRONMENTAL MICROBIOLOGY, 2002, 4 (03) :133-140

[7] A genome-wide strategy for the identification of essential genes in Staphylococcus aureus [J].

Forsyth, RA ;

Haselbeck, RJ ;

Ohlsen, KL ;

Yamamoto, RT ;

Xu, H ;

Trawick, JD ;

Wall, D ;

Wang, LS ;

Brown-Driver, V ;

Froelich, JM ;

Kedar, GC ;

King, P ;

McCarthy, M ;

Malone, C ;

Misiner, B ;

Robbins, D ;

Tan, ZH ;

Zhu, ZY ;

Carr, G ;

Mosca, DA ;

Zamudio, C ;

Foulkes, JG ;

Zyskind, JW .

MOLECULAR MICROBIOLOGY, 2002, 43 (06) :1387-1400

[8]

Gasteiger E, 2001, Curr Issues Mol Biol, V3, P47

[9] From genetic Footprinting to antimicrobial drug targets: Examples in cofactor biosynthetic pathways [J].

Gerdes, SY ;

Scholle, MD ;

D'Souza, M ;

Bernal, A ;

Baev, MV ;

Farrell, M ;

Kurnasov, OV ;

Daugherty, MD ;

Mseeh, F ;

Polanuyer, BM ;

Campbell, JW ;

Anantha, S ;

Shatalin, KY ;

Chowdhury, SAK ;

Fonstein, MY ;

Osterman, AL .

JOURNAL OF BACTERIOLOGY, 2002, 184 (16) :4555-4572

[10] Functional profiling of the Saccharomyces cerevisiae genome [J].

Giaever, G ;

Chu, AM ;

Ni, L ;

Connelly, C ;

Riles, L ;

Véronneau, S ;

Dow, S ;

Lucau-Danila, A ;

Anderson, K ;

André, B ;

Arkin, AP ;

Astromoff, A ;

El Bakkoury, M ;

Bangham, R ;

Benito, R ;

Brachat, S ;

Campanaro, S ;

Curtiss, M ;

Davis, K ;

Deutschbauer, A ;

Entian, KD ;

Flaherty, P ;

Foury, F ;

Garfinkel, DJ ;

Gerstein, M ;

Gotte, D ;

Güldener, U ;

Hegemann, JH ;

Hempel, S ;

Herman, Z ;

Jaramillo, DF ;

Kelly, DE ;

Kelly, SL ;

Kötter, P ;

LaBonte, D ;

Lamb, DC ;

Lan, N ;

Liang, H ;

Liao, H ;

Liu, L ;

Luo, CY ;

Lussier, M ;

Mao, R ;

Menard, P ;

Ooi, SL ;

Revuelta, JL ;

Roberts, CJ ;

Rose, M ;

Ross-Macdonald, P ;

Scherens, B .

NATURE, 2002, 418 (6896) :387-391

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