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Journal of Bacteriology, October 2003, p. 5673-5684, Vol. 185, No. 19
0021-9193/03/$08.00+0     DOI: 10.1128/JB.185.19.5673-5684.2003
Copyright © 2003, American Society for Microbiology. All Rights Reserved.

Experimental Determination and System Level Analysis of Essential Genes in Escherichia coli MG1655

S. Y. Gerdes,1 M. D. Scholle,1 J. W. Campbell,1 G. Balázsi,2 E. Ravasz,3 M. D. Daugherty,1 A. L. Somera,2 N. C. Kyrpides,1 I. Anderson,1 M. S. Gelfand,1 A. Bhattacharya,1 V. Kapatral,1 M. D'Souza,1 M. V. Baev,1 Y. Grechkin,1 F. Mseeh,1 M. Y. Fonstein,1 R. Overbeek,1 A.-L. Barabási,3 Z. N. Oltvai,2* and A. L. Osterman1*

Integrated Genomics, Inc., Chicago, Illinois 60612,1 Department of Pathology, Northwestern University, Chicago, Illinois 60611,2 Department of Physics, University of Notre Dame, Notre Dame, Indiana 465563

Received 26 March 2003/ Accepted 14 July 2003

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.

* Corresponding author. Mailing address for Z. N. Oltvai: Department of Pathology, Northwestern University, 303 E. Chicago Ave., Chicago, IL 60611. Phone: (312) 503-1175. Fax: (312) 503-8240. E-mail: zno008{at}northwestern.edu. Present address for Andrei Osterman: The Burnham Institute, 10901 North Torrey Pines Rd., La Jolla, CA 92037. Phone: (858) 646-3100. Fax: (858) 646-3171. E-mail: osterman{at}burnham.org.

Journal of Bacteriology, October 2003, p. 5673-5684, Vol. 185, No. 19
0021-9193/03/$08.00+0     DOI: 10.1128/JB.185.19.5673-5684.2003
Copyright © 2003, American Society for Microbiology. All Rights Reserved.



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