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E. coli and Shigella Genome Project

Goals

The complete genomes of four well-defined E. coli / Shigella strains are being sequenced to closure, in addition to eight genomes at draft coverage, totaling 12 genomes. This work significantly expands and complements the E. coli / Shigella genome projects that are completed or underway worldwide. The number of diseases that the members of these genera can cause underscores their diversity. We are addressing the breadth of this diversity by focusing our sequencing efforts on representative members of three previously under-sequenced groups: enterotoxigenic E. coli (ETEC), enteroinvasive E. coli (EIEC) and Shigella boydii, all of which cause significant morbidity and mortality in humans. In addition to these pathogenic isolates, we are sequencing E. coli HS, a strain known to colonize the human gastrointestinal tract without causing disease. This commensal genome sequence will provide a genomic scaffold which will facilitate rapid identification and focused analysis of pathogen-specific genomic islands and allow identification of those factors responsible for colonization which are shared among the pathogenic members of the E. coli / Shigella. This work will increase our understanding of these genera, enabling the development of robust typing schema and identification of new vaccine targets, as well as potentially aid in forensic analysis in cases of bioterrorism.

Isolate Selection

Strain selection was performed after extensive consultation with the E. coli / Shigella scientific community, other agencies funding similar projects. A meeting of an Advisory Committee (see list below) resulted in the selection of the twelve E. coli / Shigella strains targeted for genomic sequencing.

Investigators and Collaborators

Boedeker, Ed C.

Univ. of Maryland School of Medicine and the Center for Vaccine Development

Brinkley, Carl

Walter Reed Army Institute of Research

Brinkley, Carl

Walter Reed Army Institute of Research

Donnenberg, Michael S.

University of Maryland

Greene, John

SRA

Kaper, James B.

University of Maryland

Kaper, James B.

Univ. of Maryland School of Medicine and the Center for Vaccine Development

Maurelli, Anthony T.

Uniformed Services University of the Health Sciences

Maurelli, Anthony T.

Uniformed Services University of the Health Sciences

Mobley, Harry L.T.

University of Michigan

Mobley, Harry L.T.

Univ. of Michigan Medical School

Myers, Garry

Institute for Genome Sciences, University of Maryland School of Medicine

Nataro, James P.

University of Maryland

Nataro, James P.

Univ. of Maryland School of Medicine

Nolan, Lisa K.

Iowa State

O'Brien, Alison D.

Uniformed Services University of the Health Sciences

Perna, Nicole T.

University of Wisconsin

Rasko, David A.

University of Texas Southwestern Medical Center

Ravel, Jacques

Institute for Genome Sciences, University of Maryland School of Medicine

Rosovitz, M.J.

Midwest Research Institute

Savarino, Stephen J.

Naval Medical Research Center

Savarino, Stephen J.

Naval Medical Research Center

Scott, June R.

Emory

Seshadri, Rekha

J. Craig Venter Institute

Teel, Louise D.

Uniformed Services University of the Health Sciences

Torres, Alfredo G.

University of Texas Medical Branch

Welch, Rodney A.

University of Wisconsin

 
 
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