About the Authors

Martin Wu

Affiliation The Institute for Genomic Research, Rockville, Maryland, United States of America

Ling V Sun

Affiliation Department of Epidemiology and Public Health, Yale University School of Medicine, New Haven, Connecticut, United States of America

Jessica Vamathevan

Affiliation The Institute for Genomic Research, Rockville, Maryland, United States of America

Markus Riegler

Affiliation Department of Zoology and Entomology, School of Life Sciences, The University of Queensland, St Lucia, Queensland, Australia

Robert Deboy

Affiliation The Institute for Genomic Research, Rockville, Maryland, United States of America

Jeremy C Brownlie

Affiliation Department of Zoology and Entomology, School of Life Sciences, The University of Queensland, St Lucia, Queensland, Australia

Elizabeth A McGraw

Affiliation Department of Zoology and Entomology, School of Life Sciences, The University of Queensland, St Lucia, Queensland, Australia

William Martin

Affiliation Institut für Botanik III, Heinrich-Heine Universität, Düsseldorf, Germany

Christian Esser

Affiliation Institut für Botanik III, Heinrich-Heine Universität, Düsseldorf, Germany

Nahal Ahmadinejad

Affiliation Institut für Botanik III, Heinrich-Heine Universität, Düsseldorf, Germany

Christian Wiegand

Affiliation Institut für Botanik III, Heinrich-Heine Universität, Düsseldorf, Germany

Ramana Madupu

Affiliation The Institute for Genomic Research, Rockville, Maryland, United States of America

Maureen J Beanan

Affiliation The Institute for Genomic Research, Rockville, Maryland, United States of America

Lauren M Brinkac

Affiliation The Institute for Genomic Research, Rockville, Maryland, United States of America

Sean C Daugherty

Affiliation The Institute for Genomic Research, Rockville, Maryland, United States of America

A. Scott Durkin

Affiliation The Institute for Genomic Research, Rockville, Maryland, United States of America

James F Kolonay

Affiliation The Institute for Genomic Research, Rockville, Maryland, United States of America

William C Nelson

Affiliation The Institute for Genomic Research, Rockville, Maryland, United States of America

Yasmin Mohamoud

Affiliation The Institute for Genomic Research, Rockville, Maryland, United States of America

Perris Lee

Affiliation The Institute for Genomic Research, Rockville, Maryland, United States of America

Kristi Berry

Affiliation The Institute for Genomic Research, Rockville, Maryland, United States of America

M. Brook Young

Affiliation The Institute for Genomic Research, Rockville, Maryland, United States of America

Teresa Utterback

Affiliation The Institute for Genomic Research, Rockville, Maryland, United States of America

Janice Weidman

Affiliation The Institute for Genomic Research, Rockville, Maryland, United States of America

William C Nierman

Affiliation The Institute for Genomic Research, Rockville, Maryland, United States of America

Ian T Paulsen

Affiliation The Institute for Genomic Research, Rockville, Maryland, United States of America

Karen E Nelson

Affiliation The Institute for Genomic Research, Rockville, Maryland, United States of America

Hervé Tettelin

Affiliation The Institute for Genomic Research, Rockville, Maryland, United States of America

Scott L O'Neill

Affiliations Department of Epidemiology and Public Health, Yale University School of Medicine, New Haven, Connecticut, United States of America, Department of Zoology and Entomology, School of Life Sciences, The University of Queensland, St Lucia, Queensland, Australia

Jonathan A Eisen

To whom correspondence should be addressed. E-mail: jeisen@tigr.org

Affiliation The Institute for Genomic Research, Rockville, Maryland, United States of America

Competing Interests

The authors have declared that no conflicts of interest exist.

Author Contributions

M. Wu contributed ideas and analysis in all aspects of the work. L. Sun performed purification of wMel DNA for initial libraries and closure. J. Vamathevan was the closure team leader, performed sequence assembly and analysis, and screened contigs against the Drosophila genome. M. Riegler performed validation of assembly against the physical map and confirmation of rearrangements by long PCR and analysis of repeat regions. R. Deboy was the annotation leader and managed the annotation, ORF management, and frameshifts. J. C. Brownlie performed analysis of Type IV secretion systems. E. A. McGraw performed validation of assembly against physical map and confirmation of rearrangements by long PCR and analysis of wsp paralogs. W. Martin, C. Esser, N. Ahmadinejad, and C. Wiegand performed the mitochondrial evolution analysis. R. Madupu, M. J. Beanan, L. M. Brinkac, S. C. Daugherty, A. S. Durkin, J. F. Kolonay, and W. C. Nelson performed genome annotation. Y. Mohamoud, P. Lee, and K. Berry performed the closure experiments (closed sequencing gaps, multiplex PCR, resolution of small repeats, coverage reactions, contig editing, resolution of large repeats by transposon and primer walking). M. B. Young was the shotgun sequencing leader. T. Utterback and J. Weidman performed shotgun sequencing and frameshift checking; Utterback also worked on the assembly. W. C. Nierman handled the library construction. I. T. Paulsen performed transporter analysis. K. E. Nelson performed metabolism analysis. H. Tettelin analyzed genome properties, repeats, and membrane proteins. S. L. O'Neill and J. A. Eisen supplied ideas, coordination, and analysis; Eisen is the corresponding author.