Serendipitous discovery of Wolbachia genomes in multiple Drosophila species

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dc.contributor.authorSalzberg, Steven L.
dc.contributor.authorDunning Hotopp, Julie C.
dc.contributor.authorDelcher, Arthur L.
dc.contributor.authorPop, Mihai
dc.contributor.authorSmith, Douglas R
dc.contributor.authorEisen, Michael B.
dc.contributor.authorNelson, William C.
dc.date.accessioned2008-06-05T19:16:53Z
dc.date.available2008-06-05T19:16:53Z
dc.date.issued2005
dc.description.abstractBackground: The Trace Archive is a repository for the raw, unanalyzed data generated by largescale genome sequencing projects. The existence of this data offers scientists the possibility of discovering additional genomic sequences beyond those originally sequenced. In particular, if the source DNA for a sequencing project came from a species that was colonized by another organism, then the project may yield substantial amounts of genomic DNA, including near-complete genomes, from the symbiotic or parasitic organism. Results: By searching the publicly available repository of DNA sequencing trace data, we discovered three new species of the bacterial endosymbiont Wolbachia pipientis in three different species of fruit fly: Drosophila ananassae, D. simulans, and D. mojavensis. We extracted all sequences with partial matches to a previously sequenced Wolbachia strain and assembled those sequences using customized software. For one of the three new species, the data recovered were sufficient to produce an assembly that covers more than 95% of the genome; for a second species the data produce the equivalent of a 'light shotgun' sampling of the genome, covering an estimated 75-80% of the genome; and for the third species the data cover approximately 6-7% of the genome. Conclusions: The results of this study reveal an unexpected benefit of depositing raw data in a central genome sequence repository: new species can be discovered within this data. The differences between these three new Wolbachia genomes and the previously sequenced strain revealed numerous rearrangements and insertions within each lineage and hundreds of novel genes. The three new genomes, with annotation, have been deposited in GenBank.en
dc.format.extent1444338 bytes
dc.format.mimetypeapplication/pdf
dc.identifier.citationSerendipitous discovery of Wolbachia genomes in multiple Drosophila species. (local PDF copy) S.L. Salzberg, J.C. Dunning Hotopp, A.L. Delcher, M. Pop, D.R. Smith, M.B. Eisen, and W.C. Nelson. Genome Biology 2005, 6:R23.en
dc.identifier.urihttp://hdl.handle.net/1903/7989
dc.language.isoen_USen
dc.publisherGenome Biologyen
dc.relation.isAvailableAtCollege of Computer, Mathematical & Physical Sciencesen_us
dc.relation.isAvailableAtComputer Scienceen_us
dc.relation.isAvailableAtDigital Repository at the University of Marylanden_us
dc.relation.isAvailableAtUniversity of Maryland (College Park, MD)en_us
dc.subjectTrace Archiveen
dc.subjectgenome sequencingen
dc.subjectgenomic DNAen
dc.subjectDNAen
dc.subjectfruit flyen
dc.subjectDrosophila ananassaeen
dc.subjectD. simulansen
dc.subjectD. mojavensisen
dc.titleSerendipitous discovery of Wolbachia genomes in multiple Drosophila speciesen
dc.typeArticleen

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