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A Thousand Fly Genomes: An Expanded Drosophila Genome Nexus

Justin B. Lack, Jeremy D. Lange, Alison D. Tang, Russell B. Corbett-Detig, John E. Pool
doi: https://doi.org/10.1101/063537
Justin B. Lack
aLaboratory of Genetics, University of Wisconsin-Madison Madison, WI, 53705, USA
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Jeremy D. Lange
aLaboratory of Genetics, University of Wisconsin-Madison Madison, WI, 53705, USA
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Alison D. Tang
bDepartment of Integrative Biology, University of California, Berkeley Berkeley, CA, 94720, USA
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Russell B. Corbett-Detig
bDepartment of Integrative Biology, University of California, Berkeley Berkeley, CA, 94720, USA
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John E. Pool
aLaboratory of Genetics, University of Wisconsin-Madison Madison, WI, 53705, USA
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  • For correspondence: jpool@wisc.edu
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ABSTRACT

The Drosophila Genome Nexus is a population genomic resource that provides D. melanogaster genomes from multiple sources. To facilitate comparisons across data sets, genomes are aligned using a common reference alignment pipeline which involves two rounds of mapping. Regions of residual heterozygosity, identity-by-descent, and recent population admixture are annotated to enable data filtering based on the user’s needs. Here, we present a significant expansion of the Drosophila Genome Nexus, which brings the current data object to a total of 1,122 wild-derived genomes. New additions include 306 previously unpublished genomes from inbred lines representing six population samples in Egypt, Ethiopia, France, and South Africa, along with another 193 genomes added from recently-published data sets. We also provide an aligned D. simulans genome to facilitate divergence comparisons. This improved resource will broaden the range of population genomic questions that can addressed from multi-population allele frequencies and haplotypes in this model species. The larger set of genomes will also enhance the discovery of functionally relevant natural variation that exists within and between populations.

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC 4.0 International license.
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Posted July 12, 2016.
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A Thousand Fly Genomes: An Expanded Drosophila Genome Nexus
Justin B. Lack, Jeremy D. Lange, Alison D. Tang, Russell B. Corbett-Detig, John E. Pool
bioRxiv 063537; doi: https://doi.org/10.1101/063537
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A Thousand Fly Genomes: An Expanded Drosophila Genome Nexus
Justin B. Lack, Jeremy D. Lange, Alison D. Tang, Russell B. Corbett-Detig, John E. Pool
bioRxiv 063537; doi: https://doi.org/10.1101/063537

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