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European Flint reference sequences complement the maize pan-genome

Sandra Unterseer, Michael A. Seidel, Eva Bauer, Georg Haberer, Frank Hochholdinger, Nina Opitz, Caroline Marcon, Kobi Baruch, Manuel Spannagl, Klaus F.X. Mayer, Chris-Carolin Schön
doi: https://doi.org/10.1101/103747
Sandra Unterseer
1 Plant Breeding, TUM School of Life Sciences Weihenstephan, Technical University of Munich, Freising, Germany, 85354
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Michael A. Seidel
2 Plant Genome and System Biology, Helmholtz Center Munich GmbH; Neuherberg, Germany, 85764
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Eva Bauer
1 Plant Breeding, TUM School of Life Sciences Weihenstephan, Technical University of Munich, Freising, Germany, 85354
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Georg Haberer
2 Plant Genome and System Biology, Helmholtz Center Munich GmbH; Neuherberg, Germany, 85764
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Frank Hochholdinger
3 Crop Functional Genomics, Rheinische Friedrich-Wilhelms-Universität Bonn, Bonn, Germany, 53113
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Nina Opitz
3 Crop Functional Genomics, Rheinische Friedrich-Wilhelms-Universität Bonn, Bonn, Germany, 53113
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Caroline Marcon
3 Crop Functional Genomics, Rheinische Friedrich-Wilhelms-Universität Bonn, Bonn, Germany, 53113
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Kobi Baruch
4 Energin .R Technologies 2009 Ltd (NRGENE), Ness Ziona, Israel, 7403648
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Manuel Spannagl
2 Plant Genome and System Biology, Helmholtz Center Munich GmbH; Neuherberg, Germany, 85764
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Klaus F.X. Mayer
2 Plant Genome and System Biology, Helmholtz Center Munich GmbH; Neuherberg, Germany, 85764
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Chris-Carolin Schön
1 Plant Breeding, TUM School of Life Sciences Weihenstephan, Technical University of Munich, Freising, Germany, 85354
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Abstract

The genomic diversity of maize is reflected by a large number of SNPs and substantial structural variation. Here, we report the de novo assembly of two European Flint maize lines to remedy the scarcity of sequence resources for the Flint pool. EP1 and F7 are important founder lines of European hybrid breeding programs. The lines were sequenced on an Illumina platform at 320X and 225X coverage. Using NRGene´s DeNovoMAGIC 2.0 technology, pseudochromosomes were assembled encompassing a total of 2,463 Mb for EP1 and 2,405 Mb for F7. Structural and functional annotation of the two genomes is currently in progress. The two high-quality de novo assemblies complement the existing maize pan-genome and will pave the way for future functional and comparative studies.

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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-ND 4.0 International license.
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Posted January 27, 2017.
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European Flint reference sequences complement the maize pan-genome
Sandra Unterseer, Michael A. Seidel, Eva Bauer, Georg Haberer, Frank Hochholdinger, Nina Opitz, Caroline Marcon, Kobi Baruch, Manuel Spannagl, Klaus F.X. Mayer, Chris-Carolin Schön
bioRxiv 103747; doi: https://doi.org/10.1101/103747
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European Flint reference sequences complement the maize pan-genome
Sandra Unterseer, Michael A. Seidel, Eva Bauer, Georg Haberer, Frank Hochholdinger, Nina Opitz, Caroline Marcon, Kobi Baruch, Manuel Spannagl, Klaus F.X. Mayer, Chris-Carolin Schön
bioRxiv 103747; doi: https://doi.org/10.1101/103747

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