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Construction of a duck whole genome radiation hybrid panel : an aid for NGS whole genome assembly and a contribution to avian comparative maps

Abstract : Duck is a very important agronomic species in France, especially for fatty liver industry which presents 75% worldwide production. Moreover, duck is also a scientific model for avian influenza research as it is a natural reservoir for avian influenza viruses. The work presented here is part of the international collaboration on duck genome sequencing, includingSNP detection and mapping, EST sequencing. Our goal is to provide a genome map allowing for fine mapping QTL and identifying candidate genes involved in expression of agronomic traits. A panel composed of 90 radiation hybrids was produced by fusing irradiated duck donor cells with hamster cells. To avoid large-scale culture of the clones, PCR genotyping involving Whole Genome Amplification (WGA) and/or reduction of reaction volumes were tested and twofirst maps for duck chromosomes were made. We also used the PCR genotyping method to test for the quality of duck sequence scaffold assemblies, which had been produced by the Beijing Genome Institute (BGI, China). Finally, to cover the whole genome, we performed a low-pass sequencing (0.1X depth) of hybrids, allowing for rapid map development. These maps allow the detection of chromosomal rearrangements that have taken place between the duck and chickengenomes, which have diverged 80 million years ago.
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Soumis le : samedi 6 juin 2020 - 01:42:29
Dernière modification le : vendredi 12 juin 2020 - 10:43:26

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  • HAL Id : tel-02806112, version 1
  • PRODINRA : 171129

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Man Rao. Construction of a duck whole genome radiation hybrid panel : an aid for NGS whole genome assembly and a contribution to avian comparative maps. Life Sciences [q-bio]. 2012. English. ⟨tel-02806112⟩

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