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Hybrid genome assembly and annotation of Danionella translucida

View ORCID ProfileMykola Kadobianskyi, View ORCID ProfileLisanne Schulze, View ORCID ProfileMarkus Schuelke, View ORCID ProfileBenjamin Judkewitz
doi: https://doi.org/10.1101/539692
Mykola Kadobianskyi
1Einstein Center for Neurosciences, NeuroCure Cluster of Excellence, Charité – Universitätsmedizin Berlin, Charitéplatz 1, 10117 Berlin, Germany.
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Lisanne Schulze
1Einstein Center for Neurosciences, NeuroCure Cluster of Excellence, Charité – Universitätsmedizin Berlin, Charitéplatz 1, 10117 Berlin, Germany.
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Markus Schuelke
1Einstein Center for Neurosciences, NeuroCure Cluster of Excellence, Charité – Universitätsmedizin Berlin, Charitéplatz 1, 10117 Berlin, Germany.
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  • For correspondence: benjamin.judkewitz@charite.de markus.schuelke@charite.de
Benjamin Judkewitz
1Einstein Center for Neurosciences, NeuroCure Cluster of Excellence, Charité – Universitätsmedizin Berlin, Charitéplatz 1, 10117 Berlin, Germany.
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  • For correspondence: benjamin.judkewitz@charite.de markus.schuelke@charite.de
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Abstract

Studying neuronal circuits at cellular resolution is very challenging in vertebrates due to the size and optical turbidity of their brains. Danionella translucida, a close relative of zebrafish, was recently introduced as a model organism for investigating neural network interactions in adult individuals. Danionella remains transparent throughout its life, has the smallest known vertebrate brain and possesses a rich repertoire of complex behaviours. Here we sequenced, assembled and annotated the Danionella translucida genome employing a hybrid Illumina/ Nanopore read library as well as RNA-seq of embryonic, larval and adult mRNA. We achieved high assembly continuity using low-coverage long-read data and annotated a large fraction of the transcriptome. This dataset will pave the way for molecular research and targeted genetic manipulation of this novel model organism.

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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 4.0 International license.
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Posted March 18, 2019.
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Hybrid genome assembly and annotation of Danionella translucida
Mykola Kadobianskyi, Lisanne Schulze, Markus Schuelke, Benjamin Judkewitz
bioRxiv 539692; doi: https://doi.org/10.1101/539692
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Hybrid genome assembly and annotation of Danionella translucida
Mykola Kadobianskyi, Lisanne Schulze, Markus Schuelke, Benjamin Judkewitz
bioRxiv 539692; doi: https://doi.org/10.1101/539692

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