Chromosome-level genome assembly of a benthic associated Syngnathiformes species: the common dragonet, .
Sven Winter, Stefan Prost, Jordi de Raad, Raphael T F Coimbra, Magnus Wolf, Marcel Nebenf��hr, Annika Held, Melina Kurzawe, Ramona Papapostolou, Jade Tessien, Julian Bludau, Andreas Kelch, Sarah Gronefeld, Yannis Sch��neberg, Christian Zeitz, Konstantin Zapf, David Prochotta, Maximilian Murphy, Monica M Sheffer, Moritz Sonnewald, Maria A Nilsson, Axel Janke
Author Information
Sven Winter: Institute for Ecology, Evolution and Diversity, Goethe University, Frankfurt am Main, Germany. ORCID
Stefan Prost: LOEWE-Centre for Translational Biodiversity Genomics, Frankfurt am Main, Germany. ORCID
Jordi de Raad: Institute for Ecology, Evolution and Diversity, Goethe University, Frankfurt am Main, Germany. ORCID
Raphael T F Coimbra: Institute for Ecology, Evolution and Diversity, Goethe University, Frankfurt am Main, Germany. ORCID
Magnus Wolf: Institute for Ecology, Evolution and Diversity, Goethe University, Frankfurt am Main, Germany. ORCID
Marcel Nebenf��hr: Institute for Ecology, Evolution and Diversity, Goethe University, Frankfurt am Main, Germany.
Annika Held: Institute for Ecology, Evolution and Diversity, Goethe University, Frankfurt am Main, Germany.
Melina Kurzawe: Institute for Ecology, Evolution and Diversity, Goethe University, Frankfurt am Main, Germany.
Ramona Papapostolou: Institute for Ecology, Evolution and Diversity, Goethe University, Frankfurt am Main, Germany.
Jade Tessien: Institute for Ecology, Evolution and Diversity, Goethe University, Frankfurt am Main, Germany.
Julian Bludau: Institute for Ecology, Evolution and Diversity, Goethe University, Frankfurt am Main, Germany.
Andreas Kelch: Institute for Ecology, Evolution and Diversity, Goethe University, Frankfurt am Main, Germany. ORCID
Sarah Gronefeld: Institute for Ecology, Evolution and Diversity, Goethe University, Frankfurt am Main, Germany.
Yannis Sch��neberg: Institute for Ecology, Evolution and Diversity, Goethe University, Frankfurt am Main, Germany. ORCID
Christian Zeitz: Institute for Ecology, Evolution and Diversity, Goethe University, Frankfurt am Main, Germany.
Konstantin Zapf: Institute for Ecology, Evolution and Diversity, Goethe University, Frankfurt am Main, Germany.
David Prochotta: Institute for Ecology, Evolution and Diversity, Goethe University, Frankfurt am Main, Germany.
Maximilian Murphy: Institute for Ecology, Evolution and Diversity, Goethe University, Frankfurt am Main, Germany.
Monica M Sheffer: Zoological Institute and Museum, University of Greifswald, Greifswald, Germany. ORCID
Moritz Sonnewald: Senckenberg Research Institute, Department of Marine Zoology, Section Ichthyology, Frankfurt am Main, Germany.
Maria A Nilsson: Senckenberg Biodiversity and Climate Research Centre, Frankfurt am Main, Germany. ORCID
Axel Janke: Institute for Ecology, Evolution and Diversity, Goethe University, Frankfurt am Main, Germany. ORCID
Background: The common dragonet, , is one of three species inhabiting the North Sea. All three species show strong sexual dimorphism. The males show strong morphological differentiation, e.g., species-specific colouration and size relations, while the females of different species have few distinguishing characters. belongs to the 'benthic associated clade' of the order Syngnathiformes. The 'benthic associated clade' so far is not represented by genome data and serves as an important outgroup to understand the morphological transformation in 'long-snouted' syngnatiformes such as seahorses and pipefishes. Findings: Here, we present the chromosome-level genome assembly of . We applied Oxford Nanopore Technologies' long-read sequencing, short-read DNBseq, and proximity-ligation-based scaffolding to generate a high-quality genome assembly. The resulting assembly has a contig N50 of 2.2 Mbp and a scaffold N50 of 26.7 Mbp. The total assembly length is 568.7 Mbp, of which over 538 Mbp were scaffolded into 19 chromosome-length scaffolds. The identification of 94.5% complete BUSCO genes indicates high assembly completeness. Additionally, we sequenced and assembled a multi-tissue transcriptome with a total length of 255.5 Mbp that was used to aid the annotation of the genome assembly. The annotation resulted in 19,849 annotated transcripts and identified a repeat content of 27.7%. Conclusions: The chromosome-level assembly of provides a high-quality reference genome for future population genomic, phylogenomic, and phylogeographic analyses.
References
Nat Biotechnol. 2011 May 15;29(7):644-52
[PMID: 21572440]
