PCI Genomics

376

Title *

Chromosome level genome reference of the Caucasian dwarf goby *Knipowitschia* cf. *caucasica*, a new alien Gobiidae invading the River Rhineuse asterix (*) to get italics

Authors *

Alexandra Schoenle, Nadège Guiglielmoni, Tobias Mainz, Carola Greve, Alexander B. Hamadou, Lisa Heermann, Jost Borcherding, Ann-Marie WaldvogelPlease use the format "First name initials family name" as in "Marie S. Curie, Niels H. D. Bohr, Albert Einstein, John R. R. Tolkien, Donna T. Strickland"

Year *

2024

Picture *

Abstract *

The Caucasian dwarf goby Knipowitschia cf. caucasica is a new invasive alien Gobiidae spreading in the Lower Rhine since 2019. Little is known about the invasion biology of the species and further investigations to reconstruct the invasion history are lacking genomic resources. We assembled a high-quality chromosome-scale reference genome of Knipowitschia cf. caucasica by combining PacBio, Omni-C and Illumina technologies. The size of the assembled genome is 956.58 Mb with a N50 scaffold length of 43 Mb, which includes 92.3 % complete Actinopterygii Benchmarking Universal Single-Copy Orthologs. 98.96 % of the assembly sequence was assigned to 23 chromosome-level scaffolds, with a GC-content of 42.83 %. Repetitive elements account for 53.08 % of the genome. The chromosome-level genome contained 26,404 transcripts with 23,210 multi-exons, of which 26,260 genes were functionally annotated. In summary, the high-quality genome assembly provides a fundamental basis to understand the adaptive advantage of the species.

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https://identifiers.org/ena.embl/PRJEB58922You should fill this box only if you chose 'All or part of the results presented in this preprint are based on data'. URL must start with http:// or https://

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https://github.com/fenderglass/Flye, https://github.com/koszullab/instaGRAAL, https://github.com/BGI-Qingdao/TGS-GapCloser, https://github.com/koszullab/hicstuff, https://github.com/kensung-lab/hypo, https://github.com/TGAC/KAT, https://blobtoolkit.genomehubs.org/You should fill this box only if you chose 'Codes have been used in this study'. URL must start with http:// or https://

Keywords (optional)

fish; reference genome; invasive alien species; goby

Methods that require specific expertise (optional)

NonePlease indicate the methods that may require specialised expertise during the peer review process (use a comma to separate various required expertises).

Thematic fields *

ERGA, Vertebrates

Suggested reviewers - Suggest up to 10 reviewers (provide names and Email addresses). (Optional)

Dr. Philine Feulner, philine.feulner@eawag.ch, Sebastian Martin, s.martin@leibniz-zfmk.de, Dr. Tereza Manousaki, tereza@hcmr.gr, Dr. Aureliano Bombarely, abombarely@ibmcp.upv.es, Dr. Kamil S Jaron, kamil.jaron@sanger.ac.uk

e.g. John Doe john@doe.com

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Submission date

2024-04-29 17:52:25

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Iker Irisarri

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