Chromosome-level genome reference of the Caucasian dwarf goby Knipowitschia cf. caucasica, a new alien Gobiidae invading the River Rhine
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-q...
Saved in:
| Main Authors: | , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Peer Community In
2024-11-01
|
| Series: | Peer Community Journal |
| Subjects: | |
| Online Access: | https://peercommunityjournal.org/articles/10.24072/pcjournal.490/ |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1825206440641429504 |
|---|---|
| author | Schoenle, Alexandra Guiglielmoni, Nadège Mainz, Tobias Greve, Carola Hamadou, Alexander Ben Heermann, Lisa Borcherding, Jost Waldvogel, Ann-Marie |
| author_facet | Schoenle, Alexandra Guiglielmoni, Nadège Mainz, Tobias Greve, Carola Hamadou, Alexander Ben Heermann, Lisa Borcherding, Jost Waldvogel, Ann-Marie |
| author_sort | Schoenle, Alexandra |
| collection | DOAJ |
| description | 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. |
| format | Article |
| id | doaj-art-d9d3ef3be9e54bdaac091e444bf03bc8 |
| institution | Kabale University |
| issn | 2804-3871 |
| language | English |
| publishDate | 2024-11-01 |
| publisher | Peer Community In |
| record_format | Article |
| series | Peer Community Journal |
| spelling | doaj-art-d9d3ef3be9e54bdaac091e444bf03bc82025-02-07T10:17:17ZengPeer Community InPeer Community Journal2804-38712024-11-01410.24072/pcjournal.49010.24072/pcjournal.490Chromosome-level genome reference of the Caucasian dwarf goby Knipowitschia cf. caucasica, a new alien Gobiidae invading the River Rhine Schoenle, Alexandra0https://orcid.org/0000-0002-0047-8077Guiglielmoni, Nadège1https://orcid.org/0000-0002-6185-1592Mainz, Tobias2Greve, Carola3Hamadou, Alexander Ben4Heermann, Lisa5https://orcid.org/0000-0003-4620-4087Borcherding, Jost6https://orcid.org/0000-0003-3411-5861Waldvogel, Ann-Marie7https://orcid.org/0000-0003-2637-0766Institute of Zoology, University of Cologne, Zülpicher Str. 47b, 50674 Cologne, GermanyInstitute of Zoology, University of Cologne, Zülpicher Str. 47b, 50674 Cologne, GermanyInstitute of Zoology, University of Cologne, Zülpicher Str. 47b, 50674 Cologne, GermanyLOEWE Center for Translational Biodiversity Genomics, Senckenberganlage 25, 60325 Frankfurt am Main, Germany; Senckenberg Research Institute, Senckenberganlage 25, 60325 Frankfurt am Main, GermanyLOEWE Center for Translational Biodiversity Genomics, Senckenberganlage 25, 60325 Frankfurt am Main, Germany; Senckenberg Research Institute, Senckenberganlage 25, 60325 Frankfurt am Main, GermanyInstitute of Zoology, University of Cologne, Zülpicher Str. 47b, 50674 Cologne, Germany; Federal Agency for Nature Conservation, Konstantinstr. 110, 53179 Bonn, GermanyInstitute of Zoology, University of Cologne, Zülpicher Str. 47b, 50674 Cologne, GermanyInstitute of Zoology, University of Cologne, Zülpicher Str. 47b, 50674 Cologne, GermanyThe 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.https://peercommunityjournal.org/articles/10.24072/pcjournal.490/fishreference genomeinvasive alien speciesgoby |
| spellingShingle | Schoenle, Alexandra Guiglielmoni, Nadège Mainz, Tobias Greve, Carola Hamadou, Alexander Ben Heermann, Lisa Borcherding, Jost Waldvogel, Ann-Marie Chromosome-level genome reference of the Caucasian dwarf goby Knipowitschia cf. caucasica, a new alien Gobiidae invading the River Rhine Peer Community Journal fish reference genome invasive alien species goby |
| title | Chromosome-level genome reference of the Caucasian dwarf goby Knipowitschia cf. caucasica, a new alien Gobiidae invading the River Rhine
|
| title_full | Chromosome-level genome reference of the Caucasian dwarf goby Knipowitschia cf. caucasica, a new alien Gobiidae invading the River Rhine
|
| title_fullStr | Chromosome-level genome reference of the Caucasian dwarf goby Knipowitschia cf. caucasica, a new alien Gobiidae invading the River Rhine
|
| title_full_unstemmed | Chromosome-level genome reference of the Caucasian dwarf goby Knipowitschia cf. caucasica, a new alien Gobiidae invading the River Rhine
|
| title_short | Chromosome-level genome reference of the Caucasian dwarf goby Knipowitschia cf. caucasica, a new alien Gobiidae invading the River Rhine
|
| title_sort | chromosome level genome reference of the caucasian dwarf goby knipowitschia cf caucasica a new alien gobiidae invading the river rhine |
| topic | fish reference genome invasive alien species goby |
| url | https://peercommunityjournal.org/articles/10.24072/pcjournal.490/ |
| work_keys_str_mv | AT schoenlealexandra chromosomelevelgenomereferenceofthecaucasiandwarfgobyknipowitschiacfcaucasicaanewaliengobiidaeinvadingtheriverrhine AT guiglielmoninadege chromosomelevelgenomereferenceofthecaucasiandwarfgobyknipowitschiacfcaucasicaanewaliengobiidaeinvadingtheriverrhine AT mainztobias chromosomelevelgenomereferenceofthecaucasiandwarfgobyknipowitschiacfcaucasicaanewaliengobiidaeinvadingtheriverrhine AT grevecarola chromosomelevelgenomereferenceofthecaucasiandwarfgobyknipowitschiacfcaucasicaanewaliengobiidaeinvadingtheriverrhine AT hamadoualexanderben chromosomelevelgenomereferenceofthecaucasiandwarfgobyknipowitschiacfcaucasicaanewaliengobiidaeinvadingtheriverrhine AT heermannlisa chromosomelevelgenomereferenceofthecaucasiandwarfgobyknipowitschiacfcaucasicaanewaliengobiidaeinvadingtheriverrhine AT borcherdingjost chromosomelevelgenomereferenceofthecaucasiandwarfgobyknipowitschiacfcaucasicaanewaliengobiidaeinvadingtheriverrhine AT waldvogelannmarie chromosomelevelgenomereferenceofthecaucasiandwarfgobyknipowitschiacfcaucasicaanewaliengobiidaeinvadingtheriverrhine |