Umeå University's logo

umu.sePublications
Change search
CiteExportLink to record
Permanent link

Direct link
Cite
Citation style
  • apa
  • ieee
  • vancouver
  • Other style
More styles
Language
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Other locale
More languages
Output format
  • html
  • text
  • asciidoc
  • rtf
Whole genome sequence of the deep-sea sponge Geodia barretti (Metazoa, Porifera, Demospongiae)
Pharmacognosy, Department of Pharmaceutical Biosciences, Uppsala University, Uppsala, Sweden.
Department of Biochemistry and Biophysics, National Bioinformatics Infrastructure Sweden, Science for Life Laboratory, Stockholm University, Solna, Sweden.
Department of Medical Biochemistry and Microbiology, National Bioinformatics Infrastructure Sweden (NBIS), Science for Life Laboratory, Uppsala University, Uppsala, Sweden.
Umeå University, Faculty of Medicine, Department of Molecular Biology (Faculty of Medicine).ORCID iD: 0000-0003-1902-3002
Show others and affiliations
2023 (English)In: G3: Genes, Genomes, Genetics, E-ISSN 2160-1836, Vol. 13, no 10, article id jkad192Article in journal (Refereed) Published
Abstract [en]

Sponges are among the earliest branching extant animals. As such, genetic data from this group are valuable for understanding the evolution of various traits and processes in other animals. However, like many marine organisms, they are notoriously difficult to sequence, and hence, genomic data are scarce. Here, we present the draft genome assembly for the North Atlantic deep-sea high microbial abundance species Geodia barretti Bowerbank 1858, from a single individual collected on the West Coast of Sweden. The nuclear genome assembly has 4,535 scaffolds, an N50 of 48,447 bp and a total length of 144 Mb; the mitochondrial genome is 17,996 bp long. BUSCO completeness was 71.5%. The genome was annotated using a combination of ab initio and evidence-based methods finding 31,884 protein-coding genes.

Place, publisher, year, edition, pages
Oxford University Press, 2023. Vol. 13, no 10, article id jkad192
Keywords [en]
Geodia barretti, metagenome-assembled genome, Porifera, Sweden, symbionts, Tetractinellida
National Category
Genetics and Genomics Evolutionary Biology
Identifiers
URN: urn:nbn:se:umu:diva-215937DOI: 10.1093/g3journal/jkad192ISI: 001058715700001PubMedID: 37619978Scopus ID: 2-s2.0-85174513308OAI: oai:DiVA.org:umu-215937DiVA, id: diva2:1809151
Funder
EU, Horizon 2020, 679849Knut and Alice Wallenberg FoundationAvailable from: 2023-11-02 Created: 2023-11-02 Last updated: 2025-02-01Bibliographically approved

Open Access in DiVA

fulltext(687 kB)84 downloads
File information
File name FULLTEXT01.pdfFile size 687 kBChecksum SHA-512
1d4e12439350e15372c09c35003458d9ee0e2c214a2e84d9ebef885f387131f596601b5211b41b230f1ee7a5005f24c4616b6334a3501036ee0a088b086291a2
Type fulltextMimetype application/pdf

Other links

Publisher's full textPubMedScopus

Authority records

Churcher, Allison M

Search in DiVA

By author/editor
Churcher, Allison M
By organisation
Department of Molecular Biology (Faculty of Medicine)
In the same journal
G3: Genes, Genomes, Genetics
Genetics and GenomicsEvolutionary Biology

Search outside of DiVA

GoogleGoogle Scholar
Total: 84 downloads
The number of downloads is the sum of all downloads of full texts. It may include eg previous versions that are now no longer available

doi
pubmed
urn-nbn

Altmetric score

doi
pubmed
urn-nbn
Total: 211 hits
CiteExportLink to record
Permanent link

Direct link
Cite
Citation style
  • apa
  • ieee
  • vancouver
  • Other style
More styles
Language
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Other locale
More languages
Output format
  • html
  • text
  • asciidoc
  • rtf