Logo: to the web site of Uppsala University

uu.sePublications from Uppsala University
Change search
CiteExportLink to record
Permanent link

Direct link
Cite
Citation style
  • apa
  • ieee
  • modern-language-association
  • 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)
Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Pharmacy, Department of Pharmaceutical Biosciences.ORCID iD: 0000-0003-0499-1430
Stockholm Univ, Dept Biochem & Biophys, Sci Life Lab, Natl Bioinformat Infrastruct Sweden, SE-17121 Solna, Sweden..
Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Medical Biochemistry and Microbiology. Uppsala University, Science for Life Laboratory, SciLifeLab. (National Bioinformatics Infrastructure Sweden (NBIS))ORCID iD: 0000-0002-0121-2393
Umeå Univ, Dept Mol Biol, Sci Life Lab, Natl Bioinformat Infrastruct Sweden, S-90187 Umeå, Sweden..
Show others and affiliations
2023 (English)In: G3: Genes, Genomes, Genetics, E-ISSN 2160-1836, Vol. 13, no 10Article 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
Keywords [en]
Geodia barretti, Porifera, Tetractinellida, Sweden, symbionts, metagenome-assembled genome
National Category
Genetics and Genomics
Identifiers
URN: urn:nbn:se:uu:diva-522465DOI: 10.1093/g3journal/jkad192ISI: 001058715700001PubMedID: 37619978OAI: oai:DiVA.org:uu-522465DiVA, id: diva2:1834697
Funder
EU, Horizon 2020, 679849Knut and Alice Wallenberg FoundationGöran Gustafsson Foundation for Research in Natural Sciences and Medicine, BS2017-0037I Johanssons stipendiestiftelseAvailable from: 2024-02-05 Created: 2024-02-05 Last updated: 2025-02-07Bibliographically approved

Open Access in DiVA

fulltext(688 kB)270 downloads
File information
File name FULLTEXT01.pdfFile size 688 kBChecksum SHA-512
439f049e9053fa7eb9c629a8eebf2f8adee9b6f03a635077aecdba29eac87e03b7625770abd50f8ff75024fd7f7e325626cbe9dec32983a3d860b9cb2cbbc840
Type fulltextMimetype application/pdf

Other links

Publisher's full textPubMed

Authority records

Steffen, KarinSoler, LucileCárdenas, Paco

Search in DiVA

By author/editor
Steffen, KarinSoler, LucileCárdenas, Paco
By organisation
Department of Pharmaceutical BiosciencesDepartment of Medical Biochemistry and MicrobiologyScience for Life Laboratory, SciLifeLab
In the same journal
G3: Genes, Genomes, Genetics
Genetics and Genomics

Search outside of DiVA

GoogleGoogle Scholar
Total: 272 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: 272 hits
CiteExportLink to record
Permanent link

Direct link
Cite
Citation style
  • apa
  • ieee
  • modern-language-association
  • 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