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. 2023 Sep 30;13(10):jkad192.
doi: 10.1093/g3journal/jkad192.

Whole genome sequence of the deep-sea sponge Geodia barretti (Metazoa, Porifera, Demospongiae)

Karin Steffen  1 , Estelle Proux-Wéra  2 , Lucile Soler  3 , Allison Churcher  4 , John Sundh  2 , Paco Cárdenas  1
Affiliations

Whole genome sequence of the deep-sea sponge Geodia barretti (Metazoa, Porifera, Demospongiae)

Karin Steffen et al. G3 (Bethesda). .

Abstract

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.

Keywords: Geodia barretti; Porifera; Sweden; Tetractinellida; metagenome-assembled genome; symbionts.

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Conflict of interest statement

Conflicts of interest The authors declare no conflict of interest.

Figures

Fig. 1.
Fig. 1.
Cladogram of all sponge species with genomes published to date, drawn after (Morrow and Cárdenas 2015; Plese et al. 2021).
Fig. 2.
Fig. 2.
a) G. barretti specimens freshly collected on 4 May 2016, Kosterfjord, Sweden: left (UPSZMC 184976) and right (UPSZMC 184975) with arrow, the specimen chosen for whole-genome sequencing. b) TEM image of G. barretti (UPSZMC 184975) showing 2 types of sponge archeocyte cells archaeocytes (ac) and spherulous cells (sc). All other smaller bodies are microbial symbionts (m). Image courtesy of V. Koutsouveli and A. Riesgo, NHM London. c) DGGE image of DNA prior to PacBio library production. Image courtesy of SciLifeLab Uppsala.
Fig. 3.
Fig. 3.
a) L90, number of contigs that cumulatively cover 90% of the assembly and b) the corresponding BUSCO completeness (C). The tail indicates the number of duplicate BUSCOs. c) The N50 compared to the number of Ns in the assemblies.
See this image and copyright information in PMC

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