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. 2023 Jan 23:8:35.
doi: 10.12688/wellcomeopenres.18792.1. eCollection 2023.

The genome sequence of the turban top shell, Gibbula magus (Linnaeus, 1758)

Patrick Adkins  1 , Joanna Harley  1 , Teresa Darbyshire  2 , Anna Holmes  2 ; Marine Biological Association Genome Acquisition Lab; Darwin Tree of Life Barcoding collective; Wellcome Sanger Institute Tree of Life programme; Wellcome Sanger Institute Scientific Operations: DNA Pipelines collective; Tree of Life Core Informatics collective; Kesella Scott-Somme  1 , Nova Mieskowska  1 ; Darwin Tree of Life Consortium
Affiliations

The genome sequence of the turban top shell, Gibbula magus (Linnaeus, 1758)

Patrick Adkins et al. Wellcome Open Res. .

Abstract

We present a genome assembly from an individual Gibbula magus (the turban top shell; Mollusca; Gastropoda; Trochida; Trochidae). The genome sequence is 1,470 megabases in span. Most of the assembly is scaffolded into 18 chromosomal pseudomolecules. The mitochondrial genome has also been assembled and is 16.1 kilobases in length. Gene annotation of this assembly on Ensembl identified 41,167 protein coding genes.

Keywords: Gibbula magus; Trochida; chromosomal; genome sequence; turban top shell.

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Conflict of interest statement

No competing interests were disclosed.

Figures

Figure 1.
Figure 1.. Photographs of the Gibbula magus (xgGibMagu1) specimen used for genome sequencing.
Figure 2.
Figure 2.. Genome assembly of Gibbula magus, xgGibMagu1.1: metrics.
The BlobToolKit Snailplot shows N50 metrics and BUSCO gene completeness. The main plot is divided into 1,000 size-ordered bins around the circumference with each bin representing 0.1% of the 1,470,404,880 bp assembly. The distribution of scaffold lengths is shown in dark grey with the plot radius scaled to the longest scaffold present in the assembly (117,468,434 bp, shown in red). Orange and pale-orange arcs show the N50 and N90 scaffold lengths (80,454,948 and 69,970,916 bp), respectively. The pale grey spiral shows the cumulative scaffold count on a log scale with white scale lines showing successive orders of magnitude. The blue and pale-blue area around the outside of the plot shows the distribution of GC, AT and N percentages in the same bins as the inner plot. A summary of complete, fragmented, duplicated and missing BUSCO genes in the mollusca_odb10 set is shown in the top right. An interactive version of this figure is available at https://blobtoolkit.genomehubs.org/view/xgGibMagu1.1/dataset/CAKZFU01/snail.
Figure 3.
Figure 3.. Genome assembly of Gibbula magus, xgGibMagu1.1: GC coverage.
BlobToolKit GC-coverage plot. Sequences are coloured by phylum. Circles are sized in proportion to scaffold length. Histograms show the distribution of scaffold length sum along each axis. An interactive version of this figure is available at https://blobtoolkit.genomehubs.org/view/xgGibMagu1.1/dataset/CAKZFU01/blob.
Figure 4.
Figure 4.. Genome assembly of Gibbula magus, xgGibMagu1.1: cumulative sequence.
BlobToolKit cumulative sequence plot. The grey line shows cumulative length for all scaffolds. Coloured lines show cumulative lengths of scaffolds assigned to each phylum using the buscogenes taxrule. An interactive version of this figure is available at https://blobtoolkit.genomehubs.org/view/xgGibMagu1.1/dataset/CAKZFU01/cumulative.
Figure 5.
Figure 5.. Genome assembly of Gibbula magus, xgGibMagu1.1: Hi-C contact map.
Hi-C contact map of the xgGibMagu1.1 assembly, visualised using HiGlass. Chromosomes are given in order of size from left to right and top to bottom. An interactive version of this plot is at: https://genome-note-higlass.tol.sanger.ac.uk/l/?d=N9lkINhLTXmGpbn8oj1olQ.
See this image and copyright information in PMC

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