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. 2022 Dec 21:7:307.
doi: 10.12688/wellcomeopenres.18660.1. eCollection 2022.

The genome sequence of the scale worm, Lepidonotus clava (Montagu, 1808)

Teresa Darbyshire  1 , John Bishop  2 , Nova Mieszkowska  2 , Patrick Adkins  2 , Anna Holmes  1 ; 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; Darwin Tree of Life Consortium
Affiliations

The genome sequence of the scale worm, Lepidonotus clava (Montagu, 1808)

Teresa Darbyshire et al. Wellcome Open Res. .

Abstract

We present a genome assembly from an individual Lepidonotus clava (scale worm; Annelida; Polychaeta; Phyllodocida; Polynoidae). The genome sequence is 1,044 megabases in span. Most of the assembly is scaffolded into 18 chromosomal pseudomolecules. The mitochondrial genome has also been assembled and is 15.6 kilobases in length.

Keywords: Lepidonotus clava; Polychaeta; chromosomal; genome sequence; scale worm.

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Conflict of interest statement

No competing interests were disclosed.

Figures

Figure 1.
Figure 1.
Photographs of the Lepidonotus clava specimen (wpLepClav1) taken immediately prior to dissection and preservation of tissue for whole genome sequencing, showing a) the dorsum b) the head (dorsal view).
Figure 2.
Figure 2.. Genome assembly of Lepidonotus clava, wpLepClav1.1: 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 1,010,252,647 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 (93,563,122 bp, shown in red). Orange and pale-orange arcs show the N50 and N90 scaffold lengths (55,150,419 and 45,382,685 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 metazoa_odb10 set is shown in the top right. An interactive version of this figure is available at https://blobtoolkit.genomehubs.org/view/wpLepClav1.1/dataset/CAKZFK01/snail.
Figure 3.
Figure 3.. Genome assembly of Lepidonotus clava, wpLepClav1.1: GC coverage.
BlobToolKit GC-coverage plot. Scaffolds 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/wpLepClav1.1/dataset/CAKZFK01/blob.
Figure 4.
Figure 4.. Genome assembly of Lepidonotus clava, wpLepClav1.1: 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/wpLepClav1.1/dataset/CAKZFK01/cumulative.
Figure 5.
Figure 5.. Genome assembly Lepidonotus clava, wpLepClav1.1: Hi-C contact map.
Hi-C contact map of the wpLepClav1.1 assembly, visualised using HiGlass. Chromosomes are shown in order of size from left to right and top to bottom. An interactive version of this figure may be viewed at https://genome-note-higlass.tol.sanger.ac.uk/l/?d=eUaRZzx6TJ-22DPb6LlLvg.
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