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. 2023 Jul 20:8:315.
doi: 10.12688/wellcomeopenres.19570.1. eCollection 2023.

The genome sequence of a scale worm, Harmothoe impar (Johnston, 1839)

Patrick Adkins  1 , Robert Mrowicki  1 , Joanna Harley  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 a scale worm, Harmothoe impar (Johnston, 1839)

Patrick Adkins et al. Wellcome Open Res. .

Abstract

We present a genome assembly from an individual scale worm, Harmothoe impar; Annelida; Polychaeta; Phyllodocida; Polynoidae). The genome sequence is 1,512.3 megabases in span. Most of the assembly is scaffolded into 18 chromosomal pseudomolecules. The mitochondrial genome has also been assembled and is 15.37 kilobases in length.

Keywords: (a scale worm); Harmothoe impar; Phyllodocida; chromosomal; genome sequence.

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Conflict of interest statement

No competing interests were disclosed.

Figures

Figure 1.
Figure 1.. Photograph of the Harmothoe impar (wpHarImpa5) specimen used for genome sequencing.
A. Head, dorsal view. B. Head, ventral view. C. Elytra.
Figure 2.
Figure 2.. Genome assembly of Harmothoe impar, wpHarImpa5.1: 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 1,512,319,410 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 (124,100,948 bp, shown in red). . Orange and pale-orange arcs show the N50 and N90 scaffold lengths (83,397,641 and 65,536,652 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/wpHarImpa5.1/dataset/CANHQG01/snail.
Figure 3.
Figure 3.. Genome assembly of Harmothoe impar, wpHarImpa5.1: 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/wpHarImpa5.1/dataset/CANHQG01/blob.
Figure 4.
Figure 4.. Genome assembly of Harmothoe impar, wpHarImpa5.1: 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/wpHarImpa5.1/dataset/CANHQG01/cumulative.
Figure 5.
Figure 5.. Genome assembly of Harmothoe impar, wpHarImpa5.1: Hi-C contact map of the wpHarImpa5.1 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=UxszSefoSW-pQuBgl6frig.
See this image and copyright information in PMC

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