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. 2023 Jul 11:8:297.
doi: 10.12688/wellcomeopenres.19642.1. eCollection 2023.

The genome sequence of the King Ragworm, Alitta virens (Sars, 1835)

Chris Fletcher  1 , Lyndall Pereira da Conceicoa  2 ; Natural History Museum 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 King Ragworm, Alitta virens (Sars, 1835)

Chris Fletcher et al. Wellcome Open Res. .

Abstract

We present a genome assembly from an individual Alitta virens (the King Ragworm; Annelida; Polychaeta; Phyllodocida; Nereididae). The genome sequence is 671.2 megabases in span. Most of the assembly is scaffolded into 14 chromosomal pseudomolecules. The mitochondrial genome has also been assembled and is 15.83 kilobases in length.

Keywords: Alitta virens; King Ragworm; 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 Alitta virens (wpAliVire1) specimen used for genome sequencing.
Figure 2.
Figure 2.. Genome assembly of Alitta virens, wpAliVire1.1: 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 671,169,925 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 (80,028,313 bp, shown in red). Orange and pale-orange arcs show the N50 and N90 scaffold lengths (42,251,612 and 36,633,593 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/wpAliVire1.1/dataset/CAKOAE01/snail.
Figure 3.
Figure 3.. Genome assembly of Alitta virens, wpAliVire1.1: 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/wpAliVire1.1/dataset/CAKOAE01/blob.
Figure 4.
Figure 4.. Genome assembly of Alitta virens, wpAliVire1.1: 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/wpAliVire1.1/dataset/CAKOAE01/cumulative.
Figure 5.
Figure 5.. Genome assembly of Alitta virens, wpAliVire1.1: Hi-C contact map of the wpAliVire1.1 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=IlOLYG6YRWODiRYfatsIpA.
See this image and copyright information in PMC

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