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. 2023 Nov 13:8:520.
doi: 10.12688/wellcomeopenres.20345.1. eCollection 2023.

The genome sequence of Pycnococcus provasolii (CCAP190/2) (Guillard, 1991)

David H Green  1 , Cecilia Rad-Menéndez  1 , Christine Campbell  1 , Estelle S Kilias  2 ; Culture Collection of Algae and Protozoa collective; University of Oxford and Wytham Woods Genome Acquisition Lab; Earlham Institute Genome Acquisition Lab and Protists Project; 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 Pycnococcus provasolii (CCAP190/2) (Guillard, 1991)

David H Green et al. Wellcome Open Res. .

Abstract

We present a genome assembly from cultured Pycnococcus provasolii (a marine green alga; Chlorophyta; None; Pseudoscourfieldiales; Pycnococcaceae). The genome sequence is 32.2 megabases in span. Most of the assembly is scaffolded into 44 chromosomal pseudomolecules (99.67%). The mitochondrial and plastid genomes have also been assembled, and the length of the mitochondrial scaffold is 24.3 kilobases and of the plastid genome has been assembled and is 80.2 kilobases in length.

Keywords: Pseudoscourfieldiales; Pycnococcus provasolii; chromosomal; genome sequence; marine green alga.

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Conflict of interest statement

No competing interests were disclosed.

Figures

Figure 1.
Figure 1.. Light microscopy image of the strain 190/2 of Pycnococcus provasolii; available in the Culture Collection of Alae and protozoa (CCAP).
Figure 2.
Figure 2.. Genome assembly of Pycnococcus provasolii, ucPycProv1.2: 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 32,253,916 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 (1,490,684 bp, shown in red). Orange and pale-orange arcs show the N50 and N90 scaffold lengths (757,545 and 486,817 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 chlorophyta_odb10 set is shown in the top right. An interactive version of this figure is available at https://blobtoolkit.genomehubs.org/view/Pycnococcus%20provasolii/dataset/ucPycProv1_1/snail.
Figure 3.
Figure 3.. Genome assembly of Pycnococcus provasolii, ucPycProv1.2: 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/Pycnococcus%20provasolii/dataset/ucPycProv1_1/blob.
Figure 4.
Figure 4.. Genome assembly of Pycnococcus provasolii, ucPycProv1.2: 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/Pycnococcus%20provasolii/dataset/ucPycProv1_1/cumulative.
Figure 5.
Figure 5.. Genome assembly of Pycnococcus provasolii, ucPycProv1.2: Hi-C contact map of the ucPycProv1.2 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=PPdGu0uUSVObW9qATZ_0Ag.
See this image and copyright information in PMC

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