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Nematode genome announcement: A chromosome-scale genome assembly for the Pristionchus pacificus reference mapping strain PS1843

Waltraud Röseler

Waltraud Röseler

Department for Integrative Evolutionary Biology, Max Planck Institute for BiologyTübingen, Germany
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Röseler, Waltraud
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Ralf J. Sommer

Ralf J. Sommer

Department for Integrative Evolutionary Biology, Max Planck Institute for BiologyTübingen, Germany
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Sommer, Ralf J.
 e 
Christian Rödelsperger

Christian Rödelsperger

Department for Integrative Evolutionary Biology, Max Planck Institute for BiologyTübingen, Germany
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Rödelsperger, Christian
  
11 set 2024
Nematode genome announcement: A chromosome-scale genome assembly for the Pristionchus pacificus reference mapping strain PS1843's Cover Image
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Categoria dell'articolo: Research Paper
Pubblicato online: 11 set 2024
Ricevuto: 03 lug 2024
DOI: https://doi.org/10.2478/jofnem-2024-0063
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© 2024 Waltraud Röseler et al., published by Sciendo
This work is licensed under the Creative Commons Attribution 4.0 International License.

Figure 1:

Comparison between the two chromosome-scale P. pacificus genomes. The dotplots visualize the megabase coordinates of alignments between the P. pacificus PS312 chromosomes (x-axis) and their counterparts in the PS1843 genome (y-axis). The whole genome alignments were generated by the minimap 2 aligner (options: -N 0 -t 6 -x asm5), and the coordinates were extracted from the resulting PAF file. The gray dashed lines mark 52 assembly gaps in the PS1843 genome that were filled with undetermined sequence stretches of 100 nucleotides in length.
Comparison between the two chromosome-scale P. pacificus genomes. The dotplots visualize the megabase coordinates of alignments between the P. pacificus PS312 chromosomes (x-axis) and their counterparts in the PS1843 genome (y-axis). The whole genome alignments were generated by the minimap 2 aligner (options: -N 0 -t 6 -x asm5), and the coordinates were extracted from the resulting PAF file. The gray dashed lines mark 52 assembly gaps in the PS1843 genome that were filled with undetermined sequence stretches of 100 nucleotides in length.

Characteristics of different P_ pacificus genome assemblies_ BUSCO values include single copy and duplicated genes_

PS312 (Version El Paco) PS1843 (Prabh and Rödelsperger 2022) PS1843 (This study)
Number of contigs/scaffolds 47 39,807 11
Total genome size (Mb) 155.0 174.1 171.2
N50 (Mb) 23.9 0.4 26.3
BUSCO (genome) (%) 92.6 88.8 92.4
Number of genes 28,996 26,757 30,098
BUSCO (proteins) (%) 97.6 88.8 94.9
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