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

Journal of Nematology
Volume 56 (2024): Issue 1 (March 2024)
By:
Open Access
|Sep 2024

Figures & Tables

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/scaffolds4739,80711
Total genome size (Mb)155.0174.1171.2
N50 (Mb)23.90.426.3
BUSCO (genome) (%)92.688.892.4
Number of genes28,99626,75730,098
BUSCO (proteins) (%)97.688.894.9
DOI: https://doi.org/10.2478/jofnem-2024-0063 | Journal eISSN: 2640-396X | Journal ISSN: 0022-300X
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Language: English
Submitted on: Jul 3, 2024
Published on: Sep 11, 2024
Published by: Society of Nematologists, Inc.
In partnership with: Paradigm Publishing Services
Publication frequency: 1 times per year
Keywords:
Comparative genomics,
Evolution,
Gene loss,
Genome announcement,
Washington
Related subjects:
Life sciences,
Life sciences, other

© 2024 Waltraud Röseler, Ralf J. Sommer, Christian Rödelsperger, published by Society of Nematologists, Inc.
This work is licensed under the Creative Commons Attribution 4.0 License.

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