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. 2025 Feb 18;12(1):293.
doi: 10.1038/s41597-025-04631-7.

Chromosome-level genome assembly of Phytoseiulus persimilis Athias-Henriot

Xinyuan Zhou  1 , Endong Wang  1 , Xuenong Xu  2   3 , Bo Zhang  4   5
Affiliations

Chromosome-level genome assembly of Phytoseiulus persimilis Athias-Henriot

Xinyuan Zhou et al. Sci Data. .

Abstract

As a globally recognized predatory mite, Phytoseiulus persimilis Athias-Henriot is known for its highly effective control of pest mites. Also, as a model species in Phytoseiidae, P. persimilis possesses unique biological characteristics, such as the first offspring developing into a male with a strict sex sequence. However, the genetic mechanisms have not been fully unrevealed yet. To lay the groundwork for genetic research, we presented a high-quality chromosomal genome of P. persimilis with PacBio HiFi and Hi-C data. The total length of genome is 214.23 Mb, of which 190.48 (88.91%) is anchored on 4 chromosomes. The scaffold N50 is 57.95 Mb and the BUSCO (Benchmarking Universal Single-Copy Orthologs) completeness is 98.3%. Repeat elements comprise 27.59% (59.10 Mb) of the genome. The genome contained 15,847 predicted protein-coding genes, 12,344 of which were annotated for function. This high-quality genome of P. persimilis would allow us to explore the genetic mechanism underlying the biological characteristics of the Phytoseiidae species, and provide possibilities for the industrial optimization of commercial predatory mites in the future.

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Conflict of interest statement

Competing interests: The authors declare no competing interests.

Figures

Fig. 1
Fig. 1
The workflow of this study. The panes with green, orange, light blue and blue represent the processes of genome assembly, genome size estimation, transcript assembly and genome annotation, respectively.
Fig. 2
Fig. 2
Estimation of P. persimilis genome size with 21-mer based on raw Illumina short-reads (a) and raw PacBio HiFi reads (b).
Fig. 3
Fig. 3
Genome-wide Hi-C data heatmap and circular chromosome representation in P. persimilis genome assembly. (a) The heatmap of chromosome interactions. Colors indicate the frequency of Hi-C links, ranging from yellow (low) to red (high). The black box represents a chromosome. (b) Circos plot of the genomic elements distribution. The tracks indicate (i) length of the chromosome, (ii) gene density, colors indicate ranging from orange (low) to red (high) (iii) GC density, colors indicate the density of GC ranging from light green (low) to dark green (high), and (iv) density distribution of transposable element (TE). The densities of genes, GC, and TEs were calculated in 100 kb windows. Center: photo of a P. persimilis female adult.
See this image and copyright information in PMC

References

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