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Characterization of the complete mitochondrial genome of Paecilomyces variotii and comparative evolutionary mitochondriomics of 36 fungi

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Abstract

Backgroud

Paecilomyces variotii has important economic value in stimulating crop growth, biodegradation, and other aspects. Up to now, there are no research reports on its mitochondrial genome.

Methods and results

The mitochondrial genome of Paecilomyces variotii was determined with the next-generation sequencing method (Illumina, NovaSeq), and its characteristics were analyzed using various bioinformatics approaches. The length of complete mitochondrial genome sequence of P. variotii is 40,965 bp and consists of 14 protein-coding genes, 2 ribosomal RNA genes, 1 ribosomal protein S3 gene, 26 transport RNA genes. The results of phylogenetics analysis using Bayesian inference and Maximum likelihood methods showed that P. variotii belongs to the Eurotiales order in the Thermoascaceae family, and 9 genera within the Eurotiomycetes class were effectively distinguished with high support rates (bootstrap value > 92% and posterior probabilities > 99%). The analysis of synonymous substitution rates and nonsynonymous substitution rates indicated that the Ka/Ks values of the 14 PCGs in the mitochondrial genomes of the two orders in the Eurotiomycetes class ranged from 0 to 0.4333.

Conclusions

This study revealed the structural and sequence information characteristics of the mitochondrial genome of P. variotii, and the phylogenetic results strongly support its classification within the family Thermoascaceae, consistent with traditional morphological taxonomy studies. The 14 PCGs in the mitochondrial genomes of the two orders in the Eurotiomycetes class are subject to strong purifying (negative) selection. The results of this research provides an important molecular basis for the development of genomics, evolutionary genetics and molecular markers of P. variotii in the future.

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Data availability

All referred data of this MitoGenome Announcements is submitted to NCBI (National Center for Biotechnology Information Database). Themitogenome of P. variotii (GenBank accession number: OP402841) is published in the NCBI.

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Funding

This work was funded by the projects as follows: Special Funds for the Construction of Innovative Province in Hunan [grant number: 2020NK4244], Excellent Youth Project of Hunan Education Department [grant number: 21B0782], Scientific Research Initializing Fund of Hunan University of Humanities, Science and Technology [grant number: 82500282], The Aid program for Science and Technology Innovative Research Team in Higher Educational Institutions of Hunan Province [grant number: 201937924].

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Authors and Affiliations

  1. Key Laboratory of Green Control of Crop Pests in Hunan Higher Education, and Hunan Provincial Collaborative Innovation Center for Field Weeds Control, Hunan University of Humanities, Science and Technology, Loudi, 417000, China

    Yujie Zhang, Zhengyi Li, Yijia Deng, Bin Liu, Minyi Huang & Zhiyin Chen

  2. Loudi Institute of Agricultural and Sciences, Loudi, 417000, China

    Yujie Zhang, Zhengyi Li, Yijia Deng, Bin Liu, Minyi Huang & Zhiyin Chen

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  1. Yujie Zhang
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  2. Zhengyi Li
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  3. Yijia Deng
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  4. Bin Liu
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  5. Minyi Huang
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  6. Zhiyin Chen
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Contributions

Writing - original draft, Deng Yijia; Writing - review & editing, Zhang Yujie; Formal analysis, L Zhengyi, Huang Minyi; Investigation, Liu Bin; Funding acquisition, Chen Zhiyin. All authors agree to be accountable for all aspects of the work.

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Correspondence to Zhiyin Chen.

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Zhang, Y., Li, Z., Deng, Y. et al. Characterization of the complete mitochondrial genome of Paecilomyces variotii and comparative evolutionary mitochondriomics of 36 fungi. Mol Biol Rep 51, 390 (2024). https://doi.org/10.1007/s11033-024-09330-x

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