Comparative Mitogenomic Analysis Reveals Intraspecific, Interspecific Variations and Genetic Diversity of Medical Fungus Ganoderma
Abstract
:1. Introduction
2. Materials and Methods
2.1. Sequencing, Assembly, and Annotation of Mitogenomes
2.2. Sequence Analysis
2.3. Intron Analysis
2.4. Phylogenetic Analysis
3. Results
3.1. Characterization of the Four Ganoderma Mitogenomes
3.2. Codon Usage Analysis
3.3. Repetitive Sequences Analysis
3.4. Variation, Genetic Distance, and Evolutionary Rates of Core Genes
3.5. Intron Dynamic Analysis
3.6. Comparative Mitogenomic Analysis
3.7. Gene Arrangement and Phylogenetic Analyses
4. Discussion
4.1. Mitogenome Size Variation in Ganoderma
4.2. Mitogenome Content Evolution in Ganoderma
4.3. Dynamics of Introns in Ganoderma
4.4. Gene Rearrangements and Phylogenetic Analysis
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
Abbreviations
References
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PCGs | G. lucidum | G. lingzhi | Function | ||||
---|---|---|---|---|---|---|---|
GL | s26 | s37 | s62 | s74 | s8 | ||
orf109 | * | * | * | * | * | * | RNA polymerase |
orf115 | / | / | / | * | / | / | DNA polymerase |
orf118 | / | / | / | * | * | / | GIY-YIG endonuclease |
orf151 | * | * | *(orf167) | * | * | hypothetical protein | |
orf152 | / | / | / | / | * | / | hypothetical protein |
orf190 | / | / | * | / | * | / | DNA polymerase |
orf192 | * | * | / | / | / | * | hypothetical protein |
orf202 | / | / | / | * | / | / | RNA polymerase |
orf211 | / | / | * | / | / | RNA polymerase | |
orf219 | / | / | * | / | * | / | LAGLIDADG endonuclease |
orf250 | / | / | / | * | / | / | DNA polymerase |
orf283 | * | / | * | / | / | / | DNA polymerase |
orf294 | * | * | / | / | / | * | hypothetical protein |
orf309 | / | / | / | * | / | / | LAGLIDADG endonuclease |
orf396 | * | * | * | / | * | * | DNA polymerase |
orf413 | / | / | / | * | / | hypothetical protein | |
orf429 | *(orf439) | * | * | / | * | * | hypothetical protein |
orf568 | * | * | * | / | * | * | RNA polymerase |
orf744 | / | / | / | / | * | / | DNA polymerase |
orf879 | / | / | / | / | * | / | DNA polymerase |
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Li, Q.; Zhang, T.; Li, L.; Bao, Z.; Tu, W.; Xiang, P.; Wu, Q.; Li, P.; Cao, M.; Huang, W. Comparative Mitogenomic Analysis Reveals Intraspecific, Interspecific Variations and Genetic Diversity of Medical Fungus Ganoderma. J. Fungi 2022, 8, 781. https://doi.org/10.3390/jof8080781
Li Q, Zhang T, Li L, Bao Z, Tu W, Xiang P, Wu Q, Li P, Cao M, Huang W. Comparative Mitogenomic Analysis Reveals Intraspecific, Interspecific Variations and Genetic Diversity of Medical Fungus Ganoderma. Journal of Fungi. 2022; 8(8):781. https://doi.org/10.3390/jof8080781
Chicago/Turabian StyleLi, Qiang, Ting Zhang, Lijiao Li, Zhijie Bao, Wenying Tu, Peng Xiang, Qian Wu, Ping Li, Mei Cao, and Wenli Huang. 2022. "Comparative Mitogenomic Analysis Reveals Intraspecific, Interspecific Variations and Genetic Diversity of Medical Fungus Ganoderma" Journal of Fungi 8, no. 8: 781. https://doi.org/10.3390/jof8080781