Comparative Mitogenomic Analysis Reveals Dynamics of Intron Within and Between Tricholoma Species and Phylogeny of Basidiomycota
The genus of Tricholoma is a group of important ectomycorrhizal fungi. The overlapping of morphological characteristics often leads to the confusion of Tricholoma species classification. In this study, the mitogenomes of five Tricholoma species were sequenced based on the next-generation sequencing...
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Frontiers Media S.A.
2021-02-01
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| Series: | Frontiers in Genetics |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fgene.2021.534871/full |
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| author | Wenli Huang Huiyu Feng Wenying Tu Chuan Xiong Xin Jin Ping Li Xu Wang Qiang Li |
| author_facet | Wenli Huang Huiyu Feng Wenying Tu Chuan Xiong Xin Jin Ping Li Xu Wang Qiang Li |
| author_sort | Wenli Huang |
| collection | DOAJ |
| description | The genus of Tricholoma is a group of important ectomycorrhizal fungi. The overlapping of morphological characteristics often leads to the confusion of Tricholoma species classification. In this study, the mitogenomes of five Tricholoma species were sequenced based on the next-generation sequencing technology, including T. matsutake SCYJ1, T. bakamatsutake, T. terreum, T. flavovirens, and T. saponaceum. These five mitogenomes were all composed of circular DNA molecules, with sizes ranging from 49,480 to 103,090 bp. Intergenic sequences were considered to be the main factor contributing to size variations of Tricholoma mitogenomes. Comparative mitogenomic analysis showed that the introns of the Agaricales mitogenome experienced frequent loss/gain events. In addition, potential gene transfer was detected between the mitochondrial and nuclear genomes of the five species of Tricholoma. Evolutionary analysis showed that the rps3 gene of the Tricholoma species was under positive selection or relaxed selection in the evolutionary process. In addition, large-scale gene rearrangements were detected between some Tricholoma species. Phylogenetic analysis using the Bayesian inference and maximum likelihood methods based on a combined mitochondrial gene set yielded identical and well-supported tree topologies. This study promoted the understanding of the genetics, evolution, and phylogeny of the Tricholoma genus and related species. |
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| issn | 1664-8021 |
| language | English |
| last_indexed | 2024-04-12T22:15:23Z |
| publishDate | 2021-02-01 |
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| series | Frontiers in Genetics |
| spelling | doaj.art-96cbe0ad64d144a8b7d8f966b45d8c302022-12-22T03:14:33ZengFrontiers Media S.A.Frontiers in Genetics1664-80212021-02-011210.3389/fgene.2021.534871534871Comparative Mitogenomic Analysis Reveals Dynamics of Intron Within and Between Tricholoma Species and Phylogeny of BasidiomycotaWenli Huang0Huiyu Feng1Wenying Tu2Chuan Xiong3Xin Jin4Ping Li5Xu Wang6Qiang Li7Biotechnology and Nuclear Technology Research Institute, Sichuan Academy of Agricultural Sciences, Chengdu, ChinaKey Laboratory of Coarse Cereal Processing, Ministry of Agriculture and Rural Affairs, School of Food and Biological Engineering, Chengdu University, Chengdu, ChinaKey Laboratory of Coarse Cereal Processing, Ministry of Agriculture and Rural Affairs, School of Food and Biological Engineering, Chengdu University, Chengdu, ChinaBiotechnology and Nuclear Technology Research Institute, Sichuan Academy of Agricultural Sciences, Chengdu, ChinaBiotechnology and Nuclear Technology Research Institute, Sichuan Academy of Agricultural Sciences, Chengdu, ChinaBiotechnology and Nuclear Technology Research Institute, Sichuan Academy of Agricultural Sciences, Chengdu, ChinaCollege of Life Sciences, Henan Agricultural University, Zhengzhou, ChinaKey Laboratory of Coarse Cereal Processing, Ministry of Agriculture and Rural Affairs, School of Food and Biological Engineering, Chengdu University, Chengdu, ChinaThe genus of Tricholoma is a group of important ectomycorrhizal fungi. The overlapping of morphological characteristics often leads to the confusion of Tricholoma species classification. In this study, the mitogenomes of five Tricholoma species were sequenced based on the next-generation sequencing technology, including T. matsutake SCYJ1, T. bakamatsutake, T. terreum, T. flavovirens, and T. saponaceum. These five mitogenomes were all composed of circular DNA molecules, with sizes ranging from 49,480 to 103,090 bp. Intergenic sequences were considered to be the main factor contributing to size variations of Tricholoma mitogenomes. Comparative mitogenomic analysis showed that the introns of the Agaricales mitogenome experienced frequent loss/gain events. In addition, potential gene transfer was detected between the mitochondrial and nuclear genomes of the five species of Tricholoma. Evolutionary analysis showed that the rps3 gene of the Tricholoma species was under positive selection or relaxed selection in the evolutionary process. In addition, large-scale gene rearrangements were detected between some Tricholoma species. Phylogenetic analysis using the Bayesian inference and maximum likelihood methods based on a combined mitochondrial gene set yielded identical and well-supported tree topologies. This study promoted the understanding of the genetics, evolution, and phylogeny of the Tricholoma genus and related species.https://www.frontiersin.org/articles/10.3389/fgene.2021.534871/fullTricholomamitochondrial genomeintrongene rearrangementevolutionphylogenetic analysis |
| spellingShingle | Wenli Huang Huiyu Feng Wenying Tu Chuan Xiong Xin Jin Ping Li Xu Wang Qiang Li Comparative Mitogenomic Analysis Reveals Dynamics of Intron Within and Between Tricholoma Species and Phylogeny of Basidiomycota Frontiers in Genetics Tricholoma mitochondrial genome intron gene rearrangement evolution phylogenetic analysis |
| title | Comparative Mitogenomic Analysis Reveals Dynamics of Intron Within and Between Tricholoma Species and Phylogeny of Basidiomycota |
| title_full | Comparative Mitogenomic Analysis Reveals Dynamics of Intron Within and Between Tricholoma Species and Phylogeny of Basidiomycota |
| title_fullStr | Comparative Mitogenomic Analysis Reveals Dynamics of Intron Within and Between Tricholoma Species and Phylogeny of Basidiomycota |
| title_full_unstemmed | Comparative Mitogenomic Analysis Reveals Dynamics of Intron Within and Between Tricholoma Species and Phylogeny of Basidiomycota |
| title_short | Comparative Mitogenomic Analysis Reveals Dynamics of Intron Within and Between Tricholoma Species and Phylogeny of Basidiomycota |
| title_sort | comparative mitogenomic analysis reveals dynamics of intron within and between tricholoma species and phylogeny of basidiomycota |
| topic | Tricholoma mitochondrial genome intron gene rearrangement evolution phylogenetic analysis |
| url | https://www.frontiersin.org/articles/10.3389/fgene.2021.534871/full |
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