The complete mitochondrial genomes of five critical phytopathogenic Bipolaris species: features, evolution, and phylogeny
Abstract In the present study, three mitogenomes from the Bipolaris genus (Bipolaris maydis, B. zeicola, and B. oryzae) were assembled and compared with the other two reported Bipolaris mitogenomes (B. oryzae and B. sorokiniana). The five mitogenomes were all circular DNA molecules, with lengths ran...
Saved in:
| Main Authors: | , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
BMC
2024-06-01
|
| Series: | IMA Fungus |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s43008-024-00149-6 |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1832569259589369856 |
|---|---|
| author | Xinzheng Song Yuehua Geng Chao Xu Jiaxin Li Yashuang Guo Yan Shi Qingzhou Ma Qiang Li Meng Zhang |
| author_facet | Xinzheng Song Yuehua Geng Chao Xu Jiaxin Li Yashuang Guo Yan Shi Qingzhou Ma Qiang Li Meng Zhang |
| author_sort | Xinzheng Song |
| collection | DOAJ |
| description | Abstract In the present study, three mitogenomes from the Bipolaris genus (Bipolaris maydis, B. zeicola, and B. oryzae) were assembled and compared with the other two reported Bipolaris mitogenomes (B. oryzae and B. sorokiniana). The five mitogenomes were all circular DNA molecules, with lengths ranging from 106,403 bp to 135,790 bp. The mitogenomes of the five Bipolaris species mainly comprised the same set of 13 core protein-coding genes (PCGs), two rRNAs, and a certain number of tRNAs and unidentified open reading frames (ORFs). The PCG length, AT skew and GC skew showed large variability among the 13 PCGs in the five mitogenomes. Across the 13 core PCGs tested, nad6 had the least genetic distance among the 16 Pleosporales species we investigated, indicating that this gene was highly conserved. In addition, the Ka/Ks values for all 12 core PCGs (excluding rps3) were < 1, suggesting that these genes were subject to purifying selection. Comparative mitogenomic analyses indicate that introns were the main factor contributing to the size variation of Bipolaris mitogenomes. The introns of the cox1 gene experienced frequent gain/loss events in Pleosporales species. The gene arrangement and collinearity in the mitogenomes of the five Bipolaris species were almost highly conserved within the genus. Phylogenetic analysis based on combined mitochondrial gene datasets showed that the five Bipolaris species formed well-supported topologies. This study is the first report on the mitogenomes of B. maydis and B. zeicola, as well as the first comparison of mitogenomes among Bipolaris species. The findings of this study will further advance investigations into the population genetics, evolution, and genomics of Bipolaris species. |
| format | Article |
| id | doaj-art-5e775d96e321446fbef3c2022e6d3740 |
| institution | Kabale University |
| issn | 2210-6359 |
| language | English |
| publishDate | 2024-06-01 |
| publisher | BMC |
| record_format | Article |
| series | IMA Fungus |
| spelling | doaj-art-5e775d96e321446fbef3c2022e6d37402025-02-02T22:33:20ZengBMCIMA Fungus2210-63592024-06-0115111610.1186/s43008-024-00149-6The complete mitochondrial genomes of five critical phytopathogenic Bipolaris species: features, evolution, and phylogenyXinzheng Song0Yuehua Geng1Chao Xu2Jiaxin Li3Yashuang Guo4Yan Shi5Qingzhou Ma6Qiang Li7Meng Zhang8Department of Plant Pathology, Henan Agricultural UniversityDepartment of Plant Pathology, Henan Agricultural UniversityDepartment of Plant Pathology, Henan Agricultural UniversityDepartment of Plant Pathology, Henan Agricultural UniversityDepartment of Plant Pathology, Henan Agricultural UniversityDepartment of Plant Pathology, Henan Agricultural UniversityDepartment of Plant Pathology, Henan Agricultural UniversitySchool of Food and Biological Engineering, Chengdu UniversityDepartment of Plant Pathology, Henan Agricultural UniversityAbstract In the present study, three mitogenomes from the Bipolaris genus (Bipolaris maydis, B. zeicola, and B. oryzae) were assembled and compared with the other two reported Bipolaris mitogenomes (B. oryzae and B. sorokiniana). The five mitogenomes were all circular DNA molecules, with lengths ranging from 106,403 bp to 135,790 bp. The mitogenomes of the five Bipolaris species mainly comprised the same set of 13 core protein-coding genes (PCGs), two rRNAs, and a certain number of tRNAs and unidentified open reading frames (ORFs). The PCG length, AT skew and GC skew showed large variability among the 13 PCGs in the five mitogenomes. Across the 13 core PCGs tested, nad6 had the least genetic distance among the 16 Pleosporales species we investigated, indicating that this gene was highly conserved. In addition, the Ka/Ks values for all 12 core PCGs (excluding rps3) were < 1, suggesting that these genes were subject to purifying selection. Comparative mitogenomic analyses indicate that introns were the main factor contributing to the size variation of Bipolaris mitogenomes. The introns of the cox1 gene experienced frequent gain/loss events in Pleosporales species. The gene arrangement and collinearity in the mitogenomes of the five Bipolaris species were almost highly conserved within the genus. Phylogenetic analysis based on combined mitochondrial gene datasets showed that the five Bipolaris species formed well-supported topologies. This study is the first report on the mitogenomes of B. maydis and B. zeicola, as well as the first comparison of mitogenomes among Bipolaris species. The findings of this study will further advance investigations into the population genetics, evolution, and genomics of Bipolaris species.https://doi.org/10.1186/s43008-024-00149-6BipolarisMitogenomeIntronGene rearrangementComparative analysisPhylogenetic analysis |
| spellingShingle | Xinzheng Song Yuehua Geng Chao Xu Jiaxin Li Yashuang Guo Yan Shi Qingzhou Ma Qiang Li Meng Zhang The complete mitochondrial genomes of five critical phytopathogenic Bipolaris species: features, evolution, and phylogeny IMA Fungus Bipolaris Mitogenome Intron Gene rearrangement Comparative analysis Phylogenetic analysis |
| title | The complete mitochondrial genomes of five critical phytopathogenic Bipolaris species: features, evolution, and phylogeny |
| title_full | The complete mitochondrial genomes of five critical phytopathogenic Bipolaris species: features, evolution, and phylogeny |
| title_fullStr | The complete mitochondrial genomes of five critical phytopathogenic Bipolaris species: features, evolution, and phylogeny |
| title_full_unstemmed | The complete mitochondrial genomes of five critical phytopathogenic Bipolaris species: features, evolution, and phylogeny |
| title_short | The complete mitochondrial genomes of five critical phytopathogenic Bipolaris species: features, evolution, and phylogeny |
| title_sort | complete mitochondrial genomes of five critical phytopathogenic bipolaris species features evolution and phylogeny |
| topic | Bipolaris Mitogenome Intron Gene rearrangement Comparative analysis Phylogenetic analysis |
| url | https://doi.org/10.1186/s43008-024-00149-6 |
| work_keys_str_mv | AT xinzhengsong thecompletemitochondrialgenomesoffivecriticalphytopathogenicbipolarisspeciesfeaturesevolutionandphylogeny AT yuehuageng thecompletemitochondrialgenomesoffivecriticalphytopathogenicbipolarisspeciesfeaturesevolutionandphylogeny AT chaoxu thecompletemitochondrialgenomesoffivecriticalphytopathogenicbipolarisspeciesfeaturesevolutionandphylogeny AT jiaxinli thecompletemitochondrialgenomesoffivecriticalphytopathogenicbipolarisspeciesfeaturesevolutionandphylogeny AT yashuangguo thecompletemitochondrialgenomesoffivecriticalphytopathogenicbipolarisspeciesfeaturesevolutionandphylogeny AT yanshi thecompletemitochondrialgenomesoffivecriticalphytopathogenicbipolarisspeciesfeaturesevolutionandphylogeny AT qingzhouma thecompletemitochondrialgenomesoffivecriticalphytopathogenicbipolarisspeciesfeaturesevolutionandphylogeny AT qiangli thecompletemitochondrialgenomesoffivecriticalphytopathogenicbipolarisspeciesfeaturesevolutionandphylogeny AT mengzhang thecompletemitochondrialgenomesoffivecriticalphytopathogenicbipolarisspeciesfeaturesevolutionandphylogeny AT xinzhengsong completemitochondrialgenomesoffivecriticalphytopathogenicbipolarisspeciesfeaturesevolutionandphylogeny AT yuehuageng completemitochondrialgenomesoffivecriticalphytopathogenicbipolarisspeciesfeaturesevolutionandphylogeny AT chaoxu completemitochondrialgenomesoffivecriticalphytopathogenicbipolarisspeciesfeaturesevolutionandphylogeny AT jiaxinli completemitochondrialgenomesoffivecriticalphytopathogenicbipolarisspeciesfeaturesevolutionandphylogeny AT yashuangguo completemitochondrialgenomesoffivecriticalphytopathogenicbipolarisspeciesfeaturesevolutionandphylogeny AT yanshi completemitochondrialgenomesoffivecriticalphytopathogenicbipolarisspeciesfeaturesevolutionandphylogeny AT qingzhouma completemitochondrialgenomesoffivecriticalphytopathogenicbipolarisspeciesfeaturesevolutionandphylogeny AT qiangli completemitochondrialgenomesoffivecriticalphytopathogenicbipolarisspeciesfeaturesevolutionandphylogeny AT mengzhang completemitochondrialgenomesoffivecriticalphytopathogenicbipolarisspeciesfeaturesevolutionandphylogeny |