Complete mitochondrial genome assembly and comparative analysis of Colocasia esculenta
Abstract Colocasia esculenta ranks as the fifth most important tuber crop and is known for its high nutritional and medicinal value. However, there is no research on its mitochondrial genome, hindering in-depth exploration of its genomic resources and genetic relationships. Using second- and third-g...
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| Format: | Article |
| Language: | English |
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BMC
2025-01-01
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| Series: | BMC Plant Biology |
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| Online Access: | https://doi.org/10.1186/s12870-025-06082-z |
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| author | Huinan Li Lili Liu Zuyang Qiu Fanglian He Weiqing Dong |
| author_facet | Huinan Li Lili Liu Zuyang Qiu Fanglian He Weiqing Dong |
| author_sort | Huinan Li |
| collection | DOAJ |
| description | Abstract Colocasia esculenta ranks as the fifth most important tuber crop and is known for its high nutritional and medicinal value. However, there is no research on its mitochondrial genome, hindering in-depth exploration of its genomic resources and genetic relationships. Using second- and third-generation sequencing technologies, we assembled and annotated the mitogenome of C. esculenta. Its mitogenome mainly consists of five circular DNA molecules, with a total length of 594,811 bp and a GC content of 46.25%. A total of 55 genes, 157 simple sequence repeats, 29 tandem repeat sequences, 202 dispersed repeat sequences, and 625 RNA editing sites were detected. Most protein-coding genes use ATG as the start codon, and the third position of the codon tends to be A or T (U). GAA, AUU, and UUU are the most common codons in C. esculenta mitochondria. Finally, based on 28 representative plant species, a phylogenetic tree was constructed, revealing a close relationship between C. esculenta and Araceae. This study provides comprehensive information on C. esculenta, laying a foundation for crop genetics and molecular breeding. |
| format | Article |
| id | doaj-art-93c22a96669e461c848c9b9ec318ae0e |
| institution | Kabale University |
| issn | 1471-2229 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Plant Biology |
| spelling | doaj-art-93c22a96669e461c848c9b9ec318ae0e2025-01-19T12:16:50ZengBMCBMC Plant Biology1471-22292025-01-0125111810.1186/s12870-025-06082-zComplete mitochondrial genome assembly and comparative analysis of Colocasia esculentaHuinan Li0Lili Liu1Zuyang Qiu2Fanglian He3Weiqing Dong4Vegetable Research Institute, Guangxi Academy of Agricultural SciencesLipu City Agricultural and Rural BureauLipu City Agricultural and Rural BureauVegetable Research Institute, Guangxi Academy of Agricultural SciencesVegetable Research Institute, Guangxi Academy of Agricultural SciencesAbstract Colocasia esculenta ranks as the fifth most important tuber crop and is known for its high nutritional and medicinal value. However, there is no research on its mitochondrial genome, hindering in-depth exploration of its genomic resources and genetic relationships. Using second- and third-generation sequencing technologies, we assembled and annotated the mitogenome of C. esculenta. Its mitogenome mainly consists of five circular DNA molecules, with a total length of 594,811 bp and a GC content of 46.25%. A total of 55 genes, 157 simple sequence repeats, 29 tandem repeat sequences, 202 dispersed repeat sequences, and 625 RNA editing sites were detected. Most protein-coding genes use ATG as the start codon, and the third position of the codon tends to be A or T (U). GAA, AUU, and UUU are the most common codons in C. esculenta mitochondria. Finally, based on 28 representative plant species, a phylogenetic tree was constructed, revealing a close relationship between C. esculenta and Araceae. This study provides comprehensive information on C. esculenta, laying a foundation for crop genetics and molecular breeding.https://doi.org/10.1186/s12870-025-06082-zColocasia esculentaMitochondrial genomeComparative analysisPhylogenetic relationshipsRepeat sequence |
| spellingShingle | Huinan Li Lili Liu Zuyang Qiu Fanglian He Weiqing Dong Complete mitochondrial genome assembly and comparative analysis of Colocasia esculenta BMC Plant Biology Colocasia esculenta Mitochondrial genome Comparative analysis Phylogenetic relationships Repeat sequence |
| title | Complete mitochondrial genome assembly and comparative analysis of Colocasia esculenta |
| title_full | Complete mitochondrial genome assembly and comparative analysis of Colocasia esculenta |
| title_fullStr | Complete mitochondrial genome assembly and comparative analysis of Colocasia esculenta |
| title_full_unstemmed | Complete mitochondrial genome assembly and comparative analysis of Colocasia esculenta |
| title_short | Complete mitochondrial genome assembly and comparative analysis of Colocasia esculenta |
| title_sort | complete mitochondrial genome assembly and comparative analysis of colocasia esculenta |
| topic | Colocasia esculenta Mitochondrial genome Comparative analysis Phylogenetic relationships Repeat sequence |
| url | https://doi.org/10.1186/s12870-025-06082-z |
| work_keys_str_mv | AT huinanli completemitochondrialgenomeassemblyandcomparativeanalysisofcolocasiaesculenta AT lililiu completemitochondrialgenomeassemblyandcomparativeanalysisofcolocasiaesculenta AT zuyangqiu completemitochondrialgenomeassemblyandcomparativeanalysisofcolocasiaesculenta AT fanglianhe completemitochondrialgenomeassemblyandcomparativeanalysisofcolocasiaesculenta AT weiqingdong completemitochondrialgenomeassemblyandcomparativeanalysisofcolocasiaesculenta |