The complete mitochondrial genome and phylogenetic analysis of sugarcane (Saccharum spp. hybrids) line 15a-53

Abstract

The complete mitogenome of Saccharum spp. hybrid 15a-53 was determined in this study, which contains two distinct circular chromosomes, Chromosome 1 and 2. The length of Chromosome 1 is 300,848 bp with the GC content of 43.93%, while Chromosome 2 is 144,713 bp in length with the GC content of 43.57%. In Chromosome 1, 7.14% of the genome (21,468 nucleotides) is coding DNA and 92.86% (279,380 nucleotides) are intergenic region, while in Chromosome 2, 8.20% of genome (11,865 nucleotides) are coding DNA and 91.80% (132,848 nucleotides) are intergenic region. Chromosome 1 contains 20 protein-coding genes (three atp genes, three ccm genes, two cox genes, one mat gene, one mtt gene, six nad genes, and four rps genes), and 21 non-coding genes (15 tRNA and six rRNAs), while in Chromosome 2, there are 13 protein-coding genes (four nad genes, three rps genes, two atp genes, one ccm gene, one cob gene, one cox gene, and one rpl gene) and five tRNA genes. Maximum Likelihood phylogenetic analysis indicated that 15a-53 is close to S. spp. hybrid ROC22, S. spp. hybrid FN15 and S. officinarum Khon Kaen 3. The complete mitochondrial genome herein will provide useful sequence information for phylogenetic and evolutionary studies for Saccharum and Poaceae.

Keywords:

• Sugarcane
• Saccharum spp. hybrid
• mitogenome
• phylogenetic tree

Disclosure statement

No potential conflict of interest was reported by the author(s).

Data availability statement

The data that support the findings of this study are available. The mitochondrial genome sequences rawdata of S. spp. hybrid 15a-53 were deposited in SRA with the accession number: SRR11358601 at the URL (https://www.ncbi.nlm.nih.gov/sra/?term=SRR11358601). The mitochondrial genome sequences of analyzed species (S. spp. hybrid FN15 and S. spp. hybrid ROC22; S. bicolor, Z. mays, O. sativa, T. aestivum, S. officinarum Khon Kaen 3, A. thaliana, and B. napus) were from the NCBI GenBank databases (the URL https://www.ncbi.nlm.nih.gov/genbank/) and the mitogenome of H. vulgare is available in Ensembl (http://asia.ensembl.org/index.html).

Additional information

Funding

501100001809This work was supported by National Natural Science Foundation of China [Grant No. 31701491], the Natural Science Foundation of Hunan Province, China [Grant No. 2019JJ50176], the Open Funding of Hunan Key Laboratory of Economic Crops Genetic Improvement and Integrated Utilization [Grant No. E22009, E22011], the Scientific Research Funding of Hunan University of Science and Technology [Grant No. E51761].