The complete mitochondrial genome sequence and phylogenetic analysis of Gnathopogon herzensteini(Cypriniformes, Cyprinidae, Gobioninae)

Mao, Ling Feng; Zeng, Yu; Jin, Li; Zhang, Fubin; Liu, Yuying; Gong, Jianhan

doi:10.2478/s11756-020-00667-9

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“…Wang et al [ 50 ] suggested that the size of the mitochondrial genome length in closely related species may be caused by variations in the tandem repeat elements within the CR which can explain the gene overlaps. In addition, we also found that the mitochondrial genome of S. kozlovi was composed of thirty-seven genes (thirteen PCGs, twenty-two tRNAs, two rRNAs) and an OL and a CR; the genome organization and composition of which were in accordance with those of most of fish species reported previously [ 51 , 52 , 53 ]. The AT and GC skews are a measure of asymmetry in the nucleotide composition of the mitochondrial genome.…”

Section: Discussionsupporting

confidence: 87%

Characterization of the Complete Mitochondrial Genome of Schizothorax kozlovi (Cypriniformes, Cyprinidae, Schizothorax) and Insights into the Phylogenetic Relationships of Schizothorax

Qin,

Chen,

Zhang

et al. 2024

Animals

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Schizothorax kozlovi is an endemic and vulnerable fish species found in the upper Yangtze River in China. Over the past few years, the population resources of S. kozlovi have been nearly completely depleted owing to multiple contributing threats. While the complete mitochondrial genomes serve as important molecular markers for phylogenetic and genetic studies, the mitochondrial genome of S. kozlovi has still received little attention. In this study, we analyzed the characterization of the mitochondrial genome of S. kozlovi and investigated the phylogenetic relationships of Schizothorax. The complete mitochondrial genome of S. kozlovi was 16,585 bp in length, which contained thirty-seven genes (thirteen protein-coding genes (PCGs), two ribosomal RNA genes (rRNAs), twenty-two transfer RNA genes (tRNAs)) and two non-coding regions for the origin of light strand (OL) and the control region (CR). There were nine overlapping regions and seventeen intergenic spacers regions in the mitochondrial genome. The genome also showed a bias towards A + T content (55.01%) and had a positive AT-skew (0.08) and a negative GC-skew (−0.20). All the PCGs employed the ATG or GTG as the start codon and TAA, TAG, or single T as the stop codon. Additionally, all of the tRNAs displayed a typical cloverleaf secondary structure, except trnS1 which lacked the D arm. The phylogenetic analysis, based on the maximum likelihood (ML) and Bayesian inference (BI) methods, revealed that the topologies of the phylogenetic tree divided the Schizothorax into four clades and did not support the classification of Schizothorax based on morphology. The phylogenetic status of S. kozlovi was closely related to that of S. chongi. The present study provides valuable genomic information for S. kozlovi and new insights in phylogenetic relationships of Schizothorax. These data could also offer fundamental references and guidelines for the management and conservation of S. kozlovi and other species of Schizothorax.

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