Complete Mitochondrial Genome Sequence of Ruffe Acerina cernua (Perciformes, Percidae): Mitogenomic Characteristics and Phylogenetic Implications
Complete Mitochondrial Genome Sequence of Ruffe Acerina cernua (Perciformes, Percidae): Mitogenomic Characteristics and Phylogenetic Implications
Yuping Liu, Sige Wang and Tianyan Yang*
ABSTRACT
Acerina cernua is mainly distributed in Europe and Asia, but has recently invaded in North America and new areas of Europe. In China, it is native to the Irtysh River and Ulungur Lake, and considered to be an indigenous fish endemic to Xinjiang. In this paper, the complete mitochondrial genome (16607 bp) of A.cernua was sequenced by high-throughput sequencing technology, including 13 protein-coding genes (PCGs), 22 tRNA genes, 2 rRNA genes, a control region (CR) and a L-strand replication origin (OL), and its gene composition and order were similar to those of most teleosts. The A + T content of the whole mtDNA was 55.39 %, suggesting an obvious anti-G bias (16.64 %). The positive AT-skew (0.01) and negative GC-skew (-0.25) were revealed. The analysis of codon usage showed that NNA-type codons were used most frequently, which was consistent with the A bias at the third codon positions in PCGs. Three base mismatches were detected in the secondary structures of tRNAs, namely A-C, U-U and A-A, which mainly occurred in the amino acid receptor arm and TψC arm. The CR contained three different domains: extended termination-associated sequences, central conserved region (CSB-F, CSB-E and CSB-D) and conserved sequence region (CSB1, CSB2 and CSB3). Maximum likelihood (ML) and Bayesian inference (BI) phylogenetic analyses were performed based on 12 PCGs. The similar topological structures confirmed that the relationship between Acerina and Sander was the closest.
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