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KMID : 0381120070290030331
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Genes and Genomics
2007 Volume.29 No. 3 p.331 ~ p.341
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The Complete Mitochondrial DNA Sequence of the Jeju Salamander, Hynobius quelpaertensis, and the Phylogenetic Relationships among the Hynobiidae
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Oh Dae-Ju
Chang Min-Ho
Oh Hong-Sik
Jung Yong-Hwan
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Abstract
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We sequenced and characterized the complete mitochondrial genome of the Jeju salamander Hynobius quelpaertensis (Caudata, Hynobiidae). This genome, consisting of 16,407 base pairs (bp), encoded genes for 13 protein-coding genes, two ribosomal RNAs, 22 transfer RNAs, and a noncoding control region as found in other vertebrates. Most of genes from H. quelpaertensis were encoded on the H-strand, while the ND6 and eight tRNA (Gln, Ala, Asn, Cys, Tyr, Ser-UCN, Glu, and Pro) genes were encoded on the L-strand. All mitochondrial protein-coding genes began with an ATG start codon except for CO1, which started with the GTG. Open reading frame of H. quelpaertensis ended with TAA (ND2, CO1, ATPase 8, ATPase 6, ND3, and ND4L), TAG (ND1), AGA (ND6) or incomplete stop codons, TA (CO3, ND5, and CytB) or T (CO2 and ND4). The origin of L-strand replication in H. quelpaertensis was located in a cluster of five tRNA genes (WANCY) and was 36 nucleotides in length. A major noncoding region between the tRNA-Pro and tRNA-Phe genes (806 bp) was considered to be the control region. Within this sequence, we identified a conserved sequence block characteristic of this
region. According to the maximum likelihood analyses, the Jeju salamander was grouped with H. leechii, which showed a 100% bootstrap support for their divergence. However, the homologous identity of 13 protein-coding genes ranged from 89 to 93%. These findings are useful for inferring the biogeographic and phylogenetic studies within the Hynobiidae family, and in particular, the Hynobius species in Korea.
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KEYWORD
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mitochondrial genome, Jeju salamander, Hynobius quelpaertensis, WANCY, maximum likelihood, Hynobiidae
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