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Using Ion Torrent next-generation sequencing (NGS) technology, we sequenced the complete mitochondrial genome (mitogenome) of black and reddish morphs of the coral troutPlectropomus leopardus. High-throughput sequencing generated a total of 958,614 sequence reads covering 164.80 Mb of two mitogenomes with a coverage of 4800X. Thirty-seven mitochondrial genes and gene order ofP. leoparduswas quite similar to that of other teleostean fishes. Most genes were either abutted or overlapped, and all the protein-coding genes began with an ATG start codon except for COX1 and ATP6. The number of stop codon was different for the black and reddishP. leopardus. Comparisons between the mitochondrial sequences of the two morphs revealed a total of 74 variable sites and one indel. Nucleotide diversity across protein-coding gene varied from 0.0006 (16s rRNA) to 0.0070 (Cytochrome b). As expected, the highest level of nucleotide diversity (0.0291) was detected in the control region. Our results demonstrate the NGS technology based on Ion torrent platform can be used to assemble the mitogenome of fish species. [ABSTRACT FROM AUTHOR]

The mitochondrial genome of skipjack tuna,Katsuwonus pelamis, was obtained by using HiSeq next-generation sequencing technique. The circular mitogenome is 16,515 bp in length, with the gene number and arrangement being similar to those observed in other teleost fish. Overall base composition is A 28.49%, T 24.58%, C 30.27% and G 16.66%, respectively. Among 13 protein-coding genes, seven of which share the complete stop codon TAA while others terminate with TA or T, all these genes use ATG as start codon except forCOI. [ABSTRACT FROM AUTHOR]

We firstly reported the complete mitochondrial genome (mitogenome) of the polychaeteTylorrhynchus heterochaetus. Illumina next-generation sequencing generated a total of 19,796 reads with an average depth of 122.91×. The mitogenome is 16,106 bp in length including the typical structure of 13 protein coding genes, two rRNA genes, 22 tRNA genes and a putative control region. However,T. heterochaetusdiffers from other Nereididae species in the positions of four genes (tRNA-Met, tRNA-Asp, ATP8, tRNA-Tyr). All 37 genes are encoded on the heavy strand whose nucleotide composition is 32.20 % A, 13.67% C, 21.33% G and 32.80% T. [ABSTRACT FROM AUTHOR]

Previously morphological studies supported the division of the bullet tuna into the two subspecies,Auxis rochei rocheiandA. rochei eudorax. As a cosmopolitan species,A. rochei rocheiranges in the Indo-West Pacific and Atlantic oceans, whileA. rochei eudoraxinhabits in eastern Pacific region. Here, we used the HiSeq next-generation sequencing technique to determine the mitochondrial genome (mitogenome) ofA. rocheifrom Indo-West Pacific collection,and then compared our data with mitogenomic sequences of the Atlantic and eastern Pacific retrieved from NCBI database. Results showed the mitogenome ofA. rocheifrom three geographic collections shared the same genes and gene order, similar to typical teleosts. Also, we examined a low level of nucleotide diversity among these mitogenomic sequences. Interestingly, nucleotide diversity of intra-subspecies (Atlantic versus Indo-West) was higher than that of inter-subspecies (Atlantic versus eastern Pacific, Indo-West versus eastern Pacific). [ABSTRACT FROM AUTHOR]

The study determined the complete mitochondrial genome (mitogenome) of the polychaete,Goniada japonica, which was first reported in the family of Goniadidae. A total of 7162 reads were generated by Illumina HiSeq2500 platform (Illumina Inc., San Diego, CA) with an average depth of 58.41×. The mitogenome ofG. japonicawas 15,327 bp in size and consists of 37 typical genes (13 protein-coding genes, 2 rRNA genes and 22 tRNA genes) and a putative control region. All the 37 genes were encoded on the heavy strand whose nucleotide compositions were 35.08% of A, 33.69% of T, 11.66% of G, and 19.57% of C, showing a lower content of G + C (31.23%). The gene order of 15 major coding genes was identical to that of the Nereididae species. Phylogenetic analysis showed thatG. japonicahas a closer relationship withTylorrhynchus heterochaetusof Nereididae. [ABSTRACT FROM AUTHOR]

The present study represents the first report on the complete mitochondrial genome (mitogenome) of the kawakawa tunaEuthynnus affinis. Illumina next-generation sequencing generated a total of 38,428 reads with an average sequencing depth of 232.83×. The mitogenome ofE. affiniswas 16,513 bp in length and contains 13 protein-coding genes, 2 rRNA genes, 22 tRNA genes and a 849 bp control region, as found in other typical teleosts. With the exception of ND6 and eight tRNA genes, all other mitochondrial genes were encoded on the heavy strand, whose nucleotide composition is 28.11% A, 24.77% T, 17.16% G and 29.96% C. All the protein-coding genes shared the start codon ATG except for COXI gene (start with GTG), and appeared to be terminated with four types of stop codons including two complete codons (TAA and TAG) and two incomplete codons (T and TA). [ABSTRACT FROM PUBLISHER]

Recently, the next-generation sequencing (NGS) technology has become a powerful tool for sequencing the teleost mitochondrial genome (mitogenome). Here, we used this technology to determine the mitogenome of the yellowfin tuna (Thunnus albacares). A total of 41,378 reads were generated by Illumina platform with an average depth of 250×. The mitogenome (16,528 bp in length) contained 37 mitochondrial genes with the similar gene order to other typical teleosts. These mitochondrial genes were encoded on the heavy strand except for ND6 and eight tRNA genes. The result of phylogenetic analysis supported two distinct clades dividing the genusThunnus, but the tuna species of these two genetic clades were different from that of two recognized subgenus based on anatomical characters and geographical distribution. Our results might help to understand the structure, function, and evolutionary history of the yellowfin tuna mitogenome and also provide valuable new insights for phylogenetic affinity of tuna species. [ABSTRACT FROM PUBLISHER]