http://informahealthcare.com/mdn ISSN: 1940-1736 (print), 1940-1744 (electronic) Mitochondrial DNA, Early Online: 1–2 ! 2015 Informa UK Ltd. DOI: 10.3109/19401736.2015.1036253
MITOGENOME ANNOUNCEMENT
Complete mitochondrial genome of Lateolabrax maculatus Kai Liu, Jinrong Duan, Dongpo Xu, Yanfeng Zhou, Minying Zhang, Dian Fang, and Pao Xu
Mitochondrial DNA Downloaded from informahealthcare.com by Nyu Medical Center on 06/24/15 For personal use only.
Scientific Observing and Experimental Station of Fishery Resources and Environment in the Lower Reaches of Yangtze River, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi, China Abstract
Keywords
In this study, we sequence the complete mitochondrial genome of Lateolabrax maculatus. This mitochondrial genome is 16,597 bp in length, encoding 13 protein-coding genes, 2 ribosomal RNAs, 22 transfer RNAs and a non-coding control region as found in other vertebrates, with the gene synteny identical to those of typical vertebrates. Control region (D-Loop), of 929 bp in length, is located between tRNAPro and tRNAPhe. The overall base composition of the heavy strand shows T 25.9%, C 29.5%, A 27.3% and G 17.3%, with an AT bias of 53.2%.
Lateolabrax maculatus, mitochondrial genome, Serranidae
Chinese sea bass (Lateolabrax maculatus) is a commercially important mariculture species due to its nutrition value and delicacy. They are widely distributed in most of the coastal regions of China, especially rich in the Yellow Sea and Bohai sea, and also distributed along the Korean coast with the borders of Vietnam (Shao et al., 2009). Lateolabrax maculatus has been designated as a congeneric species of L. japonicus based on morphological traits, but it is recently re-described as a reef-associated fish species that is characterized by its distinctive characteristics including many clear black dots on the lateral body region (An et al., 2014; Yokogawa & Seki, 1995). Previous studies of Lateolabrax maculatus gave only the characterization of morphological data, and no molecular data were reported. In this study, the complete mitochondrial genome of L. maculates (GenBank accession no.: KP408212) is determined for the first time. The complete mitochondrial genome of L. maculatus (16,597 bp in length) consists of 13 protein-coding genes, 22
History Received 8 February 2015 Accepted 28 March 2015 Published online 15 June 2015
tRNA genes, 2 rRNA genes, and a control region (CR). Most of the genes are encoded on the heavy strand (H-strand), except one protein-coding gene (NAD 6) and two tRNA genes (tRNAGln and -Glu) encoded on the L-strand. The overall base composition values for the H-strand are 25.9.4% T, 29.5% C, 27.3% A and 17.3% G, with a slight A + T bias of 53.2%. Except for COX 1 starts with CTG, the remaining 12 protein-coding genes start with ATG. Within stop codons of 13 protein-coding genes, three types of codons were found in L. maculatus: TAA (COX 1, NAD 2, ATPase 8, ATPase 6, COX 3, ND4L, NAD6); TAG (NAD1, NAD3, NAD5) and an incomplete stop codon T (COX 2, NAD4, Cyt b). This feature is common among invertebrate mitochondrial protein-coding genes, and these incomplete stop codons are presumably completed as TAA via post-transcriptional poly-adenylation (Ojala et al., 1981). The two ribosomal RNA genes, 12S rRNA (949 bp) and 16S rRNA (1699 bp), are located between tRNAPhe and
Figure 1. Phylogenetic tree (Tamura-Nei model; 1000 replications) based on mitochondrial genome of L. maculatus and several other species of Percoidea; Siniperca scherzeri (gi 675821192), Siniperca obscura (gi 477541029), Siniperca undulata (gi 576098198), Emmelichthys struhsakeri (gi 25006082), Kyphosus cinerascens (gi 256353319), Histiopterus typus (gi 339759431), Pseudopentaceros richardsoni (gi 429325193), Pentaceros japonicus (gi 520958141), Pseudopentaceros wheeleri (gi 499534981) and Lateolabrax japonicus (gi 676254315).
Correspondence: Pao Xu, Scientific Observing and Experimental Station of Fishery Resources and Environment in the Lower Reaches of Yangtze River, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, China. Tel: +86-510-85557959. Fax: +86-51085390026. E-mail: [email protected]
Mitochondrial DNA Downloaded from informahealthcare.com by Nyu Medical Center on 06/24/15 For personal use only.
2
K. Liu et al.
tRNALeu and separated by tRNAVal gene. As in vertebrates (Chang et al., 2014; Li et al., 2014; Zhou et al., 2015), L. maculatus has a non-coding region (929 bp in length) within its mitogenome located between tRNAPro and tRNAPhe. A neighbour-joining tree based on 11 sequences of the mitochondrial genome downloaded from the NCBI (http:// www.ncbi.nlm.nih.gov/) was constructed using MEGA 5.0 software to clarify the phylogenetic relationships of C. yatsui within the genus Cryptocentrus (Figure 1). The result shows that L. maculatus is rooted with the other Percoidea species and has a distant relationship with other species. Lateolabrax maculatus is recently re-described as a reef-associated fish species with L. japonicus that is characterized by its distinctive characteristics including many clear black dots on the lateral body region. In this study, the complete mitochondrial genome of L. maculatus was proved indeed mostly closed to that of L. japonicus, this provide a new evidence for it is a reef-associated fish species with L. japonicus.
Declaration of interest The authors report no conflicts of interest. The authors alone are responsible for the content and writing of the paper. This work was supported by a grant from the National Infrastructure of Fishery Germplasm Resources (2015DKA30470).
Mitochondrial DNA, Early Online: 1–2
References An HS, Kim HY, Kim JB, Chang DS, Park KD, Lee JW, Myeong JI, An CM. (2014). Genetic characterization of hatchery populations of Korean spotted sea bass (Lateolabrax maculatus) using multiplex polymerase chain reaction assays. Genet Mol Res 13: 6701–15. Chang CH, Jabado RW, Lin YS, Shao KT. (2014). The complete mitochondrial genome of the sand tiger shark, Carcharias taurus (Chondrichthyes, Odontaspididae). Mitochondrial DNA. [Epub ahead of print]. DOI: 10.3109/19401736.2013.845761. Li Q, Xu R, Shu H, Chen Q, Huang J. (2014). The complete mitochondrial genome of the Zig-zag eel Mastacembelus armatus (Teleostei, Mastacembelidae). Mitochondrial DNA. [Epub ahead of print]. DOI: 10.3109/19401736.2014.892102. Ojala D, Montoya J, Attardi G. (1981). tRNA punctuation model of RNA processing in human mitochondria. Nature 290:470–4. Shao C, Chen S, Xu G, Liao X, Tian Y. (2009). Eighteen novel microsatellite markers for the Chinese sea perch, Lateolabrax maculatus. Conserv Genet 10:623–5. Yokogawa K, Seki S. (1995). Morphological and genetic differences between Japanese and Chinese sea bass of the genus Lateolabrax. Japan J Ichthyol 41:437–45. Zhou C, Wang X, Guan L, He S. (2015). The complete mitochondrial genome of Clarias fuscus (Teleostei, Siluriformes: Clariidae). Mitochondrial DNA 26:270–1.
MITOGENOME ANNOUNCEMENT
Complete mitochondrial genome of Lateolabrax maculatus Kai Liu, Jinrong Duan, Dongpo Xu, Yanfeng Zhou, Minying Zhang, Dian Fang, and Pao Xu
Mitochondrial DNA Downloaded from informahealthcare.com by Nyu Medical Center on 06/24/15 For personal use only.
Scientific Observing and Experimental Station of Fishery Resources and Environment in the Lower Reaches of Yangtze River, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi, China Abstract
Keywords
In this study, we sequence the complete mitochondrial genome of Lateolabrax maculatus. This mitochondrial genome is 16,597 bp in length, encoding 13 protein-coding genes, 2 ribosomal RNAs, 22 transfer RNAs and a non-coding control region as found in other vertebrates, with the gene synteny identical to those of typical vertebrates. Control region (D-Loop), of 929 bp in length, is located between tRNAPro and tRNAPhe. The overall base composition of the heavy strand shows T 25.9%, C 29.5%, A 27.3% and G 17.3%, with an AT bias of 53.2%.
Lateolabrax maculatus, mitochondrial genome, Serranidae
Chinese sea bass (Lateolabrax maculatus) is a commercially important mariculture species due to its nutrition value and delicacy. They are widely distributed in most of the coastal regions of China, especially rich in the Yellow Sea and Bohai sea, and also distributed along the Korean coast with the borders of Vietnam (Shao et al., 2009). Lateolabrax maculatus has been designated as a congeneric species of L. japonicus based on morphological traits, but it is recently re-described as a reef-associated fish species that is characterized by its distinctive characteristics including many clear black dots on the lateral body region (An et al., 2014; Yokogawa & Seki, 1995). Previous studies of Lateolabrax maculatus gave only the characterization of morphological data, and no molecular data were reported. In this study, the complete mitochondrial genome of L. maculates (GenBank accession no.: KP408212) is determined for the first time. The complete mitochondrial genome of L. maculatus (16,597 bp in length) consists of 13 protein-coding genes, 22
History Received 8 February 2015 Accepted 28 March 2015 Published online 15 June 2015
tRNA genes, 2 rRNA genes, and a control region (CR). Most of the genes are encoded on the heavy strand (H-strand), except one protein-coding gene (NAD 6) and two tRNA genes (tRNAGln and -Glu) encoded on the L-strand. The overall base composition values for the H-strand are 25.9.4% T, 29.5% C, 27.3% A and 17.3% G, with a slight A + T bias of 53.2%. Except for COX 1 starts with CTG, the remaining 12 protein-coding genes start with ATG. Within stop codons of 13 protein-coding genes, three types of codons were found in L. maculatus: TAA (COX 1, NAD 2, ATPase 8, ATPase 6, COX 3, ND4L, NAD6); TAG (NAD1, NAD3, NAD5) and an incomplete stop codon T (COX 2, NAD4, Cyt b). This feature is common among invertebrate mitochondrial protein-coding genes, and these incomplete stop codons are presumably completed as TAA via post-transcriptional poly-adenylation (Ojala et al., 1981). The two ribosomal RNA genes, 12S rRNA (949 bp) and 16S rRNA (1699 bp), are located between tRNAPhe and
Figure 1. Phylogenetic tree (Tamura-Nei model; 1000 replications) based on mitochondrial genome of L. maculatus and several other species of Percoidea; Siniperca scherzeri (gi 675821192), Siniperca obscura (gi 477541029), Siniperca undulata (gi 576098198), Emmelichthys struhsakeri (gi 25006082), Kyphosus cinerascens (gi 256353319), Histiopterus typus (gi 339759431), Pseudopentaceros richardsoni (gi 429325193), Pentaceros japonicus (gi 520958141), Pseudopentaceros wheeleri (gi 499534981) and Lateolabrax japonicus (gi 676254315).
Correspondence: Pao Xu, Scientific Observing and Experimental Station of Fishery Resources and Environment in the Lower Reaches of Yangtze River, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, China. Tel: +86-510-85557959. Fax: +86-51085390026. E-mail: [email protected]
Mitochondrial DNA Downloaded from informahealthcare.com by Nyu Medical Center on 06/24/15 For personal use only.
2
K. Liu et al.
tRNALeu and separated by tRNAVal gene. As in vertebrates (Chang et al., 2014; Li et al., 2014; Zhou et al., 2015), L. maculatus has a non-coding region (929 bp in length) within its mitogenome located between tRNAPro and tRNAPhe. A neighbour-joining tree based on 11 sequences of the mitochondrial genome downloaded from the NCBI (http:// www.ncbi.nlm.nih.gov/) was constructed using MEGA 5.0 software to clarify the phylogenetic relationships of C. yatsui within the genus Cryptocentrus (Figure 1). The result shows that L. maculatus is rooted with the other Percoidea species and has a distant relationship with other species. Lateolabrax maculatus is recently re-described as a reef-associated fish species with L. japonicus that is characterized by its distinctive characteristics including many clear black dots on the lateral body region. In this study, the complete mitochondrial genome of L. maculatus was proved indeed mostly closed to that of L. japonicus, this provide a new evidence for it is a reef-associated fish species with L. japonicus.
Declaration of interest The authors report no conflicts of interest. The authors alone are responsible for the content and writing of the paper. This work was supported by a grant from the National Infrastructure of Fishery Germplasm Resources (2015DKA30470).
Mitochondrial DNA, Early Online: 1–2
References An HS, Kim HY, Kim JB, Chang DS, Park KD, Lee JW, Myeong JI, An CM. (2014). Genetic characterization of hatchery populations of Korean spotted sea bass (Lateolabrax maculatus) using multiplex polymerase chain reaction assays. Genet Mol Res 13: 6701–15. Chang CH, Jabado RW, Lin YS, Shao KT. (2014). The complete mitochondrial genome of the sand tiger shark, Carcharias taurus (Chondrichthyes, Odontaspididae). Mitochondrial DNA. [Epub ahead of print]. DOI: 10.3109/19401736.2013.845761. Li Q, Xu R, Shu H, Chen Q, Huang J. (2014). The complete mitochondrial genome of the Zig-zag eel Mastacembelus armatus (Teleostei, Mastacembelidae). Mitochondrial DNA. [Epub ahead of print]. DOI: 10.3109/19401736.2014.892102. Ojala D, Montoya J, Attardi G. (1981). tRNA punctuation model of RNA processing in human mitochondria. Nature 290:470–4. Shao C, Chen S, Xu G, Liao X, Tian Y. (2009). Eighteen novel microsatellite markers for the Chinese sea perch, Lateolabrax maculatus. Conserv Genet 10:623–5. Yokogawa K, Seki S. (1995). Morphological and genetic differences between Japanese and Chinese sea bass of the genus Lateolabrax. Japan J Ichthyol 41:437–45. Zhou C, Wang X, Guan L, He S. (2015). The complete mitochondrial genome of Clarias fuscus (Teleostei, Siluriformes: Clariidae). Mitochondrial DNA 26:270–1.
