The Complete Mitochondrial Genome of Sardinella Lemuru (Clupeinae, Clupeidae, Clupeoidei) and Phylogenetic Studies of Clupeoidei

Mitochondrial DNA Part B Resources

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The complete mitochondrial genome of Sardinella lemuru (Clupeinae, Clupeidae, Clupeoidei) and phylogenetic studies of Clupeoidei

Hui Jiang, Li Gong, Liqin Liu, Bingjian Liu & Zhenming Lü

To cite this article: Hui Jiang, Li Gong, Liqin Liu, Bingjian Liu & Zhenming Lü (2018) The complete mitochondrial genome of Sardinella lemuru (Clupeinae, Clupeidae, Clupeoidei) and phylogenetic studies of Clupeoidei, Mitochondrial DNA Part B, 3:1, 50-52, DOI: 10.1080/23802359.2017.1419085 To link to this article: https://doi.org/10.1080/23802359.2017.1419085

Published online: 26 Dec 2017.

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Download by: [191.101.86.124] Date: 26 December 2017, At: 16:14 MITOCHONDRIAL DNA PART B: RESOURCES, 2018 VOL. 3, NO. 1, 50–52 https://doi.org/10.1080/23802359.2017.1419085

MITOGENOME ANNOUNCEMENT The complete mitochondrial genome of Sardinella lemuru (Clupeinae, Clupeidae, Clupeoidei) and phylogenetic studies of Clupeoidei

Hui Jiang, Li Gong, Liqin Liu, Bingjian Liu and Zhenming Lu€ National Engineering Research Center of Marine Facilities Aquaculture, College of Marine Science and Technology, Zhejiang Ocean University, Zhoushan, People’s Republic of China

ABSTRACT ARTICLE HISTORY The complete mitochondrial genome of Sardinella lemuru was sequenced using PCR amplification and Received 14 November 2017 primer walking sequence method. The complete mitochondrial genome of S. lemuru was 16,616 bp and Accepted 15 December 2017 contained 13 protein-coding genes, 22 transfer RNA genes, two ribosomal RNA genes, and one control KEYWORDS region (D-loop). The overall base composition was A 25.04%, C 29.36%, G 20.40%, T 25.20%. In this Sardinella lemuru; study, the gene arrangement was consistent with other Sardinella mitochondrial genomes. Additionally, mitogenome; phylogenetic the phylogenetic relationships of 23 Clupeoidei species based on the complete genome was analyzed, relationship and the result showed that S. lemuru firstly clustered with other two Sardinella species, S. albella and S. maderensis. These results would be useful for the investigation of phylogenetic relationship, taxo- nomic classification and phylogeography of the Clupeoidei.

Sardinella lemuru, belonging to Clupeinae, Clupeidae, arrangement and base content were similar with other tele- Clupeoidei, Clupeiformes (Whitehead 1985; Nelson 2006), is osts (Shi et al. 2014; Yu and Kwak 2015; Gong et al. 2017). an economically important species (Pedrosa-Gerasmio et al. Almost all the protein-coding genes were encoded by 2015). It is distributed in the coastal water of China and the H-strand with exception of ND6 and eight tRNAs (Gln, Ala, shallow sea of the western Pacific (Chen 2015). So far, the Asn, Cys, Tyr, Ser, Glu, Pro) genes located on L-strand. The complete mitochondrial genome (mitogenome) sequence of base composition was A 25.04%, C 29.36%, G 20.40%, T this species has not yet been reported. In order to provide 25.20%. AT and GC contents were 50.24% and 49.76%, useful genetic information for genetic diversity, phylogenetic respectively, with the GC content (49.76%) higher than those and taxology in future research, the complete mitochondrial found in most of the other Clupeoidei fishes (Bi and Chen genome of S. lemuru was determined (GenBank accession 2011; Li, Shi, et al. 2012; Li, Zou, et al. 2012; Bo et al. 2013; number MF536754). Wang et al. 2016; Zhang et al. 2016). Twelve protein-coding Sardinella lemuru was collected from Zhejiang Province in genes started with an ATG initiation codon, while COX1 used the East China Sea (2749'51”N; 12104'25”E) with accession GTG as an initiation codon. For the termination codon, six number 20160815SL26 and identified based on the morpho- protein-coding genes (ND1, COX1, ATP8, ATP6, COX3, ND4L) Downloaded by [191.101.86.124] at 16:14 26 December 2017 logic features and COI gene. Total genomic DNA was ended with TAA, four protein-coding genes (ND2, ND3, ND5, extracted from muscle tissue of individual using the phenol- ND6) with TAG, and COX2, ND4, CYTB with T. The 13 protein- chloroform method (Barnett and Larson 2012). The universal coding genes were 11,412 bp in length, accounting for primers (Ivanova et al. 2007) were designed according to the 68.68% of the complete mitogenome, which encodes 3798 conserved regions of the complete mitogenome sequences amino acids in total. The lengths of 12S rRNA located of 26 Clupeoidei species downloaded from GenBank. between tRNAPhe and tRNAVal and 16S rRNA located between Sequence alignment was conducted by BioEdit (Hall 1999). tRNAVal and tRNALeu were 957 bp and 1693 bp, respectively. The phylogenetic tree involving 23 Clupeoidei species was The control region, located between tRNAPro and tRNAPhe, constructed using the neighbor joining (NJ) methods based was 959 bp. on the 13 protein-coding genes (Figure 1). The NJ trees were The phylogenetic tree of S. lemuru and other 22 obtained with 10,000 bootstrap replications using MEGA5 Clupeoidei species was constructed using the neighbor join- (Tamura et al. 2011). ing (NJ) methods based on 13 protein-coding genes. The Whole mitogenome sequence of S. lemuru was 16,616 bp result showed that S. lemuru firstly clustered with other two in length, containing 13 protein-coding genes, 22 tRNA Sardinella species, S. albella and S. maderensis, suggesting a genes, two rRNA genes, and one control region. The gene very close relationship of these three species (Figure 1).

CONTACT Zhenming Lu€ [email protected] National Engineering Laboratory of Marine Germplasm Resources Exploration and Utilization, Marine Science and Technology College, Zhejiang Ocean University, No. 1, South Haida Road, Dinghai District, Zhoushan, Zhejiang 316022, People’s Republic of China ß 2017 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, dis- tribution, and reproduction in any medium, provided the original work is properly cited. MITOCHONDRIAL DNA PART B: RESOURCES 51

Figure 1. Neighbour-Joining tree of Clupeoidei based on the 13 protein-coding genes. The number at each node is the bootstrap probability. The number before the species name is the GenBank accession number. The dark spot indicates the species in this study.

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