Mitochondrial DNA Part B Resources ISSN: (Print) 2380-2359 (Online) Journal homepage: http://www.tandfonline.com/loi/tmdn20 Complete mitochondrial genome of Leptodius sanguineus (Decapoda, Xanthidae) Jin-Mo Sung, JeaHyun Lee, Seong-Geun Kim, Mustafa Zafer Karagozlu & Chang-Bae Kim To cite this article: Jin-Mo Sung, JeaHyun Lee, Seong-Geun Kim, Mustafa Zafer Karagozlu & Chang-Bae Kim (2016) Complete mitochondrial genome of Leptodius sanguineus (Decapoda, Xanthidae), Mitochondrial DNA Part B, 1:1, 500-501, DOI: 10.1080/23802359.2016.1192505 To link to this article: https://doi.org/10.1080/23802359.2016.1192505 © 2016 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group. Published online: 12 Jul 2016. Submit your article to this journal Article views: 141 View related articles View Crossmark data Citing articles: 1 View citing articles Full Terms & Conditions of access and use can be found at http://www.tandfonline.com/action/journalInformation?journalCode=tmdn20 Download by: [168.151.112.112] Date: 01 December 2017, At: 17:33 MITOCHONDRIAL DNA PART B: RESOURCES, 2016 VOL. 1, NO. 1, 500–501 http://dx.doi.org/10.1080/23802359.2016.1192505 MITOGENOME ANNOUNCEMENT Complete mitochondrial genome of Leptodius sanguineus (Decapoda, Xanthidae) Jin-Mo Sunga, JeaHyun Leeb, Seong-Geun Kima, Mustafa Zafer Karagozlua and Chang-Bae Kima Department of Life Science, Sangmyung University, Seoul, Korea; bBionics Co, Ltd, Seoul, Korea Downloaded by [168.151.112.112] at 17:33 01 December 2017 a ABSTRACT ARTICLE HISTORY The complete mitochondrial genome sequenced from a xanthid crab, Leptodius sanguineus which was collected from a rocky intertidal area in Chuuk lagoon. The mitochondrial genome size of L. sanguineus evaluated as 15,480 bp with 33.6% A, 24% C, 11.2% G and 31.2% T and mitochondrial gene order of L. sanguineus is typical to brachyuran species. Phylogenetic analysis shows that the family Xanthidae has sister group relationship with a lineage including the families Portunidae and Menippidae in the subsection Heterotremata. This is the first report for the complete mitochondrial genome from the xanthid crabs. Received 4 May 2016 Accepted 18 May 2016 Xanthidae is one of the largest crab family which includes 572 species in 133 genera (De Grave et al. 2009). In spite of the species richness, there is no record of the complete mitochondrial genome from the family Xanthidae. In this study, we 100 100 100 KEYWORDS Arthropoda; complete mitochondrial genome; decapoda; Leptodius sanguineus; xanthidae evaluate the complete mitochondrial genome of Leptodius sanguineus. The species have been collected from the rocky intertidal zone of Weno Island, Chook Lagoon, Federated States of KR153996_Portunus pelagicus AB093006_Portunus trituberculatus KR818860_Portunus sanguinolentus 100 AY363392_Callinectes sapidus KF386147_Charybdis feriata 100 Portunidae 100 FJ460517_Charybdis japonica FJ827760_Scylla olivacea FJ827761_Scylla paramamosain 100 94 100 96 FJ827761_Scylla paramamosain FJ827759_Scylla tranquebarica LK391943_Myomenippe fornasinii Menippidae 98 AY562127_Pseudocarcinus gigas Leptodius sanguineus Xanthidae KT896743_Ocypode cordimanus Thoracotremata 100 KC878511_Pachygrapsus crassipes 0.02 Figure 1. Phylogenetic relationships of L. sanguineus in the subsection Heterotremata due to amino acid sequences of all protein-coding genes. Purified libraries were profiled using the bioanalyzer (Agilent, CA, USA) and sequenced with the Illumina MiSeq platform to yield 300 bp paired end reads. Mitochondrial genes were assembled and annotated by MITObim software (Hull, UK) (Hahn et al. 2013) and MITOS web server (Leipzig, Germany) (Bernt et al. 2013) and the annotation of mitochondrial genome sequences was refined using Geneious software version 9.1.3 ((Geneious, Auckland, New Zealand), Kearse et al. 2012). The phylogeny of L. sanguineus was reconstructed with maximum-likelihood statistical method by Mega 7 software verwsion 7.0.14 (MEGA, PA, USA) (Kumar et al. 2016). mtREV with Freqs (þF) model used for amino acid substitution and bootstrap method replicated 1000 times for the statistical test of branches of phylogeny. Complete mitogenomes were retrieved from the GenBank to reconstruction of the phylogenetic tree of the Heterotomata. Two species belong to the subsection Thoracotremata chosen as outgroup. CONTACT Chang-Bae Kim evodevo@smu.ac.kr Department of Life Science, Sangmyung University, Seoul 110-743, Korea ß 2016 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, distribution, and reproduction in any medium, provided the original work is properly cited. Downloaded by [168.151.112.112] at 17:33 01 December 2017 MITOCHONDRIAL DNA PART B: RESOURCES Micronesia (7 270 4800 N, 151 520 3900 E) on 26 February 2015 and preserved in 97% ethanol and the specimen deposited in the Marine Biodiversity Institute of Korea (MABIK CR00 235263). Mitochondrial genome length of L. sanguineus is 15,480 bp (GenBank accession number KT896744). The mitochondrial genome is composed of 13 protein coding genes (PCGs), 2 ribosomal RNA genes and 22 tRNA genes, and mitochondrial gene order of L. sanguineus is typical to brachyuran species (Tan et al. 2014). There are eight overlapping regions with 1–7 bp in length. The genome has 13 intergenic sequences varying from 1 to 47 bp in length. The largest intergenic sequence is located between NAD5 and NAD4. The lengths of 12S rRNA and 16S rRNA are 829 and 1336 bp. Protein-coding genes use three initiation codons (ATG, AAT and ATT). There are three termination codons (TAA, TAG and T––). The nucleotide distribution of the mitochondrial genome is 33.6% A, 24% C, 11.2% G and 31.2% T. There is a putative control region which is 594 bp between 12S rRNA and t-RNA-Ile. There are several common microsatellites in a putative control region such as TATATA, ATATAT and AAATAA. The most common motif is TA–, which is seen 192 times in the putative control region. The phylogenetic study showed that L. sanguineus positioned in the family Xanthidae and it has sister group relationship with a lineage including the families Portunidae and Menippidae in the subsection Heterotremata (Figure 1). Similar results showed previously by the combination of the six nuclear genes- and two mitochondrial genes-based molecular studies (Tsang et al. 2014). This is the first report for L. sanguineus complete mitochondrion sequence information. This mitochondrial genome gives genetic markers for phylogenetics of the xanthid crabs which will be a part of mitochondrial genome library to provide evolutionary and systematic studies. 501 Acknowledgements We are thankful to the Department of Marine Resources, State of Chuuk, Federated States of Micronesia, for allowing marine organism research. Disclosure statement The authors report no conflict of interest. Funding information This research was a part of the project titled ‘Development of overseas marine bioresources and a system for their utilization’, funded by the Ministry of Oceans and Fisheries, Korea (Grant PM 59120). 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