The complete mitochondrial genome of Oncorhynchus masou formosanus (Salmoniformes: Salmonidae) and phylogenetic studies
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TECHNICAL NOTE
The complete mitochondrial genome of Oncorhynchus masou formosanus (Salmoniformes: Salmonidae) and phylogenetic studies of Salmoninae Li Gong1,2 · Li‑Qin Liu1 · Bao‑Ying Guo1 · Ying‑Ying Ye1 · Zhen‑Ming Lü1,2
Received: 30 November 2016 / Accepted: 27 December 2016 © Springer Science+Business Media Dordrecht 2017
Abstract The Formosan landlocked salmon (Oncorhynchus masou formosanus) is at a high risk of extinction and listed as critically endangered species due to the declines in its abundance, overfishing, altered native habitats and its narrow range distribution. Here, we described the complete mitogenome of O. masou formosanus, which is 16,648 bp in length, containing 13 protein-coding genes, two rRNA genes, 22 tRNA genes, a putative control region (CR) and one origin of replication on the light-strand (OL). The overall base composition is 28.6% A, 26.8% T, 28.1% C and16.4% G, respectively. All the protein-coding genes use the initiation codon ATG except COI uses GTG. Most of them have TAA or TAG as the stop codon, except COII, ND3, ND4 and Cyt b use an incomplete stop codon T. A phylogenetic tree involving all the Salmoninae species available was constructed to provide relationship within Salmoninae and further conservation strategies for this species. Keywords Formosan landlocked salmon · Mitogenome · Conservation genetics · Phylogeny The Formosan landlocked salmon (Oncorhynchus masou formosanus) is an endangered and endemic glacial relict * Zhen‑Ming Lü [email protected] 1
National Engineering Laboratory of Marine Germplasm Resources Exploration and Utilization, Zhejiang Ocean University, No. 1, South Haida Road, Dinghai District, Zhoushan, Zhejiang 316022, China
2
National Engineering Research Center for Facilitated Marine Aquaculture, Marine Science and Technology College, Zhejiang Ocean University, Zhoushan 316022, China
species, and its distribution is limited to the upper streams of the Tachia River in Taiwan (Gwo et al. 1999; Tsao et al. 1998). This species was once widely distributed in all 6 tributaries of the Tachia River including Chichiawan, Kaoshan, Yousheng, Nanhu, Sakaran, and Hohuan Streams before the rapid development of agriculture in these areas about 60 years ago (Tsao et al. 1998). Due to the declines in its abundance, overfishing, altered native habitats and its narrow range distribution, the World Conservation Union (IUCN) listed the species as critically endangered in 1996 (Kottelat 1996). At present the sustained maintenance of this population mainly depends on stocked fish originating from aquaculture systems. In order to provide conservation and restoration strategies for this species, molecular information, mitochondrial DNA, for instance, has proven to be an effective geneticmarker for such purposes. In the present study, we described the complete mitochondrial genome of O. masou formosanus and explored the phylogenetic relationship among all Salmoninae species (12 species in total) available in GenBank complete mitochondrial genomic database, contribu
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