The complete mitochondrial genome of the southern two-lined salamander, Eurycea cirrigera (Caudata: Plethodontidae)
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TECHNICAL NOTE
The complete mitochondrial genome of the southern two-lined salamander, Eurycea cirrigera (Caudata: Plethodontidae) Yi‑Xin Yang1 · Li‑Qiang Zhi2 Received: 2 January 2018 / Accepted: 15 January 2018 © Springer Science+Business Media B.V., part of Springer Nature 2018
Abstract Eurycea cirrigera: (Plethodontidae) is an endangered and endemic species in the United States. In this study, the complete mitochondrial genome (mitogenome) of E. cirrigera was determined by using next generation sequencing. A good knowledge of genomics could facilitate to the establishments of effective management and conservation strategies for this species. In the present study, the complete mitogenome sequence of E. cirrigera was determined from whole genome Illumina sequencing data. The mitochondrial DNA (mtDNA) of E. cirrigera was 17,348 bp in size, and contains 13 protein-coding genes (PCGs), two ribosomal RNAs (rRNAs), 22 transfer RNAs (tRNAs) and one non-coding control (D-loop) region. The base compositions of the mtDNA comprised A (32.9%), C (22.8%), G (13.7%) and T (30.6%), with a total of A + T content of 63.5%. The phylogenetic analyses suggested that E. cirrigera and E. bislineata were monophyletic with high bootstrap value. Keywords Illumina sequencing · Eurycea cirrigera · Mitochondrial genome · Phylogenetic relationship The southern two-lined salamander (Eurycea cirrigera) belongs to the family Plethodontidae inhabiting temperate forests and freshwater springs, which is endemic to the United States (Sever 1989). This family has received significant attention for evolutionary biologists who focus on the patterns and mechanisms associated with diversification and radiation (e.g., Kozak and Wiens 2010; Vieites et al. 2007; Wake 2006; Wray and Steppan 2017). However, previous studies have suggested an underestimation of species richness existed within the genus Eurycea (e.g., several Eurycea species complexes have deep divergence lineages and at least some of which represent undescribed species, Kozak et al. 2006; Wray et al. 2017), which may hinder studies of their population genetics and phylogenetics. In addition, although E. cirrigera has been listed on the IUCN Red List as least concern (LC) species, its abundance has decreased largely in last decades due to the effects of environmental and anthropogenic factors such as urbanization and habitat fragmentation (Barrett and Price 2014; Clipp and Anderson 2014; * Li‑Qiang Zhi [email protected] 1
Medical Experiment Center, Shaanxi University of Chinese Medicine, Xianyang, China
Department of Joint Surgery, Honghui Hospital, Xi’an Jiaotong University, Xi’an 710054, China
2
Price et al. 2011). To facilitate the studies of species delimitation and phylogenetic relationships within this genus, as well as to formulate potential new conservation strategies for this species, its complete mitochondrial genome has been assembled from whole-genome Illumina Miseq sequencing data (Lance et al. 2013). The annotated complete mitochondrial genome has been deposite
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