The complete chloroplast genome of the Taiwan red pine Pinus taiwanensis (Pinaceae)

Abstract

The complete nucleotide sequence of the Taiwan red pine Pinus taiwanensis Hayata chloroplast genome (cpDNA) is determined in this study. The genome is composed of 119,741 bp in length, containing a pair of very short inverted repeat (IRa and IRb) regions of 495 bp, which was divided by a large single-copy (LSC) region of 65,670 bp and a small single-copy (SSC) region of 53,080 bp in length. The cpDNA contained 115 genes, including 74 protein-coding genes (73 PCG species), 4 ribosomal RNA genes (four rRNA species) and 37 tRNA genes (22 tRNA species). Out of these genes, 12 harbored a single intron, and one (rps12) contained a couple of introns. The overall AT content of the Taiwan red pine cpDNA is 61.5%, while the corresponding values of the LSC, SSC and IR regions are 62.2%, 60.6% and 63.6%, respectively. A maximum parsimony phylogenetic analysis suggested that the genus Pinus, Picea, Abies and Larix were strongly supported as monophyletic, and the cpDNA of P. taiwanensis is closely related to that of P. thunbergii.

• Chloroplast genome
• Illumina sequencing
• Pinus taiwanensis
• phylogeny

Declaration of interest

This study was partially supported by the National Natural Science Foundation of China (41101058), the Specialized Research Fund for the Doctoral Program of Higher Education (20126101120021), the Natural Science Basic Research Plan in Shaanxi Province of China (2014JQ3084), the Scientific Research Program Funded by Shaanxi Provincial Education Department (2013JK0713), the Open Foundation of Key Laboratory of Resource Biology and Biotechnology in Western China (Ministry of Education) (ZS14008) and the Scientific Research Funds (12NW18) in Northwest University.

The authors report no conflicts of interest. The authors alone are responsible for the content and writing of the paper.