Characterization of the complete chloroplast genome sequence of Firmiana pulcherrima (Malvaceae)
- PDF / 1,592,099 Bytes
- 4 Pages / 595.276 x 790.866 pts Page_size
- 107 Downloads / 186 Views
TECHNICAL NOTE
Characterization of the complete chloroplast genome sequence of Firmiana pulcherrima (Malvaceae) Jian‑Hua Wang1 · Ya‑Cheng Cai2 · Kun‑Kun Zhao1 · Zhi‑Xin Zhu1 · Ren‑Chao Zhou2 · Hua‑Feng Wang1
Received: 2 August 2017 / Accepted: 11 August 2017 © Springer Science+Business Media B.V. 2017
Abstract Firmiana pulcherrima, a deciduous tree belonging to Malvaceae, is distributed in forests and stream valleys of eastern Hainan in China. Being extremely rare, it was ranked as a CR (Critically Endangered) species in China (Ministry of Environmental Protection of the Peoples Republic of China and Chinese Academy of Sciences, 2013). In this study, we reported its complete chloroplast (cp) genome sequence based on high throughput sequencing data. The complete cp genome was 159,556 bp in length, containing a pair of inverted repeat region (IRs) of 25,576 bp, a large single copy (LSC) region of 88,444 bp and a small single copy (SSC) region of 19,960 bp. The cp genome contained 125 genes, consisting of 82 protein-coding genes, 35 tRNA genes and 8 rRNA genes. Among these genes, 14 genes had a single intron and one gene had 2 introns. The majority of gene species occurred as a single copy. The overall AT content in the cp genome of F. pulcherrima was 62.9%. A maximum likelihood (ML) phylogenetic analysis demonstrated a close relationship between F. pulcherrima and Theobroma cacao. Keywords Firmiana pulcherrima · Chloroplast genome · Illumina sequencing · Phylogenetic analysis
* Hua‑Feng Wang [email protected] 1
Hainan Key Laboratory for Sustainable Utilization of Tropical Bioresources, Institute of Tropical Agriculture and Forestry, Hainan University, Haikou 570228, China
State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou 510275, China
2
Introduction Firmiana pulcherrima, a deciduous tree in the Malvaceae family, is distributed in forests and stream valleys of eastern Hainan in China (Tang et al. 2011). Being extremely rare, F. pulcherrima was ranked as a CR (Critically Endangered) species in China (Ministry of Environmental Protection of the Peoples Republic of China and Chinese Academy of China 2013). Scientific conservation and restoration of this species are urgently needed. An improved understanding of its genomics information would be definitely fundamental to formulate a comprehensive conservation strategy. Here, we presented the complete chloroplast genome of F. pulcherrima (GenBank: MF621982) based on the Illumina pairedend sequencing data. An individual of F. pulcherrima was sampled from Diaoluo Mountain (Hainan, China; 109.88° E, 18.67° N). Total genomic DNA was extracted from silica gel-dried leaves with the modified CTAB method (Doyle and Doyle 1987). Voucher specimen was deposited in the Institute of Tropical Agriculture and Forestry, Hainan University, Haikou 570228, China. The whole-genome short-gun sequencing was performed with the 150 bp paired-end sequencing method on th
Data Loading...
