PJB-2018-1776
Complete chloroplast genome of a valuable economic tree, Lindera glauca (Lauraceae) and comparison with its congeners
Biao Xiong, Limei Zhang, Lei Xie, Shubin Dong and Zhixiang Zhang
Abstract
Lindera glauca (Lauraceae), widely distributed in the subtropical region, is a tree of economic and ecological significance. Its fruits are rich in oil and wild resources are abundant. Here, we assembled the complete chloroplast genome sequence of Lindera glauca and compared it to chloroplast genomes of seven other species in Lauraceae. Cleaned reads from paired-end Illumina sequencing were mapped to a published plastome (Litsea glutinosa) and mapped onto the chloroplast genome of L. glauca using the BLAT and Geneious programs successively. The complete chloroplast genome size was 152,780 bp with 39.16% GC content, containing a pair of inverted repeats of 20,059 bp, which were separated by a large and a small single copy region of 93,809 bp and 18,853 bp, respectively. The genome encoded 125 genes, including 81 protein-coding, 36 transfer RNA, and 8 ribosomal RNA genes. In addition, 67 microsatellite sites were found, and 5 primer pairs were developed that were polymorphic in 90 L. glauca individuals. Phylogenetic analysis based on whole chloroplast sequences demonstrated that L. glauca was closely related to Litsea glutinosa, and Cinnamomum micranthum was sister to the rest of the species sampled. The complete chloroplast genome presented here is the first for L. glauca is and is the first in the genus Lindera. These results have the potential to be a valuable genome resource for further studies of the phylogenetics, genetic variation, and population genetic structure of the important economic plant.
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